-- dump date 20120504_142206 -- class Genbank::misc_feature -- table misc_feature_note -- id note 441772000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 441772000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 441772000003 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 441772000004 Walker A motif; other site 441772000005 ATP binding site [chemical binding]; other site 441772000006 Walker B motif; other site 441772000007 arginine finger; other site 441772000008 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 441772000009 DnaA box-binding interface [nucleotide binding]; other site 441772000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 441772000011 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 441772000012 putative DNA binding surface [nucleotide binding]; other site 441772000013 dimer interface [polypeptide binding]; other site 441772000014 beta-clamp/clamp loader binding surface; other site 441772000015 beta-clamp/translesion DNA polymerase binding surface; other site 441772000016 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; cl09940 441772000017 recombination protein F; Reviewed; Region: recF; PRK00064 441772000018 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 441772000019 Walker A/P-loop; other site 441772000020 ATP binding site [chemical binding]; other site 441772000021 Q-loop/lid; other site 441772000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772000023 ABC transporter signature motif; other site 441772000024 Walker B; other site 441772000025 D-loop; other site 441772000026 H-loop/switch region; other site 441772000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 441772000028 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; cl00075 441772000029 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 441772000030 anchoring element; other site 441772000031 dimer interface [polypeptide binding]; other site 441772000032 ATP binding site [chemical binding]; other site 441772000033 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 441772000034 active site 441772000035 putative metal-binding site [ion binding]; other site 441772000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 441772000037 DNA gyrase subunit A; Validated; Region: PRK05560 441772000038 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 in DNA...; Region: TOP4c; cd00187 441772000039 CAP-like domain; other site 441772000040 active site 441772000041 primary dimer interface [polypeptide binding]; other site 441772000042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000048 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 441772000049 Helix-turn-helix domains; Region: HTH; cl00088 441772000050 3H domain; Region: 3H; pfam02829 441772000051 Uncharacterized conserved protein [Function unknown]; Region: COG2006 441772000052 Domain of unknown function (DUF362); Region: DUF362; pfam04015 441772000053 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772000054 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 441772000055 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 441772000056 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 441772000057 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 441772000058 Predicted dehydrogenase [General function prediction only]; Region: COG0579 441772000059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772000060 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 441772000061 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 441772000062 seryl-tRNA synthetase; Provisional; Region: PRK05431 441772000063 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 441772000064 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 bound...; Region: SerRS_core; cd00770 441772000065 dimer interface [polypeptide binding]; other site 441772000066 active site 441772000067 motif 1; other site 441772000068 motif 2; other site 441772000069 motif 3; other site 441772000070 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 441772000071 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 441772000072 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 441772000073 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 441772000074 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 441772000075 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772000076 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 441772000077 Walker A motif; other site 441772000078 ATP binding site [chemical binding]; other site 441772000079 Walker B motif; other site 441772000080 arginine finger; other site 441772000081 methionine gamma-lyase; Provisional; Region: PRK06234 441772000082 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 441772000083 homodimer interface [polypeptide binding]; other site 441772000084 substrate-cofactor binding pocket; other site 441772000085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772000086 catalytic residue [active] 441772000087 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 441772000088 nucleoside/Zn binding site; other site 441772000089 dimer interface [polypeptide binding]; other site 441772000090 catalytic motif [active] 441772000091 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 441772000092 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 441772000093 Walker A motif; other site 441772000094 ATP binding site [chemical binding]; other site 441772000095 Walker B motif; other site 441772000096 arginine finger; other site 441772000097 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 441772000098 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 441772000099 recombination protein RecR; Reviewed; Region: recR; PRK00076 441772000100 RecR protein; Region: RecR; pfam02132 441772000101 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 441772000102 putative active site [active] 441772000103 putative metal-binding site [ion binding]; other site 441772000104 tetramer interface [polypeptide binding]; other site 441772000105 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 441772000106 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 441772000107 Sugar fermentation stimulation protein; Region: SfsA; cl00647 441772000108 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 441772000109 putative NADH binding site [chemical binding]; other site 441772000110 putative active site [active] 441772000111 nudix motif; other site 441772000112 putative metal binding site [ion binding]; other site 441772000113 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; cl09108 441772000114 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772000115 hypothetical protein; Provisional; Region: PRK13795 441772000116 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772000117 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 441772000118 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 441772000119 putative ATP binding site [chemical binding]; other site 441772000120 putative substrate interface [chemical binding]; other site 441772000121 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 441772000122 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772000123 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772000124 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 441772000125 active site 441772000126 Fe-S cluster binding site [ion binding]; other site 441772000127 RNA polymerase factor sigma-70; Validated; Region: PRK06811 441772000128 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772000129 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772000130 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 441772000131 SurA N-terminal domain; Region: SurA_N_3; cl07813 441772000132 PPIC-type PPIASE domain; Region: Rotamase; cl08278 441772000133 NAD-dependent deacetylase; Provisional; Region: PRK00481 441772000134 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 441772000135 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 441772000136 dimer interface [polypeptide binding]; other site 441772000137 catalytic triad [active] 441772000138 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 441772000139 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 441772000140 amidohydrolase; Region: amidohydrolases; TIGR01891 441772000141 metal binding site [ion binding]; metal-binding site 441772000142 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 441772000143 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 441772000144 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 441772000145 homodimer interface [polypeptide binding]; other site 441772000146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772000147 catalytic residue [active] 441772000148 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 441772000149 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 441772000150 TMP-binding site; other site 441772000151 ATP-binding site [chemical binding]; other site 441772000152 Nitrogen regulatory protein P-II; Region: P-II; cl00412 441772000153 DNA polymerase III subunit delta'; Validated; Region: PRK05564 441772000154 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772000155 PSP1 C-terminal conserved region; Region: PSP1; cl00770 441772000156 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; cl00207 441772000157 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 441772000158 4Fe-4S binding domain; Region: Fer4; cl02805 441772000159 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 441772000160 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 441772000161 S-adenosylmethionine binding site [chemical binding]; other site 441772000162 Predicted methyltransferases [General function prediction only]; Region: COG0313 441772000163 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 441772000164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 441772000165 NlpC/P60 family; Region: NLPC_P60; cl11438 441772000166 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 441772000167 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 441772000168 Amidinotransferase; Region: Amidinotransf; cl12043 441772000169 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 441772000170 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 441772000171 homotrimer interaction site [polypeptide binding]; other site 441772000172 zinc binding site [ion binding]; other site 441772000173 CDP-binding sites; other site 441772000174 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 441772000175 putative active site [active] 441772000176 putative metal binding site [ion binding]; other site 441772000177 Nucleoside recognition; Region: Gate; cl00486 441772000178 Nucleoside recognition; Region: Gate; cl00486 441772000179 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772000180 MatE; Region: MatE; cl10513 441772000181 MatE; Region: MatE; cl10513 441772000182 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 441772000183 Fe-S cluster binding site [ion binding]; other site 441772000184 active site 441772000185 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772000186 Helix-turn-helix domains; Region: HTH; cl00088 441772000187 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 441772000188 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 441772000189 active site 441772000190 HIGH motif; other site 441772000191 KMSKS motif; other site 441772000192 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 441772000193 tRNA binding surface [nucleotide binding]; other site 441772000194 anticodon binding site; other site 441772000195 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 441772000196 dimer interface [polypeptide binding]; other site 441772000197 putative tRNA-binding site [nucleotide binding]; other site 441772000198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 441772000199 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 441772000200 active site 441772000201 Domain of unknown function (DUF348); Region: DUF348; pfam03990 441772000202 Domain of unknown function (DUF348); Region: DUF348; pfam03990 441772000203 G5 domain; Region: G5; pfam07501 441772000204 3D domain; Region: 3D; cl01439 441772000205 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 441772000206 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 441772000207 putative active site [active] 441772000208 putative metal binding site [ion binding]; other site 441772000209 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 441772000210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772000211 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 441772000212 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 441772000213 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772000214 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772000215 Walker A/P-loop; other site 441772000216 ATP binding site [chemical binding]; other site 441772000217 Q-loop/lid; other site 441772000218 ABC transporter signature motif; other site 441772000219 Walker B; other site 441772000220 D-loop; other site 441772000221 H-loop/switch region; other site 441772000222 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772000223 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772000224 FtsX-like permease family; Region: FtsX; cl15850 441772000225 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 441772000226 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 441772000227 GAF domain; Region: GAF_2; pfam13185 441772000228 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772000229 metal binding site [ion binding]; metal-binding site 441772000230 active site 441772000231 I-site; other site 441772000232 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 441772000233 MgtC family; Region: MgtC; pfam02308 441772000234 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 441772000235 ATP cone domain; Region: ATP-cone; pfam03477 441772000236 Class III ribonucleotide reductase; Region: RNR_III; cd01675 441772000237 effector binding site; other site 441772000238 active site 441772000239 Zn binding site [ion binding]; other site 441772000240 glycine loop; other site 441772000241 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 441772000242 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 441772000243 Helix-turn-helix domains; Region: HTH; cl00088 441772000244 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772000245 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 441772000246 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 441772000247 HIGH motif; other site 441772000248 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 441772000249 active site 441772000250 KMSKS motif; other site 441772000251 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 441772000252 tRNA binding surface [nucleotide binding]; other site 441772000253 anticodon binding site; other site 441772000254 Transcriptional regulators [Transcription]; Region: PurR; COG1609 441772000255 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 441772000256 DNA binding site [nucleotide binding] 441772000257 domain linker motif; other site 441772000258 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 441772000259 Signal recognition particle GTPase [Intracellular trafficking and secretion]; Region: FtsY; COG0552 441772000260 DNA helicase, putative; Region: TIGR00376 441772000261 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772000262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772000263 Family description; Region: UvrD_C_2; cl15862 441772000264 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 441772000265 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 441772000266 Substrate binding site; other site 441772000267 Cupin domain; Region: Cupin_2; cl09118 441772000268 Protein of unknown function DUF111; Region: DUF111; cl03398 441772000269 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 441772000270 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 441772000271 Ligand Binding Site [chemical binding]; other site 441772000272 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 441772000273 AIR carboxylase; Region: AIRC; cl00310 441772000274 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 441772000275 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 441772000276 FeS/SAM binding site; other site 441772000277 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772000278 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 441772000279 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 441772000280 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 441772000281 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772000282 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 441772000283 active site 441772000284 ATP binding site [chemical binding]; other site 441772000285 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 441772000286 substrate binding site [chemical binding]; other site 441772000287 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772000288 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772000289 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 441772000290 active site 441772000291 ATP binding site [chemical binding]; other site 441772000292 substrate binding site [chemical binding]; other site 441772000293 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 441772000294 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 441772000295 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772000296 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 441772000297 active site 441772000298 ATP binding site [chemical binding]; other site 441772000299 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 441772000300 substrate binding site [chemical binding]; other site 441772000301 YabG peptidase U57; Region: Peptidase_U57; cl05250 441772000302 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 441772000303 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 441772000304 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 441772000305 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 441772000306 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 441772000307 putative peptidoglycan binding site; other site 441772000308 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 441772000309 proposed catalytic triad [active] 441772000310 active site nucleophile [active] 441772000311 cyanophycin synthetase; Provisional; Region: PRK14016 441772000312 ATP-grasp domain; Region: ATP-grasp_4; cl03087 441772000313 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772000314 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772000315 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 441772000316 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 441772000317 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772000318 Spore germination protein; Region: Spore_permease; cl15802 441772000319 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 441772000320 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 441772000321 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 441772000322 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 441772000323 germination protein YpeB; Region: spore_YpeB; TIGR02889 441772000324 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 441772000325 Ligand Binding Site [chemical binding]; other site 441772000326 Domain of unknown function (DUF814); Region: DUF814; pfam05670 441772000327 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 441772000328 CTP synthetase; Validated; Region: pyrG; PRK05380 441772000329 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 441772000330 Catalytic site [active] 441772000331 active site 441772000332 UTP binding site [chemical binding]; other site 441772000333 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 441772000334 active site 441772000335 putative oxyanion hole; other site 441772000336 catalytic triad [active] 441772000337 transcription termination factor Rho; Provisional; Region: rho; PRK09376 441772000338 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 441772000339 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 441772000340 RNA binding site [nucleotide binding]; other site 441772000341 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772000342 Walker A motif; other site 441772000343 ATP binding site [chemical binding]; other site 441772000344 Walker B motif; other site 441772000345 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 441772000346 thymidine kinase; Provisional; Region: PRK04296 441772000347 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 441772000348 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 441772000349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772000350 peptide chain release factor 1; Validated; Region: prfA; PRK00591 441772000351 RF-1 domain; Region: RF-1; cl02875 441772000352 RF-1 domain; Region: RF-1; cl02875 441772000353 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 441772000354 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 441772000355 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 441772000356 Low molecular weight phosphatase family; Region: LMWPc; cd00115 441772000357 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 441772000358 active site 441772000359 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 441772000360 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772000361 active site 441772000362 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 441772000363 active site 441772000364 Zn binding site [ion binding]; other site 441772000365 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 441772000366 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 441772000367 Mg++ binding site [ion binding]; other site 441772000368 putative catalytic motif [active] 441772000369 substrate binding site [chemical binding]; other site 441772000370 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 441772000371 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 441772000372 active site 441772000373 homodimer interface [polypeptide binding]; other site 441772000374 ATP synthase A chain; Region: ATP-synt_A; cl00413 441772000375 ATP synthase subunit C; Region: ATP-synt_C; cl00466 441772000376 Plant ATP synthase F0; Region: YMF19; cl07975 441772000377 Plant ATP synthase F0; Region: YMF19; cl07975 441772000378 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 441772000379 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 441772000380 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 441772000381 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 441772000382 beta subunit interaction interface [polypeptide binding]; other site 441772000383 Walker A motif; other site 441772000384 ATP binding site [chemical binding]; other site 441772000385 Walker B motif; other site 441772000386 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 441772000387 ATP synthase; Region: ATP-synt; cl00365 441772000388 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 441772000389 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 441772000390 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 441772000391 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 441772000392 alpha subunit interaction interface [polypeptide binding]; other site 441772000393 Walker A motif; other site 441772000394 ATP binding site [chemical binding]; other site 441772000395 Walker B motif; other site 441772000396 inhibitor binding site; inhibition site 441772000397 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 441772000398 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 441772000399 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 441772000400 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 441772000401 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 441772000402 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 441772000403 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 441772000404 hinge; other site 441772000405 active site 441772000406 stage II sporulation protein D; Region: spore_II_D; TIGR02870 441772000407 Stage II sporulation protein; Region: SpoIID; pfam08486 441772000408 Peptidase family M23; Region: Peptidase_M23; pfam01551 441772000409 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772000410 rod shape-determining protein Mbl; Provisional; Region: PRK13928 441772000411 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 441772000412 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 441772000413 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 441772000414 Ligand Binding Site [chemical binding]; other site 441772000415 S-adenosylmethionine synthetase; Validated; Region: PRK05250 441772000416 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 441772000417 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 441772000418 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 441772000419 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 441772000420 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772000421 Family description; Region: UvrD_C_2; cl15862 441772000422 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 441772000423 comF family protein; Region: comF; TIGR00201 441772000424 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772000425 active site 441772000426 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 A site; Region: RaiA; cd00552 441772000427 30S subunit binding site; other site 441772000428 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 441772000429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772000430 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 441772000431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772000432 nucleotide binding region [chemical binding]; other site 441772000433 ATP-binding site [chemical binding]; other site 441772000434 SEC-C motif; Region: SEC-C; pfam02810 441772000435 peptide chain release factor 2; Provisional; Region: PRK05589 441772000436 RF-1 domain; Region: RF-1; cl02875 441772000437 RF-1 domain; Region: RF-1; cl02875 441772000438 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 441772000439 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 441772000440 metal binding site [ion binding]; metal-binding site 441772000441 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 441772000442 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 441772000443 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 includes...; Region: RuvC_resolvase; cl00243 441772000444 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 441772000445 RNA binding site [nucleotide binding]; other site 441772000446 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 441772000447 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 441772000448 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 441772000449 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 441772000450 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 441772000451 putative active site [active] 441772000452 putative metal binding site [ion binding]; other site 441772000453 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 441772000454 dimerization interface [polypeptide binding]; other site 441772000455 putative DNA binding site [nucleotide binding]; other site 441772000456 putative Zn2+ binding site [ion binding]; other site 441772000457 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 441772000458 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772000459 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 441772000460 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 441772000461 active site residue [active] 441772000462 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 441772000463 CPxP motif; other site 441772000464 DsrE/DsrF-like family; Region: DrsE; cl00672 441772000465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 441772000466 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 441772000467 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 441772000468 synthetase active site [active] 441772000469 NTP binding site [chemical binding]; other site 441772000470 metal binding site [ion binding]; metal-binding site 441772000471 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 441772000472 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 441772000473 HIGH motif; other site 441772000474 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 441772000475 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 441772000476 active site 441772000477 KMSKS motif; other site 441772000478 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 441772000479 tRNA binding surface [nucleotide binding]; other site 441772000480 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 441772000481 active site residue [active] 441772000482 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 441772000483 HSP70 interaction site [polypeptide binding]; other site 441772000484 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 441772000485 putative active site [active] 441772000486 putative triphosphate binding site [ion binding]; other site 441772000487 dimer interface [polypeptide binding]; other site 441772000488 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 441772000489 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 441772000490 hypothetical protein; Provisional; Region: PRK08185 441772000491 intersubunit interface [polypeptide binding]; other site 441772000492 active site 441772000493 zinc binding site [ion binding]; other site 441772000494 Na+ binding site [ion binding]; other site 441772000495 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 441772000496 Protein of unknown function (DUF421); Region: DUF421; cl00990 441772000497 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 441772000498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772000499 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 441772000500 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 441772000501 active site 441772000502 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 441772000503 FOG: CBS domain [General function prediction only]; Region: COG0517 441772000504 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 441772000505 putative lipid kinase; Reviewed; Region: PRK13059 441772000506 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 441772000507 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; cl00293 441772000508 hypothetical protein; Provisional; Region: PRK00955 441772000509 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 441772000510 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 441772000511 MgtE intracellular N domain; Region: MgtE_N; cl15244 441772000512 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 441772000513 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 441772000514 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 441772000515 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 441772000516 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 441772000517 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 441772000518 dimer interface [polypeptide binding]; other site 441772000519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772000520 catalytic residue [active] 441772000521 serine O-acetyltransferase; Region: cysE; TIGR01172 441772000522 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 441772000523 trimer interface [polypeptide binding]; other site 441772000524 active site 441772000525 substrate binding site [chemical binding]; other site 441772000526 CoA binding site [chemical binding]; other site 441772000527 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 441772000528 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 441772000529 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 441772000530 putative acyl-acceptor binding pocket; other site 441772000531 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 441772000532 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 441772000533 minor groove reading motif; other site 441772000534 helix-hairpin-helix signature motif; other site 441772000535 substrate binding pocket [chemical binding]; other site 441772000536 active site 441772000537 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 441772000538 Malic enzyme, N-terminal domain; Region: malic; pfam00390 441772000539 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 441772000540 putative NAD(P) binding site [chemical binding]; other site 441772000541 competence damage-inducible protein A; Provisional; Region: PRK00549 441772000542 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 441772000543 putative MPT binding site; other site 441772000544 Competence-damaged protein; Region: CinA; cl00666 441772000545 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 441772000546 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; cl12031 441772000547 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 441772000548 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 441772000549 putative oligomer interface [polypeptide binding]; other site 441772000550 putative active site [active] 441772000551 metal binding site [ion binding]; metal-binding site 441772000552 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772000553 VanW like protein; Region: VanW; pfam04294 441772000554 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772000555 VanW like protein; Region: VanW; pfam04294 441772000556 G5 domain; Region: G5; pfam07501 441772000557 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 441772000558 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 441772000559 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 441772000560 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 441772000561 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 441772000562 ligand binding site [chemical binding]; other site 441772000563 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 441772000564 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 441772000565 Walker A/P-loop; other site 441772000566 ATP binding site [chemical binding]; other site 441772000567 Q-loop/lid; other site 441772000568 ABC transporter signature motif; other site 441772000569 Walker B; other site 441772000570 D-loop; other site 441772000571 H-loop/switch region; other site 441772000572 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 441772000573 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 441772000574 TM-ABC transporter signature motif; other site 441772000575 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 441772000576 TM-ABC transporter signature motif; other site 441772000577 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 441772000578 NodB motif; other site 441772000579 active site 441772000580 catalytic site [active] 441772000581 Zn binding site [ion binding]; other site 441772000582 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 441772000583 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 441772000584 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 441772000585 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 441772000586 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 441772000587 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 441772000588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772000589 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 441772000590 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 441772000591 Phosphoglycerate kinase; Region: PGK; pfam00162 441772000592 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 441772000593 substrate binding site [chemical binding]; other site 441772000594 hinge regions; other site 441772000595 ADP binding site [chemical binding]; other site 441772000596 catalytic site [active] 441772000597 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 441772000598 substrate binding site [chemical binding]; other site 441772000599 dimer interface [polypeptide binding]; other site 441772000600 catalytic triad [active] 441772000601 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 441772000602 Sulfatase; Region: Sulfatase; cl10460 441772000603 enolase; Provisional; Region: eno; PRK00077 441772000604 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 441772000605 dimer interface [polypeptide binding]; other site 441772000606 metal binding site [ion binding]; metal-binding site 441772000607 substrate binding pocket [chemical binding]; other site 441772000608 Preprotein translocase SecG subunit; Region: SecG; cl09123 441772000609 ribonuclease R; Region: RNase_R; TIGR02063 441772000610 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 441772000611 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 441772000612 RNB domain; Region: RNB; pfam00773 441772000613 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 play an important...; Region: S1_RNase_R; cd04471 441772000614 RNA binding site [nucleotide binding]; other site 441772000615 Survival protein SurE; Region: SurE; cl00448 441772000616 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 441772000617 SmpB-tmRNA interface; other site 441772000618 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 441772000619 MepB protein; Region: MepB; cl01985 441772000620 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 441772000621 FAD binding domain; Region: FAD_binding_4; pfam01565 441772000622 Berberine and berberine like; Region: BBE; pfam08031 441772000623 tellurite resistance protein TehB; Provisional; Region: PRK12335 441772000624 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 441772000625 S-adenosylmethionine binding site [chemical binding]; other site 441772000626 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772000627 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; cl00047 441772000628 Helix-turn-helix domains; Region: HTH; cl00088 441772000629 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 441772000630 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 441772000631 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772000632 catalytic residue [active] 441772000633 flagellin; Provisional; Region: PRK12804 441772000634 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772000635 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772000636 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 441772000637 active site 441772000638 Cupin domain; Region: Cupin_2; cl09118 441772000639 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772000640 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 441772000641 active site 441772000642 phosphorylation site [posttranslational modification] 441772000643 intermolecular recognition site; other site 441772000644 dimerization interface [polypeptide binding]; other site 441772000645 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 441772000646 DNA binding site [nucleotide binding] 441772000647 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772000648 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 441772000649 ATP binding site [chemical binding]; other site 441772000650 Mg2+ binding site [ion binding]; other site 441772000651 G-X-G motif; other site 441772000652 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772000653 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772000654 Walker A/P-loop; other site 441772000655 ATP binding site [chemical binding]; other site 441772000656 Q-loop/lid; other site 441772000657 ABC transporter signature motif; other site 441772000658 Walker B; other site 441772000659 D-loop; other site 441772000660 H-loop/switch region; other site 441772000661 FtsX-like permease family; Region: FtsX; cl15850 441772000662 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 441772000663 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 441772000664 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 441772000665 Malic enzyme, N-terminal domain; Region: malic; pfam00390 441772000666 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 441772000667 putative NAD(P) binding site [chemical binding]; other site 441772000668 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 441772000669 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 441772000670 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 441772000671 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 441772000672 ATP binding site [chemical binding]; other site 441772000673 Mg2+ binding site [ion binding]; other site 441772000674 G-X-G motif; other site 441772000675 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 441772000676 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 441772000677 active site 441772000678 phosphorylation site [posttranslational modification] 441772000679 intermolecular recognition site; other site 441772000680 dimerization interface [polypeptide binding]; other site 441772000681 Helix-turn-helix domains; Region: HTH; cl00088 441772000682 lysine transporter; Provisional; Region: PRK10836 441772000683 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772000684 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 441772000685 trimer interface [polypeptide binding]; other site 441772000686 active site 441772000687 substrate binding site [chemical binding]; other site 441772000688 CoA binding site [chemical binding]; other site 441772000689 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 441772000690 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772000691 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 441772000692 active site 441772000693 catalytic motif [active] 441772000694 Zn binding site [ion binding]; other site 441772000695 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772000696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772000697 Coenzyme A binding pocket [chemical binding]; other site 441772000698 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; cl00161 441772000699 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 441772000700 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 441772000701 active site 441772000702 substrate binding site [chemical binding]; other site 441772000703 catalytic site [active] 441772000704 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 441772000705 Dimer interface [polypeptide binding]; other site 441772000706 Isochorismatase family; Region: Isochorismatase; pfam00857 441772000707 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 441772000708 catalytic triad [active] 441772000709 conserved cis-peptide bond; other site 441772000710 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 441772000711 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 441772000712 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 441772000713 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 441772000714 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 441772000715 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 441772000716 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 441772000717 catalytic loop [active] 441772000718 iron binding site [ion binding]; other site 441772000719 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 441772000720 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 441772000721 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 441772000722 catalytic residues [active] 441772000723 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772000724 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 441772000725 active site 441772000726 phosphorylation site [posttranslational modification] 441772000727 intermolecular recognition site; other site 441772000728 dimerization interface [polypeptide binding]; other site 441772000729 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 441772000730 DNA binding site [nucleotide binding] 441772000731 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 441772000732 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 441772000733 dimer interface [polypeptide binding]; other site 441772000734 phosphorylation site [posttranslational modification] 441772000735 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 441772000736 ATP binding site [chemical binding]; other site 441772000737 Mg2+ binding site [ion binding]; other site 441772000738 G-X-G motif; other site 441772000739 FAD binding domain; Region: FAD_binding_4; pfam01565 441772000740 Berberine and berberine like; Region: BBE; pfam08031 441772000741 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 441772000742 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 441772000743 NAD binding site [chemical binding]; other site 441772000744 sugar binding site [chemical binding]; other site 441772000745 divalent metal binding site [ion binding]; other site 441772000746 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772000747 dimer interface [polypeptide binding]; other site 441772000748 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 441772000749 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772000750 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 441772000751 active site turn [active] 441772000752 phosphorylation site [posttranslational modification] 441772000753 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772000754 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772000755 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 441772000756 putative active site [active] 441772000757 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772000758 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772000759 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 441772000760 putative active site [active] 441772000761 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 441772000762 HPr interaction site; other site 441772000763 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772000764 active site 441772000765 phosphorylation site [posttranslational modification] 441772000766 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772000767 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 441772000768 active site 441772000769 phosphorylation site [posttranslational modification] 441772000770 intermolecular recognition site; other site 441772000771 dimerization interface [polypeptide binding]; other site 441772000772 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 441772000773 DNA binding site [nucleotide binding] 441772000774 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; cl00080 441772000775 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 441772000776 ATP binding site [chemical binding]; other site 441772000777 Mg2+ binding site [ion binding]; other site 441772000778 G-X-G motif; other site 441772000779 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772000780 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772000781 Walker A/P-loop; other site 441772000782 ATP binding site [chemical binding]; other site 441772000783 Q-loop/lid; other site 441772000784 ABC transporter signature motif; other site 441772000785 Walker B; other site 441772000786 D-loop; other site 441772000787 H-loop/switch region; other site 441772000788 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 441772000789 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772000790 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 441772000791 active site turn [active] 441772000792 phosphorylation site [posttranslational modification] 441772000793 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 441772000794 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 441772000795 NAD binding site [chemical binding]; other site 441772000796 sugar binding site [chemical binding]; other site 441772000797 divalent metal binding site [ion binding]; other site 441772000798 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772000799 dimer interface [polypeptide binding]; other site 441772000800 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 441772000801 HPr interaction site; other site 441772000802 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772000803 active site 441772000804 phosphorylation site [posttranslational modification] 441772000805 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772000806 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772000807 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 441772000808 putative active site [active] 441772000809 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 protein; Region: CSP_CDS; cd04458 441772000810 DNA-binding site [nucleotide binding]; DNA binding site 441772000811 RNA-binding motif; other site 441772000812 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 441772000813 Predicted transcriptional regulator [Transcription]; Region: COG1959 441772000814 Helix-turn-helix domains; Region: HTH; cl00088 441772000815 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 441772000816 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 441772000817 catalytic residues [active] 441772000818 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 441772000819 NADH(P)-binding; Region: NAD_binding_10; pfam13460 441772000820 NAD binding site [chemical binding]; other site 441772000821 substrate binding site [chemical binding]; other site 441772000822 putative active site [active] 441772000823 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772000824 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 441772000825 putative active site [active] 441772000826 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 441772000827 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772000828 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 441772000829 active site turn [active] 441772000830 phosphorylation site [posttranslational modification] 441772000831 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 441772000832 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 441772000833 NAD binding site [chemical binding]; other site 441772000834 sugar binding site [chemical binding]; other site 441772000835 divalent metal binding site [ion binding]; other site 441772000836 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772000837 dimer interface [polypeptide binding]; other site 441772000838 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 441772000839 HPr interaction site; other site 441772000840 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772000841 active site 441772000842 phosphorylation site [posttranslational modification] 441772000843 Dehydratase family; Region: ILVD_EDD; cl00340 441772000844 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 441772000845 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 441772000846 active site 441772000847 intersubunit interface [polypeptide binding]; other site 441772000848 catalytic residue [active] 441772000849 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 441772000850 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 441772000851 substrate binding site [chemical binding]; other site 441772000852 ATP binding site [chemical binding]; other site 441772000853 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 441772000854 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 441772000855 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 441772000856 active site 441772000857 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 441772000858 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772000859 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 441772000860 active site 441772000861 phosphorylation site [posttranslational modification] 441772000862 intermolecular recognition site; other site 441772000863 dimerization interface [polypeptide binding]; other site 441772000864 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 441772000865 DNA binding site [nucleotide binding] 441772000866 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 441772000867 dimerization interface [polypeptide binding]; other site 441772000868 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 441772000869 dimer interface [polypeptide binding]; other site 441772000870 phosphorylation site [posttranslational modification] 441772000871 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 441772000872 ATP binding site [chemical binding]; other site 441772000873 Mg2+ binding site [ion binding]; other site 441772000874 G-X-G motif; other site 441772000875 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 441772000876 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 441772000877 Ligand binding site; other site 441772000878 Putative Catalytic site; other site 441772000879 DXD motif; other site 441772000880 GtrA-like protein; Region: GtrA; cl00971 441772000881 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 441772000882 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 441772000883 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 441772000884 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772000885 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772000886 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 441772000887 intersubunit interface [polypeptide binding]; other site 441772000888 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 441772000889 ABC-ATPase subunit interface; other site 441772000890 dimer interface [polypeptide binding]; other site 441772000891 putative PBP binding regions; other site 441772000892 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772000893 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772000894 Walker A/P-loop; other site 441772000895 ATP binding site [chemical binding]; other site 441772000896 Q-loop/lid; other site 441772000897 ABC transporter signature motif; other site 441772000898 Walker B; other site 441772000899 D-loop; other site 441772000900 H-loop/switch region; other site 441772000901 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772000902 MatE; Region: MatE; cl10513 441772000903 MatE; Region: MatE; cl10513 441772000904 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772000905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772000906 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 441772000907 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 441772000908 intersubunit interface [polypeptide binding]; other site 441772000909 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772000910 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 441772000911 intersubunit interface [polypeptide binding]; other site 441772000912 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 441772000913 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 441772000914 ABC-ATPase subunit interface; other site 441772000915 dimer interface [polypeptide binding]; other site 441772000916 putative PBP binding regions; other site 441772000917 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 441772000918 ABC-ATPase subunit interface; other site 441772000919 dimer interface [polypeptide binding]; other site 441772000920 putative PBP binding regions; other site 441772000921 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772000922 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772000923 Walker A/P-loop; other site 441772000924 ATP binding site [chemical binding]; other site 441772000925 Q-loop/lid; other site 441772000926 ABC transporter signature motif; other site 441772000927 Walker B; other site 441772000928 D-loop; other site 441772000929 H-loop/switch region; other site 441772000930 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772000931 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772000932 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 441772000933 Walker A/P-loop; other site 441772000934 ATP binding site [chemical binding]; other site 441772000935 Q-loop/lid; other site 441772000936 ABC transporter signature motif; other site 441772000937 Walker B; other site 441772000938 D-loop; other site 441772000939 H-loop/switch region; other site 441772000940 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 441772000941 xanthine permease; Region: pbuX; TIGR03173 441772000942 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 441772000943 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772000944 active site 441772000945 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772000946 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 441772000947 active site 441772000948 phosphorylation site [posttranslational modification] 441772000949 intermolecular recognition site; other site 441772000950 dimerization interface [polypeptide binding]; other site 441772000951 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 441772000952 DNA binding site [nucleotide binding] 441772000953 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772000954 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 441772000955 ATP binding site [chemical binding]; other site 441772000956 Mg2+ binding site [ion binding]; other site 441772000957 G-X-G motif; other site 441772000958 Bacitracin resistance protein BacA; Region: BacA; cl00858 441772000959 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772000960 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772000961 Walker A/P-loop; other site 441772000962 ATP binding site [chemical binding]; other site 441772000963 Q-loop/lid; other site 441772000964 ABC transporter signature motif; other site 441772000965 Walker B; other site 441772000966 D-loop; other site 441772000967 H-loop/switch region; other site 441772000968 FtsX-like permease family; Region: FtsX; cl15850 441772000969 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 441772000970 active site 441772000971 NTP binding site [chemical binding]; other site 441772000972 metal binding triad [ion binding]; metal-binding site 441772000973 antibiotic binding site [chemical binding]; other site 441772000974 Protein of unknown function DUF86; Region: DUF86; cl01031 441772000975 LrgA family; Region: LrgA; cl00608 441772000976 LrgB-like family; Region: LrgB; cl00596 441772000977 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 441772000978 Radical SAM superfamily; Region: Radical_SAM; pfam04055 441772000979 FeS/SAM binding site; other site 441772000980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 441772000981 hypothetical protein; Provisional; Region: PRK13663 441772000982 Accessory gene regulator B; Region: AgrB; cl01873 441772000983 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 441772000984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772000985 metal binding site [ion binding]; metal-binding site 441772000986 active site 441772000987 I-site; other site 441772000988 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772000989 Zn2+ binding site [ion binding]; other site 441772000990 Mg2+ binding site [ion binding]; other site 441772000991 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 441772000992 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772000993 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 441772000994 PAS domain S-box; Region: sensory_box; TIGR00229 441772000995 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 441772000996 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 441772000997 dimer interface [polypeptide binding]; other site 441772000998 phosphorylation site [posttranslational modification] 441772000999 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 441772001000 ATP binding site [chemical binding]; other site 441772001001 Mg2+ binding site [ion binding]; other site 441772001002 G-X-G motif; other site 441772001003 Accessory gene regulator B; Region: AgrB; cl01873 441772001004 PAS domain S-box; Region: sensory_box; TIGR00229 441772001005 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 441772001006 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 441772001007 dimer interface [polypeptide binding]; other site 441772001008 phosphorylation site [posttranslational modification] 441772001009 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 441772001010 ATP binding site [chemical binding]; other site 441772001011 Mg2+ binding site [ion binding]; other site 441772001012 G-X-G motif; other site 441772001013 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 441772001014 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 441772001015 Ligand Binding Site [chemical binding]; other site 441772001016 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 441772001017 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 441772001018 non-specific DNA binding site [nucleotide binding]; other site 441772001019 salt bridge; other site 441772001020 sequence-specific DNA binding site [nucleotide binding]; other site 441772001021 Cupin domain; Region: Cupin_2; cl09118 441772001022 Amino acid permease; Region: AA_permease_2; pfam13520 441772001023 Spore germination protein; Region: Spore_permease; cl15802 441772001024 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 441772001025 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772001026 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 441772001027 active site 441772001028 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 441772001029 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 441772001030 putative catalytic cysteine [active] 441772001031 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 441772001032 putative active site [active] 441772001033 metal binding site [ion binding]; metal-binding site 441772001034 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 441772001035 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 441772001036 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 441772001037 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 441772001038 active site 441772001039 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 441772001040 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 441772001041 NodB motif; other site 441772001042 active site 441772001043 catalytic site [active] 441772001044 Zn binding site [ion binding]; other site 441772001045 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772001046 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 441772001047 active site 441772001048 phosphorylation site [posttranslational modification] 441772001049 intermolecular recognition site; other site 441772001050 dimerization interface [polypeptide binding]; other site 441772001051 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 441772001052 DNA binding site [nucleotide binding] 441772001053 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 441772001054 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 441772001055 dimerization interface [polypeptide binding]; other site 441772001056 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 441772001057 dimer interface [polypeptide binding]; other site 441772001058 phosphorylation site [posttranslational modification] 441772001059 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 441772001060 ATP binding site [chemical binding]; other site 441772001061 Mg2+ binding site [ion binding]; other site 441772001062 G-X-G motif; other site 441772001063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772001064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772001065 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 441772001066 CHASE4 domain; Region: CHASE4; cl01308 441772001067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772001068 metal binding site [ion binding]; metal-binding site 441772001069 active site 441772001070 I-site; other site 441772001071 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 441772001072 NlpC/P60 family; Region: NLPC_P60; cl11438 441772001073 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772001074 MatE; Region: MatE; cl10513 441772001075 MatE; Region: MatE; cl10513 441772001076 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 441772001077 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 441772001078 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 441772001079 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 441772001080 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 441772001081 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772001082 catalytic residue [active] 441772001083 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 441772001084 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 441772001085 active site 441772001086 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772001087 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 441772001088 active site 441772001089 phosphorylation site [posttranslational modification] 441772001090 intermolecular recognition site; other site 441772001091 dimerization interface [polypeptide binding]; other site 441772001092 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 441772001093 DNA binding site [nucleotide binding] 441772001094 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772001095 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 441772001096 dimerization interface [polypeptide binding]; other site 441772001097 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 441772001098 dimer interface [polypeptide binding]; other site 441772001099 phosphorylation site [posttranslational modification] 441772001100 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 441772001101 ATP binding site [chemical binding]; other site 441772001102 Mg2+ binding site [ion binding]; other site 441772001103 G-X-G motif; other site 441772001104 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 441772001105 Sodium:solute symporter family; Region: SSF; cl00456 441772001106 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 441772001107 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 441772001108 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 441772001109 SLBB domain; Region: SLBB; pfam10531 441772001110 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 441772001111 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 441772001112 FMN-binding domain; Region: FMN_bind; cl01081 441772001113 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 441772001114 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 441772001115 ferredoxin; Validated; Region: PRK07118 441772001116 4Fe-4S binding domain; Region: Fer4; cl02805 441772001117 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 441772001118 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001119 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001120 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001121 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 441772001122 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 441772001123 trimer interface [polypeptide binding]; other site 441772001124 ApbE family; Region: ApbE; cl00643 441772001125 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001126 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001127 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001128 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001129 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001130 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001131 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001132 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001133 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001134 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001135 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001136 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001137 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772001138 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001139 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001140 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001141 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001142 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001143 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 441772001144 OpgC protein; Region: OpgC_C; cl00792 441772001145 Acyltransferase family; Region: Acyl_transf_3; pfam01757 441772001146 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 441772001147 Bacterial Ig-like domain; Region: Big_5; cl01012 441772001148 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 441772001149 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 441772001150 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772001151 dimer interface [polypeptide binding]; other site 441772001152 conserved gate region; other site 441772001153 putative PBP binding loops; other site 441772001154 ABC-ATPase subunit interface; other site 441772001155 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 441772001156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772001157 dimer interface [polypeptide binding]; other site 441772001158 conserved gate region; other site 441772001159 putative PBP binding loops; other site 441772001160 ABC-ATPase subunit interface; other site 441772001161 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 441772001162 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 441772001163 Walker A/P-loop; other site 441772001164 ATP binding site [chemical binding]; other site 441772001165 Q-loop/lid; other site 441772001166 ABC transporter signature motif; other site 441772001167 Walker B; other site 441772001168 D-loop; other site 441772001169 H-loop/switch region; other site 441772001170 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772001171 amino acid transporter; Region: 2A0306; TIGR00909 441772001172 Spore germination protein; Region: Spore_permease; cl15802 441772001173 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 441772001174 Protein of unknown function DUF45; Region: DUF45; cl00636 441772001175 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 441772001176 dimer interface [polypeptide binding]; other site 441772001177 ssDNA binding site [nucleotide binding]; other site 441772001178 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772001179 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772001180 metal binding site 2 [ion binding]; metal-binding site 441772001181 putative DNA binding helix; other site 441772001182 metal binding site 1 [ion binding]; metal-binding site 441772001183 dimer interface [polypeptide binding]; other site 441772001184 structural Zn2+ binding site [ion binding]; other site 441772001185 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 441772001186 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772001187 Zn2+ binding site [ion binding]; other site 441772001188 Mg2+ binding site [ion binding]; other site 441772001189 Rhomboid family; Region: Rhomboid; cl11446 441772001190 Cache domain; Region: Cache_1; pfam02743 441772001191 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 441772001192 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772001193 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001194 dimer interface [polypeptide binding]; other site 441772001195 putative CheW interface [polypeptide binding]; other site 441772001196 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 441772001197 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 441772001198 Walker A motif; other site 441772001199 ATP binding site [chemical binding]; other site 441772001200 Walker B motif; other site 441772001201 arginine finger; other site 441772001202 Peptidase family M41; Region: Peptidase_M41; pfam01434 441772001203 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 441772001204 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 441772001205 RNA/DNA hybrid binding site [nucleotide binding]; other site 441772001206 active site 441772001207 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772001208 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 441772001209 non-specific DNA binding site [nucleotide binding]; other site 441772001210 salt bridge; other site 441772001211 sequence-specific DNA binding site [nucleotide binding]; other site 441772001212 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772001213 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772001214 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772001215 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772001216 DJ-1 family protein; Region: not_thiJ; TIGR01383 441772001217 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 441772001218 conserved cys residue [active] 441772001219 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 441772001220 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 441772001221 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 441772001222 Clp amino terminal domain; Region: Clp_N; pfam02861 441772001223 Clp amino terminal domain; Region: Clp_N; pfam02861 441772001224 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 441772001225 Walker A motif; other site 441772001226 ATP binding site [chemical binding]; other site 441772001227 Walker B motif; other site 441772001228 arginine finger; other site 441772001229 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 441772001230 Walker A motif; other site 441772001231 ATP binding site [chemical binding]; other site 441772001232 Walker B motif; other site 441772001233 arginine finger; other site 441772001234 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 441772001235 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 441772001236 catalytic triad [active] 441772001237 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 441772001238 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772001239 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 441772001240 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 441772001241 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 441772001242 Bacitracin resistance protein BacA; Region: BacA; cl00858 441772001243 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772001244 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 441772001245 putative acyl-acceptor binding pocket; other site 441772001246 isopropylmalate/citramalate/homocitrate synthases; Region: LEU1_arch; TIGR02090 441772001247 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 441772001248 active site 441772001249 catalytic residues [active] 441772001250 metal binding site [ion binding]; metal-binding site 441772001251 aconitate hydratase; Validated; Region: PRK07229 441772001252 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 441772001253 substrate binding site [chemical binding]; other site 441772001254 ligand binding site [chemical binding]; other site 441772001255 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 441772001256 substrate binding site [chemical binding]; other site 441772001257 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 441772001258 tartrate dehydrogenase; Provisional; Region: PRK08194 441772001259 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 441772001260 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 441772001261 Walker A/P-loop; other site 441772001262 ATP binding site [chemical binding]; other site 441772001263 Q-loop/lid; other site 441772001264 ABC transporter signature motif; other site 441772001265 Walker B; other site 441772001266 D-loop; other site 441772001267 H-loop/switch region; other site 441772001268 Permease; Region: Permease; cl00510 441772001269 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 441772001270 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 441772001271 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 441772001272 Domain of unknown function (DUF378); Region: DUF378; cl00943 441772001273 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 441772001274 tetramerization interface [polypeptide binding]; other site 441772001275 active site 441772001276 Pantoate-beta-alanine ligase; Region: PanC; cd00560 441772001277 pantoate--beta-alanine ligase; Region: panC; TIGR00018 441772001278 active site 441772001279 ATP-binding site [chemical binding]; other site 441772001280 pantoate-binding site; other site 441772001281 HXXH motif; other site 441772001282 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 441772001283 oligomerization interface [polypeptide binding]; other site 441772001284 active site 441772001285 metal binding site [ion binding]; metal-binding site 441772001286 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 441772001287 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 441772001288 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 441772001289 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772001290 Helix-turn-helix domains; Region: HTH; cl00088 441772001291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001292 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001293 G4 box; other site 441772001294 G5 box; other site 441772001295 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 441772001296 4Fe-4S binding domain; Region: Fer4; cl02805 441772001297 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 441772001298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772001299 4Fe-4S binding domain; Region: Fer4; cl02805 441772001300 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 441772001301 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 441772001302 Tim44-like domain; Region: Tim44; cl09208 441772001303 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 441772001304 Family description; Region: UvrD_C_2; cl15862 441772001305 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 441772001306 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772001307 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001308 dimer interface [polypeptide binding]; other site 441772001309 putative CheW interface [polypeptide binding]; other site 441772001310 peptidase T; Region: peptidase-T; TIGR01882 441772001311 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 441772001312 metal binding site [ion binding]; metal-binding site 441772001313 dimer interface [polypeptide binding]; other site 441772001314 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 441772001315 active site 441772001316 nucleophile elbow; other site 441772001317 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772001318 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_23; cd09011 441772001319 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772001320 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001321 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001322 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001323 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 441772001324 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772001325 dimer interface [polypeptide binding]; other site 441772001326 conserved gate region; other site 441772001327 putative PBP binding loops; other site 441772001328 ABC-ATPase subunit interface; other site 441772001329 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772001330 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 441772001331 substrate binding pocket [chemical binding]; other site 441772001332 membrane-bound complex binding site; other site 441772001333 hinge residues; other site 441772001334 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 441772001335 S-adenosylmethionine binding site [chemical binding]; other site 441772001336 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 441772001337 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 441772001338 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 441772001339 thiamine phosphate binding site [chemical binding]; other site 441772001340 active site 441772001341 pyrophosphate binding site [ion binding]; other site 441772001342 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 441772001343 substrate binding site [chemical binding]; other site 441772001344 multimerization interface [polypeptide binding]; other site 441772001345 ATP binding site [chemical binding]; other site 441772001346 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 441772001347 dimer interface [polypeptide binding]; other site 441772001348 substrate binding site [chemical binding]; other site 441772001349 ATP binding site [chemical binding]; other site 441772001350 Germination protease; Region: Peptidase_A25; cl04057 441772001351 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 441772001352 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 441772001353 ATP-grasp domain; Region: ATP-grasp_4; cl03087 441772001354 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 441772001355 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 441772001356 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 441772001357 TM-ABC transporter signature motif; other site 441772001358 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 441772001359 TM-ABC transporter signature motif; other site 441772001360 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 441772001361 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 441772001362 Walker A/P-loop; other site 441772001363 ATP binding site [chemical binding]; other site 441772001364 Q-loop/lid; other site 441772001365 ABC transporter signature motif; other site 441772001366 Walker B; other site 441772001367 D-loop; other site 441772001368 H-loop/switch region; other site 441772001369 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 441772001370 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 441772001371 Walker A/P-loop; other site 441772001372 ATP binding site [chemical binding]; other site 441772001373 Q-loop/lid; other site 441772001374 ABC transporter signature motif; other site 441772001375 Walker B; other site 441772001376 D-loop; other site 441772001377 H-loop/switch region; other site 441772001378 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 441772001379 Uncharacterized conserved protein [Function unknown]; Region: COG2966 441772001380 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 441772001381 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 441772001382 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 441772001383 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772001384 DNA-binding site [nucleotide binding]; DNA binding site 441772001385 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 441772001386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772001387 homodimer interface [polypeptide binding]; other site 441772001388 catalytic residue [active] 441772001389 LemA family; Region: LemA; cl00742 441772001390 Repair protein; Region: Repair_PSII; cl01535 441772001391 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 441772001392 nudix motif; other site 441772001393 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 441772001394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772001395 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 441772001396 S-adenosylmethionine binding site [chemical binding]; other site 441772001397 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772001398 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 441772001399 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 441772001400 active site 441772001401 metal binding site [ion binding]; metal-binding site 441772001402 DNA binding site [nucleotide binding] 441772001403 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 441772001404 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 441772001405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001406 Walker A/P-loop; other site 441772001407 ATP binding site [chemical binding]; other site 441772001408 Q-loop/lid; other site 441772001409 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 441772001410 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 441772001411 ABC transporter signature motif; other site 441772001412 Walker B; other site 441772001413 D-loop; other site 441772001414 H-loop/switch region; other site 441772001415 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 441772001416 ADP-ribose binding site [chemical binding]; other site 441772001417 dimer interface [polypeptide binding]; other site 441772001418 active site 441772001419 nudix motif; other site 441772001420 metal binding site [ion binding]; metal-binding site 441772001421 Uncharacterized conserved protein [Function unknown]; Region: COG1284 441772001422 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772001423 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772001424 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 441772001425 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 441772001426 dimerization interface [polypeptide binding]; other site 441772001427 putative DNA binding site [nucleotide binding]; other site 441772001428 putative Zn2+ binding site [ion binding]; other site 441772001429 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 441772001430 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; cl00207 441772001431 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772001432 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772001433 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 441772001434 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 441772001435 putative active site [active] 441772001436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001437 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 441772001438 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 441772001439 NADPH bind site [chemical binding]; other site 441772001440 putative FMN binding site [chemical binding]; other site 441772001441 bacteriocin biosynthesis cyclodehydratase, SagC family; Region: cyclo_dehy_ocin; TIGR03603 441772001442 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 441772001443 YcaO-like family; Region: YcaO; pfam02624 441772001444 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 441772001445 CAAX protease self-immunity; Region: Abi; cl00558 441772001446 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772001447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001448 Walker A/P-loop; other site 441772001449 ATP binding site [chemical binding]; other site 441772001450 Q-loop/lid; other site 441772001451 ABC transporter signature motif; other site 441772001452 Walker B; other site 441772001453 D-loop; other site 441772001454 H-loop/switch region; other site 441772001455 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 441772001456 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772001457 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772001458 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772001459 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 441772001460 active site 441772001461 putative substrate binding region [chemical binding]; other site 441772001462 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 441772001463 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 441772001464 transmembrane helices; other site 441772001465 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; cl15754 441772001466 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 441772001467 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 441772001468 dimer interface [polypeptide binding]; other site 441772001469 catalytic triad [active] 441772001470 peroxidatic and resolving cysteines [active] 441772001471 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 441772001472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772001473 NAD(P) binding site [chemical binding]; other site 441772001474 active site 441772001475 Response regulator receiver domain; Region: Response_reg; pfam00072 441772001476 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 441772001477 active site 441772001478 phosphorylation site [posttranslational modification] 441772001479 intermolecular recognition site; other site 441772001480 dimerization interface [polypeptide binding]; other site 441772001481 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 441772001482 NlpC/P60 family; Region: NLPC_P60; cl11438 441772001483 Bacterial SH3 domain; Region: SH3_3; cl02551 441772001484 Bacterial SH3 domain; Region: SH3_3; cl02551 441772001485 Bacterial SH3 domain; Region: SH3_3; cl02551 441772001486 Bacterial SH3 domain; Region: SH3_3; cl02551 441772001487 NlpC/P60 family; Region: NLPC_P60; cl11438 441772001488 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 441772001489 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; cl12031 441772001490 PAS fold; Region: PAS_4; pfam08448 441772001491 Response regulator receiver domain; Region: Response_reg; pfam00072 441772001492 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 441772001493 active site 441772001494 phosphorylation site [posttranslational modification] 441772001495 intermolecular recognition site; other site 441772001496 dimerization interface [polypeptide binding]; other site 441772001497 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; cl00086 441772001498 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772001499 Zn2+ binding site [ion binding]; other site 441772001500 Mg2+ binding site [ion binding]; other site 441772001501 Cache domain; Region: Cache_1; pfam02743 441772001502 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 441772001503 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772001504 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001505 dimer interface [polypeptide binding]; other site 441772001506 putative CheW interface [polypeptide binding]; other site 441772001507 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 441772001508 active site 441772001509 phosphorylation site [posttranslational modification] 441772001510 intermolecular recognition site; other site 441772001511 dimerization interface [polypeptide binding]; other site 441772001512 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 441772001513 seryl-tRNA synthetase; Provisional; Region: PRK05431 441772001514 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 441772001515 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 attaches...; Region: class_II_aaRS-like_core; cl00268 441772001516 motif 1; other site 441772001517 dimer interface [polypeptide binding]; other site 441772001518 active site 441772001519 motif 2; other site 441772001520 motif 3; other site 441772001521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001522 DEAD_2; Region: DEAD_2; pfam06733 441772001523 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 441772001524 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001525 Transcriptional regulators [Transcription]; Region: FadR; COG2186 441772001526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772001527 DNA-binding site [nucleotide binding]; DNA binding site 441772001528 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 441772001529 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 441772001530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772001531 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 441772001532 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 441772001533 octamerization interface [polypeptide binding]; other site 441772001534 diferric-oxygen binding site [ion binding]; other site 441772001535 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 441772001536 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 441772001537 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772001538 Amino acid permease; Region: AA_permease_2; pfam13520 441772001539 Helix-turn-helix domains; Region: HTH; cl00088 441772001540 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 441772001541 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 441772001542 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 441772001543 Spore germination protein; Region: Spore_permease; cl15802 441772001544 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 441772001545 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 441772001546 trimer interface [polypeptide binding]; other site 441772001547 putative metal binding site [ion binding]; other site 441772001548 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772001549 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 441772001550 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772001551 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772001552 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772001553 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772001554 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772001555 Chromate transporter; Region: Chromate_transp; pfam02417 441772001556 Chromate transporter; Region: Chromate_transp; pfam02417 441772001557 PemK-like protein; Region: PemK; cl00995 441772001558 Protein of unknown function (DUF327); Region: DUF327; cl00753 441772001559 NAD synthetase; Reviewed; Region: nadE; PRK02628 441772001560 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 441772001561 multimer interface [polypeptide binding]; other site 441772001562 active site 441772001563 catalytic triad [active] 441772001564 protein interface 1 [polypeptide binding]; other site 441772001565 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 441772001566 homodimer interface [polypeptide binding]; other site 441772001567 NAD binding pocket [chemical binding]; other site 441772001568 ATP binding pocket [chemical binding]; other site 441772001569 Mg binding site [ion binding]; other site 441772001570 active-site loop [active] 441772001571 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 441772001572 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 441772001573 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 441772001574 proline aminopeptidase P II; Provisional; Region: PRK10879 441772001575 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 441772001576 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 441772001577 active site 441772001578 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 441772001579 non-specific DNA binding site [nucleotide binding]; other site 441772001580 salt bridge; other site 441772001581 sequence-specific DNA binding site [nucleotide binding]; other site 441772001582 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 441772001583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001584 Coenzyme A binding pocket [chemical binding]; other site 441772001585 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 441772001586 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 441772001587 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; cl12031 441772001588 Carbon starvation protein CstA; Region: CstA; pfam02554 441772001589 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 441772001590 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 441772001591 Cache domain; Region: Cache_1; pfam02743 441772001592 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001593 dimer interface [polypeptide binding]; other site 441772001594 putative CheW interface [polypeptide binding]; other site 441772001595 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772001596 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772001597 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772001598 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 441772001599 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 441772001600 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 441772001601 SEC-C motif; Region: SEC-C; pfam02810 441772001602 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772001603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772001604 DNA-binding site [nucleotide binding]; DNA binding site 441772001605 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 441772001606 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 441772001607 Walker A/P-loop; other site 441772001608 ATP binding site [chemical binding]; other site 441772001609 Q-loop/lid; other site 441772001610 ABC transporter signature motif; other site 441772001611 Walker B; other site 441772001612 D-loop; other site 441772001613 H-loop/switch region; other site 441772001614 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 441772001615 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 441772001616 Walker A/P-loop; other site 441772001617 ATP binding site [chemical binding]; other site 441772001618 Q-loop/lid; other site 441772001619 ABC transporter signature motif; other site 441772001620 Walker B; other site 441772001621 D-loop; other site 441772001622 H-loop/switch region; other site 441772001623 TOBE domain; Region: TOBE_2; cl01440 441772001624 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772001625 dimer interface [polypeptide binding]; other site 441772001626 conserved gate region; other site 441772001627 putative PBP binding loops; other site 441772001628 ABC-ATPase subunit interface; other site 441772001629 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 441772001630 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772001631 dimer interface [polypeptide binding]; other site 441772001632 conserved gate region; other site 441772001633 putative PBP binding loops; other site 441772001634 ABC-ATPase subunit interface; other site 441772001635 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 441772001636 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 441772001637 Cupin domain; Region: Cupin_2; cl09118 441772001638 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 441772001639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772001640 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 441772001641 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 441772001642 Short C-terminal domain; Region: SHOCT; cl01373 441772001643 putative acetyltransferase; Provisional; Region: PRK03624 441772001644 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001645 Coenzyme A binding pocket [chemical binding]; other site 441772001646 CAAX protease self-immunity; Region: Abi; cl00558 441772001647 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 441772001648 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 441772001649 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 441772001650 non-specific DNA binding site [nucleotide binding]; other site 441772001651 salt bridge; other site 441772001652 sequence-specific DNA binding site [nucleotide binding]; other site 441772001653 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 441772001654 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 441772001655 Catalytic site [active] 441772001656 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 441772001657 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 441772001658 active site 441772001659 phosphorylation site [posttranslational modification] 441772001660 intermolecular recognition site; other site 441772001661 dimerization interface [polypeptide binding]; other site 441772001662 LytTr DNA-binding domain; Region: LytTR; cl04498 441772001663 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 441772001664 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 441772001665 FeS/SAM binding site; other site 441772001666 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 441772001667 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772001668 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001669 Coenzyme A binding pocket [chemical binding]; other site 441772001670 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772001671 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772001672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001673 Walker A/P-loop; other site 441772001674 ATP binding site [chemical binding]; other site 441772001675 Q-loop/lid; other site 441772001676 ABC transporter signature motif; other site 441772001677 Walker B; other site 441772001678 D-loop; other site 441772001679 H-loop/switch region; other site 441772001680 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772001681 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772001682 FtsX-like permease family; Region: FtsX; cl15850 441772001683 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772001684 FtsX-like permease family; Region: FtsX; cl15850 441772001685 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772001686 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772001687 Walker A/P-loop; other site 441772001688 ATP binding site [chemical binding]; other site 441772001689 Q-loop/lid; other site 441772001690 ABC transporter signature motif; other site 441772001691 Walker B; other site 441772001692 D-loop; other site 441772001693 H-loop/switch region; other site 441772001694 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 441772001695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001696 Coenzyme A binding pocket [chemical binding]; other site 441772001697 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 441772001698 hypothetical protein; Provisional; Region: PRK04164 441772001699 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 441772001700 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 441772001701 Sulfatase; Region: Sulfatase; cl10460 441772001702 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772001703 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 441772001704 Walker A motif; other site 441772001705 ATP binding site [chemical binding]; other site 441772001706 Walker B motif; other site 441772001707 arginine finger; other site 441772001708 Helix-turn-helix domains; Region: HTH; cl00088 441772001709 nucleoside transporter; Region: nupC; TIGR00804 441772001710 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 441772001711 Nucleoside recognition; Region: Gate; cl00486 441772001712 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 441772001713 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 441772001714 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 441772001715 putative dimer interface [polypeptide binding]; other site 441772001716 putative anticodon binding site; other site 441772001717 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 441772001718 homodimer interface [polypeptide binding]; other site 441772001719 motif 1; other site 441772001720 motif 2; other site 441772001721 active site 441772001722 motif 3; other site 441772001723 Helix-turn-helix domains; Region: HTH; cl00088 441772001724 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 441772001725 LytTr DNA-binding domain; Region: LytTR; cl04498 441772001726 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772001727 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772001728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772001729 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772001730 CAAX protease self-immunity; Region: Abi; cl00558 441772001731 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 441772001732 non-specific DNA binding site [nucleotide binding]; other site 441772001733 salt bridge; other site 441772001734 sequence-specific DNA binding site [nucleotide binding]; other site 441772001735 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772001736 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772001737 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772001738 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 441772001739 active site 441772001740 phosphorylation site [posttranslational modification] 441772001741 intermolecular recognition site; other site 441772001742 dimerization interface [polypeptide binding]; other site 441772001743 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 441772001744 DNA binding site [nucleotide binding] 441772001745 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 441772001746 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 441772001747 dimerization interface [polypeptide binding]; other site 441772001748 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 441772001749 dimer interface [polypeptide binding]; other site 441772001750 phosphorylation site [posttranslational modification] 441772001751 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 441772001752 ATP binding site [chemical binding]; other site 441772001753 Mg2+ binding site [ion binding]; other site 441772001754 G-X-G motif; other site 441772001755 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 441772001756 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 441772001757 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772001758 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 441772001759 active site 441772001760 phosphorylation site [posttranslational modification] 441772001761 intermolecular recognition site; other site 441772001762 dimerization interface [polypeptide binding]; other site 441772001763 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 441772001764 DNA binding site [nucleotide binding] 441772001765 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772001766 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 441772001767 dimer interface [polypeptide binding]; other site 441772001768 phosphorylation site [posttranslational modification] 441772001769 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 441772001770 ATP binding site [chemical binding]; other site 441772001771 Mg2+ binding site [ion binding]; other site 441772001772 G-X-G motif; other site 441772001773 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772001774 Response regulator receiver domain; Region: Response_reg; pfam00072 441772001775 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 441772001776 active site 441772001777 phosphorylation site [posttranslational modification] 441772001778 intermolecular recognition site; other site 441772001779 dimerization interface [polypeptide binding]; other site 441772001780 YcbB domain; Region: YcbB; pfam08664 441772001781 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772001782 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 441772001783 ATP binding site [chemical binding]; other site 441772001784 Mg2+ binding site [ion binding]; other site 441772001785 G-X-G motif; other site 441772001786 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 441772001787 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 441772001788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772001789 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 441772001790 S-adenosylmethionine binding site [chemical binding]; other site 441772001791 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 441772001792 putative DNA binding site [nucleotide binding]; other site 441772001793 putative Zn2+ binding site [ion binding]; other site 441772001794 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772001795 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772001796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001797 Walker A/P-loop; other site 441772001798 ATP binding site [chemical binding]; other site 441772001799 Q-loop/lid; other site 441772001800 ABC transporter signature motif; other site 441772001801 Walker B; other site 441772001802 D-loop; other site 441772001803 H-loop/switch region; other site 441772001804 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 441772001805 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 441772001806 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772001807 Helix-turn-helix domains; Region: HTH; cl00088 441772001808 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 441772001809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001810 Coenzyme A binding pocket [chemical binding]; other site 441772001811 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 441772001812 dimer interface [polypeptide binding]; other site 441772001813 putative tRNA-binding site [nucleotide binding]; other site 441772001814 Cupin domain; Region: Cupin_2; cl09118 441772001815 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 441772001816 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772001817 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 441772001818 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 441772001819 non-specific DNA binding site [nucleotide binding]; other site 441772001820 salt bridge; other site 441772001821 sequence-specific DNA binding site [nucleotide binding]; other site 441772001822 Cupin domain; Region: Cupin_2; cl09118 441772001823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 441772001824 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001825 Q-loop/lid; other site 441772001826 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772001827 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 441772001828 Walker A/P-loop; other site 441772001829 ATP binding site [chemical binding]; other site 441772001830 Q-loop/lid; other site 441772001831 ABC transporter signature motif; other site 441772001832 Walker B; other site 441772001833 D-loop; other site 441772001834 H-loop/switch region; other site 441772001835 allantoate amidohydrolase; Reviewed; Region: PRK09290 441772001836 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 441772001837 active site 441772001838 metal binding site [ion binding]; metal-binding site 441772001839 dimer interface [polypeptide binding]; other site 441772001840 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 441772001841 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 441772001842 Walker A/P-loop; other site 441772001843 ATP binding site [chemical binding]; other site 441772001844 Q-loop/lid; other site 441772001845 ABC transporter signature motif; other site 441772001846 Walker B; other site 441772001847 D-loop; other site 441772001848 H-loop/switch region; other site 441772001849 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 441772001850 Protein of unknown function (DUF454); Region: DUF454; cl01063 441772001851 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 441772001852 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 441772001853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772001854 DNA-binding site [nucleotide binding]; DNA binding site 441772001855 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 441772001856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772001857 homodimer interface [polypeptide binding]; other site 441772001858 catalytic residue [active] 441772001859 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 441772001860 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 441772001861 ATP binding site [chemical binding]; other site 441772001862 Mg++ binding site [ion binding]; other site 441772001863 motif III; other site 441772001864 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 441772001865 nucleotide binding region [chemical binding]; other site 441772001866 ATP-binding site [chemical binding]; other site 441772001867 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 441772001868 diiron binding motif [ion binding]; other site 441772001869 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772001870 Helix-turn-helix domains; Region: HTH; cl00088 441772001871 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772001872 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772001873 putative substrate translocation pore; other site 441772001874 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772001875 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 441772001876 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 441772001877 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 441772001878 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 441772001879 Walker A/P-loop; other site 441772001880 ATP binding site [chemical binding]; other site 441772001881 Q-loop/lid; other site 441772001882 ABC transporter signature motif; other site 441772001883 Walker B; other site 441772001884 D-loop; other site 441772001885 H-loop/switch region; other site 441772001886 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772001887 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 441772001888 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 441772001889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772001890 Helix-turn-helix domains; Region: HTH; cl00088 441772001891 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 441772001892 dimerization interface [polypeptide binding]; other site 441772001893 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 441772001894 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772001895 CAT RNA binding domain; Region: CAT_RBD; cl03904 441772001896 PRD domain; Region: PRD; cl15445 441772001897 PRD domain; Region: PRD; cl15445 441772001898 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 441772001899 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 441772001900 active site turn [active] 441772001901 phosphorylation site [posttranslational modification] 441772001902 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772001903 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 441772001904 HPr interaction site; other site 441772001905 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772001906 active site 441772001907 phosphorylation site [posttranslational modification] 441772001908 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 441772001909 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772001910 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 441772001911 ligand binding site [chemical binding]; other site 441772001912 flexible hinge region; other site 441772001913 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 441772001914 putative switch regulator; other site 441772001915 non-specific DNA interactions [nucleotide binding]; other site 441772001916 DNA binding site [nucleotide binding] 441772001917 sequence specific DNA binding site [nucleotide binding]; other site 441772001918 putative cAMP binding site [chemical binding]; other site 441772001919 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 441772001920 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772001921 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772001922 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 441772001923 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 441772001924 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 441772001925 Family of unknown function (DUF438); Region: DUF438; pfam04282 441772001926 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 441772001927 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 441772001928 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772001929 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 441772001930 TM-ABC transporter signature motif; other site 441772001931 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 441772001932 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772001933 Walker A/P-loop; other site 441772001934 ATP binding site [chemical binding]; other site 441772001935 Q-loop/lid; other site 441772001936 ABC transporter signature motif; other site 441772001937 Walker B; other site 441772001938 D-loop; other site 441772001939 H-loop/switch region; other site 441772001940 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 441772001941 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 441772001942 zinc binding site [ion binding]; other site 441772001943 putative ligand binding site [chemical binding]; other site 441772001944 Helix-turn-helix domains; Region: HTH; cl00088 441772001945 RNA polymerase factor sigma-70; Validated; Region: PRK06811 441772001946 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772001947 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 441772001948 FMN binding site [chemical binding]; other site 441772001949 active site 441772001950 catalytic residues [active] 441772001951 substrate binding site [chemical binding]; other site 441772001952 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 441772001953 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 441772001954 Outer spore coat protein E (CotE); Region: CotE; pfam10628 441772001955 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772001956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772001957 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772001958 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 441772001959 intersubunit interface [polypeptide binding]; other site 441772001960 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 441772001961 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 441772001962 ABC-ATPase subunit interface; other site 441772001963 dimer interface [polypeptide binding]; other site 441772001964 putative PBP binding regions; other site 441772001965 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 441772001966 ABC-ATPase subunit interface; other site 441772001967 dimer interface [polypeptide binding]; other site 441772001968 putative PBP binding regions; other site 441772001969 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772001970 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772001971 Walker A/P-loop; other site 441772001972 ATP binding site [chemical binding]; other site 441772001973 Q-loop/lid; other site 441772001974 ABC transporter signature motif; other site 441772001975 Walker B; other site 441772001976 D-loop; other site 441772001977 H-loop/switch region; other site 441772001978 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772001979 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 441772001980 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 441772001981 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 441772001982 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 441772001983 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 441772001984 Cache domain; Region: Cache_1; pfam02743 441772001985 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 441772001986 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001987 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772001988 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001989 dimer interface [polypeptide binding]; other site 441772001990 putative CheW interface [polypeptide binding]; other site 441772001991 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 441772001992 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 441772001993 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 441772001994 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 441772001995 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 441772001996 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 441772001997 lipoyl attachment site [posttranslational modification]; other site 441772001998 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 441772001999 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 441772002000 tetramer interface [polypeptide binding]; other site 441772002001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002002 catalytic residue [active] 441772002003 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 441772002004 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 441772002005 tetramer interface [polypeptide binding]; other site 441772002006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002007 catalytic residue [active] 441772002008 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 441772002009 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772002010 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 441772002011 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 441772002012 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 441772002013 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 441772002014 Restriction endonuclease; Region: Mrr_cat; cl00516 441772002015 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 441772002016 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 441772002017 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772002018 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002019 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 441772002020 active site 441772002021 phosphorylation site [posttranslational modification] 441772002022 intermolecular recognition site; other site 441772002023 dimerization interface [polypeptide binding]; other site 441772002024 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 441772002025 DNA binding site [nucleotide binding] 441772002026 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772002027 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 441772002028 dimer interface [polypeptide binding]; other site 441772002029 phosphorylation site [posttranslational modification] 441772002030 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 441772002031 ATP binding site [chemical binding]; other site 441772002032 Mg2+ binding site [ion binding]; other site 441772002033 G-X-G motif; other site 441772002034 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772002035 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772002036 Walker A/P-loop; other site 441772002037 ATP binding site [chemical binding]; other site 441772002038 Q-loop/lid; other site 441772002039 ABC transporter signature motif; other site 441772002040 Walker B; other site 441772002041 D-loop; other site 441772002042 H-loop/switch region; other site 441772002043 FtsX-like permease family; Region: FtsX; cl15850 441772002044 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772002045 FtsX-like permease family; Region: FtsX; cl15850 441772002046 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772002047 Helix-turn-helix domains; Region: HTH; cl00088 441772002048 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772002049 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 441772002050 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 441772002051 DNA binding residues [nucleotide binding] 441772002052 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 441772002053 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002054 DNA binding residues [nucleotide binding] 441772002055 dimer interface [polypeptide binding]; other site 441772002056 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 441772002057 active site 441772002058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772002059 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772002060 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 441772002061 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 441772002062 Walker A/P-loop; other site 441772002063 ATP binding site [chemical binding]; other site 441772002064 Q-loop/lid; other site 441772002065 ABC transporter signature motif; other site 441772002066 Walker B; other site 441772002067 D-loop; other site 441772002068 H-loop/switch region; other site 441772002069 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772002070 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 441772002071 EamA-like transporter family; Region: EamA; cl01037 441772002072 EamA-like transporter family; Region: EamA; cl01037 441772002073 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772002074 Cupin domain; Region: Cupin_2; cl09118 441772002075 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002076 Coenzyme A binding pocket [chemical binding]; other site 441772002077 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002078 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002079 TfoX N-terminal domain; Region: TfoX_N; cl01167 441772002080 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 441772002081 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 441772002082 dimer interface [polypeptide binding]; other site 441772002083 active site 441772002084 CoA binding pocket [chemical binding]; other site 441772002085 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 441772002086 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 441772002087 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772002088 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772002089 dimer interface [polypeptide binding]; other site 441772002090 putative CheW interface [polypeptide binding]; other site 441772002091 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772002092 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772002093 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772002094 ABC transporter; Region: ABC_tran_2; pfam12848 441772002095 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772002096 Predicted transcriptional regulator [Transcription]; Region: COG2378 441772002097 Helix-turn-helix domains; Region: HTH; cl00088 441772002098 WYL domain; Region: WYL; cl14852 441772002099 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 441772002100 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 441772002101 conserved cys residue [active] 441772002102 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 441772002103 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 441772002104 dimer interface [polypeptide binding]; other site 441772002105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002106 catalytic residue [active] 441772002107 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 441772002108 cystathionine beta-lyase; Provisional; Region: PRK07671 441772002109 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 441772002110 homodimer interface [polypeptide binding]; other site 441772002111 substrate-cofactor binding pocket; other site 441772002112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002113 catalytic residue [active] 441772002114 Methyltransferase domain; Region: Methyltransf_31; pfam13847 441772002115 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 441772002116 S-adenosylmethionine binding site [chemical binding]; other site 441772002117 Glyco_18 domain; Region: Glyco_18; smart00636 441772002118 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 441772002119 active site 441772002120 Chitinase C; Region: ChiC; pfam06483 441772002121 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 441772002122 metal-binding site [ion binding] 441772002123 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 441772002124 Domain of unknown function (DUF955); Region: DUF955; cl01076 441772002125 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 441772002126 non-specific DNA binding site [nucleotide binding]; other site 441772002127 salt bridge; other site 441772002128 sequence-specific DNA binding site [nucleotide binding]; other site 441772002129 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 441772002130 non-specific DNA binding site [nucleotide binding]; other site 441772002131 salt bridge; other site 441772002132 sequence-specific DNA binding site [nucleotide binding]; other site 441772002133 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 441772002134 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772002135 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772002136 DNA binding residues [nucleotide binding] 441772002137 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 441772002138 active site 441772002139 metal binding site [ion binding]; metal-binding site 441772002140 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 441772002141 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 441772002142 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 441772002143 putative peptidoglycan binding site; other site 441772002144 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 441772002145 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 441772002146 Low molecular weight phosphatase family; Region: LMWPc; cl00105 441772002147 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 441772002148 active site 441772002149 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 441772002150 dimerization interface [polypeptide binding]; other site 441772002151 putative DNA binding site [nucleotide binding]; other site 441772002152 putative Zn2+ binding site [ion binding]; other site 441772002153 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 441772002154 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 441772002155 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 441772002156 P loop; other site 441772002157 Nucleotide binding site [chemical binding]; other site 441772002158 DTAP/Switch II; other site 441772002159 Switch I; other site 441772002160 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 441772002161 P loop; other site 441772002162 Nucleotide binding site [chemical binding]; other site 441772002163 DTAP/Switch II; other site 441772002164 Switch I; other site 441772002165 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 441772002166 Membrane transport protein; Region: Mem_trans; cl09117 441772002167 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 441772002168 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 441772002169 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 441772002170 dimerization interface [polypeptide binding]; other site 441772002171 putative DNA binding site [nucleotide binding]; other site 441772002172 putative Zn2+ binding site [ion binding]; other site 441772002173 Methyltransferase domain; Region: Methyltransf_31; pfam13847 441772002174 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 441772002175 S-adenosylmethionine binding site [chemical binding]; other site 441772002176 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 441772002177 catalytic core [active] 441772002178 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 441772002179 salt bridge; other site 441772002180 non-specific DNA binding site [nucleotide binding]; other site 441772002181 sequence-specific DNA binding site [nucleotide binding]; other site 441772002182 Low molecular weight phosphatase family; Region: LMWPc; cl00105 441772002183 Clostridium P-47 protein; Region: Clostridium_P47; pfam06597 441772002184 Clostridium P-47 protein; Region: Clostridium_P47; pfam06597 441772002185 clostridium toxin-associated regulator BotR; Region: P21_Cbot; TIGR03209 441772002186 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772002187 DNA binding residues [nucleotide binding] 441772002188 Clostridium P-47 protein; Region: Clostridium_P47; pfam06597 441772002189 Clostridial neurotoxin zinc protease; Region: Peptidase_M27; pfam01742 441772002190 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 441772002191 Nontoxic nonhaemagglutinin C-terminal; Region: NTNH_C; pfam08470 441772002192 Clostridial neurotoxin zinc protease; Region: Peptidase_M27; pfam01742 441772002193 Clostridium neurotoxin, Translocation domain; Region: Toxin_trans; pfam07952 441772002194 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 441772002195 Clostridium neurotoxin, C-terminal receptor binding; Region: Toxin_R_bind_C; pfam07951 441772002196 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 441772002197 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 441772002198 active site 441772002199 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 441772002200 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 441772002201 dimerization interface [polypeptide binding]; other site 441772002202 active site 441772002203 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 441772002204 S-adenosylmethionine binding site [chemical binding]; other site 441772002205 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 441772002206 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 441772002207 dimer interface [polypeptide binding]; other site 441772002208 substrate binding site [chemical binding]; other site 441772002209 ATP binding site [chemical binding]; other site 441772002210 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 441772002211 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 441772002212 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 441772002213 Walker A/P-loop; other site 441772002214 ATP binding site [chemical binding]; other site 441772002215 Q-loop/lid; other site 441772002216 ABC transporter signature motif; other site 441772002217 Walker B; other site 441772002218 D-loop; other site 441772002219 H-loop/switch region; other site 441772002220 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002221 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 441772002222 active site 441772002223 phosphorylation site [posttranslational modification] 441772002224 intermolecular recognition site; other site 441772002225 dimerization interface [polypeptide binding]; other site 441772002226 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 441772002227 DNA binding site [nucleotide binding] 441772002228 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772002229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772002230 Walker A/P-loop; other site 441772002231 ATP binding site [chemical binding]; other site 441772002232 Q-loop/lid; other site 441772002233 ABC transporter signature motif; other site 441772002234 Walker B; other site 441772002235 D-loop; other site 441772002236 H-loop/switch region; other site 441772002237 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772002238 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772002239 Helix-turn-helix domain; Region: HTH_18; pfam12833 441772002240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002241 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772002242 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 441772002243 dimer interface [polypeptide binding]; other site 441772002244 phosphorylation site [posttranslational modification] 441772002245 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 441772002246 ATP binding site [chemical binding]; other site 441772002247 Mg2+ binding site [ion binding]; other site 441772002248 G-X-G motif; other site 441772002249 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 441772002250 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772002251 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772002252 Walker A/P-loop; other site 441772002253 ATP binding site [chemical binding]; other site 441772002254 Q-loop/lid; other site 441772002255 ABC transporter signature motif; other site 441772002256 Walker B; other site 441772002257 D-loop; other site 441772002258 H-loop/switch region; other site 441772002259 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772002260 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772002261 FtsX-like permease family; Region: FtsX; cl15850 441772002262 FtsX-like permease family; Region: FtsX; cl15850 441772002263 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002264 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 441772002265 active site 441772002266 phosphorylation site [posttranslational modification] 441772002267 intermolecular recognition site; other site 441772002268 dimerization interface [polypeptide binding]; other site 441772002269 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 441772002270 DNA binding site [nucleotide binding] 441772002271 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 441772002272 dimer interface [polypeptide binding]; other site 441772002273 phosphorylation site [posttranslational modification] 441772002274 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 441772002275 ATP binding site [chemical binding]; other site 441772002276 Mg2+ binding site [ion binding]; other site 441772002277 G-X-G motif; other site 441772002278 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 441772002279 Small acid-soluble spore protein H family; Region: SspH; cl06949 441772002280 dihydrodipicolinate reductase; Provisional; Region: PRK00048 441772002281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772002282 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 441772002283 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 441772002284 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 441772002285 active site residue [active] 441772002286 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 441772002287 active site residue [active] 441772002288 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 441772002289 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 441772002290 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772002291 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 441772002292 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 441772002293 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772002294 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 441772002295 non-specific DNA binding site [nucleotide binding]; other site 441772002296 salt bridge; other site 441772002297 sequence-specific DNA binding site [nucleotide binding]; other site 441772002298 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 441772002299 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 441772002300 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 441772002301 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 441772002302 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 441772002303 active site 441772002304 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 441772002305 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 441772002306 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772002307 dimer interface [polypeptide binding]; other site 441772002308 putative CheW interface [polypeptide binding]; other site 441772002309 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 441772002310 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 441772002311 FeoA domain; Region: FeoA; cl00838 441772002312 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 441772002313 catalytic core [active] 441772002314 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 441772002315 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772002316 VanW like protein; Region: VanW; pfam04294 441772002317 G5 domain; Region: G5; pfam07501 441772002318 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 441772002319 AIR synthase related protein, N-terminal domain; Region: AIRS; pfam00586 441772002320 Coat F domain; Region: Coat_F; cl15836 441772002321 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 441772002322 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 441772002323 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 441772002324 NodB motif; other site 441772002325 putative active site [active] 441772002326 putative catalytic site [active] 441772002327 putative Zn binding site [ion binding]; other site 441772002328 CGGC domain; Region: CGGC; cl02356 441772002329 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 441772002330 active site 441772002331 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 441772002332 dihydropteroate synthase; Region: DHPS; TIGR01496 441772002333 substrate binding pocket [chemical binding]; other site 441772002334 dimer interface [polypeptide binding]; other site 441772002335 inhibitor binding site; inhibition site 441772002336 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 441772002337 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 441772002338 catalytic center binding site [active] 441772002339 ATP binding site [chemical binding]; other site 441772002340 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 441772002341 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 441772002342 putative dimer interface [polypeptide binding]; other site 441772002343 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 441772002344 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002345 DNA binding residues [nucleotide binding] 441772002346 dimer interface [polypeptide binding]; other site 441772002347 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 441772002348 S-adenosylmethionine binding site [chemical binding]; other site 441772002349 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 441772002350 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 441772002351 inhibitor-cofactor binding pocket; inhibition site 441772002352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002353 catalytic residue [active] 441772002354 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 441772002355 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 441772002356 inhibitor-cofactor binding pocket; inhibition site 441772002357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002358 catalytic residue [active] 441772002359 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 441772002360 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772002361 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 441772002362 DNA binding residues [nucleotide binding] 441772002363 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 441772002364 Flavin Reductases; Region: FlaRed; cl00801 441772002365 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; cl12031 441772002366 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 441772002367 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 441772002368 Cadmium resistance transporter; Region: Cad; cl04177 441772002369 Protein of unknown function (DUF523); Region: DUF523; cl00733 441772002370 Uncharacterized conserved protein [Function unknown]; Region: COG2128 441772002371 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 441772002372 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 441772002373 putative DNA binding site [nucleotide binding]; other site 441772002374 putative Zn2+ binding site [ion binding]; other site 441772002375 Helix-turn-helix domains; Region: HTH; cl00088 441772002376 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772002377 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772002378 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 441772002379 Walker A/P-loop; other site 441772002380 ATP binding site [chemical binding]; other site 441772002381 Q-loop/lid; other site 441772002382 ABC transporter signature motif; other site 441772002383 Walker B; other site 441772002384 D-loop; other site 441772002385 H-loop/switch region; other site 441772002386 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 441772002387 non-specific DNA binding site [nucleotide binding]; other site 441772002388 salt bridge; other site 441772002389 sequence-specific DNA binding site [nucleotide binding]; other site 441772002390 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772002391 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772002392 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 441772002393 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 441772002394 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 441772002395 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 441772002396 DNA binding residues [nucleotide binding] 441772002397 dimer interface [polypeptide binding]; other site 441772002398 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002399 Coenzyme A binding pocket [chemical binding]; other site 441772002400 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 441772002401 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002402 Coenzyme A binding pocket [chemical binding]; other site 441772002403 Pirin-related protein [General function prediction only]; Region: COG1741 441772002404 Cupin domain; Region: Cupin_2; cl09118 441772002405 Helix-turn-helix domains; Region: HTH; cl00088 441772002406 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 441772002407 dimer interface [polypeptide binding]; other site 441772002408 FMN binding site [chemical binding]; other site 441772002409 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 441772002410 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 441772002411 Cupin domain; Region: Cupin_2; cl09118 441772002412 Cupin domain; Region: Cupin_2; cl09118 441772002413 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 441772002414 Protein of unknown function, DUF606; Region: DUF606; cl01273 441772002415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772002416 Helix-turn-helix domains; Region: HTH; cl00088 441772002417 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 441772002418 dimerization interface [polypeptide binding]; other site 441772002419 dUMP phosphatase; Provisional; Region: PRK09449 441772002420 dUMP phosphatase; Provisional; Region: PRK09449 441772002421 Protein of unknown function, DUF606; Region: DUF606; cl01273 441772002422 Protein of unknown function, DUF606; Region: DUF606; cl01273 441772002423 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 441772002424 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 441772002425 ligand binding site [chemical binding]; other site 441772002426 flexible hinge region; other site 441772002427 Helix-turn-helix domains; Region: HTH; cl00088 441772002428 Predicted transcriptional regulator [Transcription]; Region: COG2378 441772002429 Helix-turn-helix domains; Region: HTH; cl00088 441772002430 WYL domain; Region: WYL; cl14852 441772002431 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 441772002432 Uncharacterized conserved protein [Function unknown]; Region: COG2966 441772002433 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 441772002434 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 441772002435 DNA binding residues [nucleotide binding] 441772002436 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 441772002437 active site 441772002438 catalytic residues [active] 441772002439 metal binding site [ion binding]; metal-binding site 441772002440 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 441772002441 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772002442 DNA-binding site [nucleotide binding]; DNA binding site 441772002443 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 441772002444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002445 homodimer interface [polypeptide binding]; other site 441772002446 catalytic residue [active] 441772002447 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002448 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002449 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002450 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 441772002451 putative FMN binding site [chemical binding]; other site 441772002452 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 441772002453 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772002454 CAT RNA binding domain; Region: CAT_RBD; cl03904 441772002455 PRD domain; Region: PRD; cl15445 441772002456 PRD domain; Region: PRD; cl15445 441772002457 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 441772002458 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 441772002459 active site turn [active] 441772002460 phosphorylation site [posttranslational modification] 441772002461 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772002462 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 441772002463 HPr interaction site; other site 441772002464 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772002465 active site 441772002466 phosphorylation site [posttranslational modification] 441772002467 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 441772002468 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 441772002469 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 441772002470 Mg++ binding site [ion binding]; other site 441772002471 putative catalytic motif [active] 441772002472 putative substrate binding site [chemical binding]; other site 441772002473 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 441772002474 non-specific DNA binding site [nucleotide binding]; other site 441772002475 sequence-specific DNA binding site [nucleotide binding]; other site 441772002476 salt bridge; other site 441772002477 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002478 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 441772002479 active site 441772002480 phosphorylation site [posttranslational modification] 441772002481 intermolecular recognition site; other site 441772002482 dimerization interface [polypeptide binding]; other site 441772002483 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 441772002484 DNA binding site [nucleotide binding] 441772002485 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772002486 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 441772002487 dimer interface [polypeptide binding]; other site 441772002488 phosphorylation site [posttranslational modification] 441772002489 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 441772002490 ATP binding site [chemical binding]; other site 441772002491 Mg2+ binding site [ion binding]; other site 441772002492 G-X-G motif; other site 441772002493 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772002494 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772002495 Walker A/P-loop; other site 441772002496 ATP binding site [chemical binding]; other site 441772002497 Q-loop/lid; other site 441772002498 ABC transporter signature motif; other site 441772002499 Walker B; other site 441772002500 D-loop; other site 441772002501 H-loop/switch region; other site 441772002502 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772002503 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772002504 FtsX-like permease family; Region: FtsX; cl15850 441772002505 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772002506 Helix-turn-helix domains; Region: HTH; cl00088 441772002507 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 441772002508 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 441772002509 FeS/SAM binding site; other site 441772002510 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 441772002511 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002512 DNA binding residues [nucleotide binding] 441772002513 dimer interface [polypeptide binding]; other site 441772002514 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 441772002515 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 441772002516 putative hexamer interface [polypeptide binding]; other site 441772002517 putative hexagonal pore; other site 441772002518 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 441772002519 putative hexamer interface [polypeptide binding]; other site 441772002520 putative hexagonal pore; other site 441772002521 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 441772002522 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 441772002523 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 441772002524 active site 441772002525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002526 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002528 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772002529 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 441772002530 agmatine deiminase; Region: agmatine_aguA; TIGR03380 441772002531 EamA-like transporter family; Region: EamA; cl01037 441772002532 EamA-like transporter family; Region: EamA; cl01037 441772002533 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 441772002534 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 441772002535 YmaF family; Region: YmaF; pfam12788 441772002536 Amino acid permease; Region: AA_permease_2; pfam13520 441772002537 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772002538 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772002539 Walker A/P-loop; other site 441772002540 ATP binding site [chemical binding]; other site 441772002541 Q-loop/lid; other site 441772002542 ABC transporter signature motif; other site 441772002543 Walker B; other site 441772002544 D-loop; other site 441772002545 H-loop/switch region; other site 441772002546 FtsX-like permease family; Region: FtsX; cl15850 441772002547 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002548 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 441772002549 active site 441772002550 phosphorylation site [posttranslational modification] 441772002551 intermolecular recognition site; other site 441772002552 dimerization interface [polypeptide binding]; other site 441772002553 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 441772002554 DNA binding site [nucleotide binding] 441772002555 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 441772002556 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 441772002557 dimerization interface [polypeptide binding]; other site 441772002558 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 441772002559 dimer interface [polypeptide binding]; other site 441772002560 phosphorylation site [posttranslational modification] 441772002561 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 441772002562 ATP binding site [chemical binding]; other site 441772002563 Mg2+ binding site [ion binding]; other site 441772002564 G-X-G motif; other site 441772002565 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 441772002566 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 441772002567 Sel1 repeat; Region: Sel1; cl02723 441772002568 Sel1 repeat; Region: Sel1; cl02723 441772002569 Sel1 repeat; Region: Sel1; cl02723 441772002570 Sel1 repeat; Region: Sel1; cl02723 441772002571 putative acetyltransferase YhhY; Provisional; Region: PRK10140 441772002572 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002573 Coenzyme A binding pocket [chemical binding]; other site 441772002574 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 441772002575 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 441772002576 Catalytic site [active] 441772002577 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 441772002578 homotrimer interface [polypeptide binding]; other site 441772002579 Walker A motif; other site 441772002580 GTP binding site [chemical binding]; other site 441772002581 Walker B motif; other site 441772002582 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 441772002583 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002584 DNA binding residues [nucleotide binding] 441772002585 dimer interface [polypeptide binding]; other site 441772002586 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 441772002587 cobyric acid synthase; Provisional; Region: PRK00784 441772002588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772002589 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772002590 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 441772002591 catalytic triad [active] 441772002592 CobD/Cbib protein; Region: CobD_Cbib; cl00561 441772002593 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 441772002594 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 441772002595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002596 homodimer interface [polypeptide binding]; other site 441772002597 catalytic residue [active] 441772002598 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 441772002599 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 441772002600 Cobalt transport protein component CbiN; Region: CbiN; cl00842 441772002601 Cobalt transport protein; Region: CbiQ; cl00463 441772002602 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 441772002603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772002604 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 441772002605 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 441772002606 domain interfaces; other site 441772002607 active site 441772002608 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 441772002609 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 441772002610 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 441772002611 active site 441772002612 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 441772002613 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 441772002614 dimer interface [polypeptide binding]; other site 441772002615 active site 441772002616 Schiff base residues; other site 441772002617 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 441772002618 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772002619 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 441772002620 catalytic triad [active] 441772002621 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772002622 maltose O-acetyltransferase; Provisional; Region: PRK10092 441772002623 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 441772002624 active site 441772002625 substrate binding site [chemical binding]; other site 441772002626 trimer interface [polypeptide binding]; other site 441772002627 CoA binding site [chemical binding]; other site 441772002628 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 441772002629 Precorrin-8X methylmutase; Region: CbiC; pfam02570 441772002630 Predicted ATPase [General function prediction only]; Region: COG3910 441772002631 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are...; Region: ABC_Class2; cd03227 441772002632 Walker A/P-loop; other site 441772002633 ATP binding site [chemical binding]; other site 441772002634 Q-loop/lid; other site 441772002635 ABC transporter signature motif; other site 441772002636 Walker B; other site 441772002637 D-loop; other site 441772002638 H-loop/switch region; other site 441772002639 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 441772002640 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002641 DNA binding residues [nucleotide binding] 441772002642 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772002643 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 441772002644 FMN binding site [chemical binding]; other site 441772002645 dimer interface [polypeptide binding]; other site 441772002646 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 441772002647 CbiD; Region: CbiD; cl00828 441772002648 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 441772002649 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 441772002650 SdpI/YhfL protein family; Region: SdpI; pfam13630 441772002651 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 441772002652 S-adenosylmethionine binding site [chemical binding]; other site 441772002653 hypothetical protein; Provisional; Region: PRK06771 441772002654 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772002655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002656 Coenzyme A binding pocket [chemical binding]; other site 441772002657 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 441772002658 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 441772002659 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 441772002660 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 441772002661 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 441772002662 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 441772002663 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 441772002664 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 441772002665 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 441772002666 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 441772002667 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 441772002668 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 441772002669 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 441772002670 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 441772002671 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 441772002672 active site 441772002673 C-terminal domain interface [polypeptide binding]; other site 441772002674 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 441772002675 active site 441772002676 N-terminal domain interface [polypeptide binding]; other site 441772002677 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 441772002678 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 441772002679 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 441772002680 homodimer interface [polypeptide binding]; other site 441772002681 Walker A motif; other site 441772002682 ATP binding site [chemical binding]; other site 441772002683 hydroxycobalamin binding site [chemical binding]; other site 441772002684 Walker B motif; other site 441772002685 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772002686 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 441772002687 ligand binding site [chemical binding]; other site 441772002688 flexible hinge region; other site 441772002689 Helix-turn-helix domains; Region: HTH; cl00088 441772002690 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 441772002691 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 441772002692 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 441772002693 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 441772002694 FAD binding pocket [chemical binding]; other site 441772002695 FAD binding motif [chemical binding]; other site 441772002696 phosphate binding motif [ion binding]; other site 441772002697 beta-alpha-beta structure motif; other site 441772002698 NAD binding pocket [chemical binding]; other site 441772002699 Iron coordination center [ion binding]; other site 441772002700 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 441772002701 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 441772002702 4Fe-4S binding domain; Region: Fer4; cl02805 441772002703 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 441772002704 putative MPT binding site; other site 441772002705 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772002706 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772002707 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 441772002708 Walker A/P-loop; other site 441772002709 ATP binding site [chemical binding]; other site 441772002710 Q-loop/lid; other site 441772002711 ABC transporter signature motif; other site 441772002712 Walker B; other site 441772002713 D-loop; other site 441772002714 H-loop/switch region; other site 441772002715 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 441772002716 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002717 active site 441772002718 phosphorylation site [posttranslational modification] 441772002719 intermolecular recognition site; other site 441772002720 dimerization interface [polypeptide binding]; other site 441772002721 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 441772002722 DNA binding site [nucleotide binding] 441772002723 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 441772002724 dimer interface [polypeptide binding]; other site 441772002725 phosphorylation site [posttranslational modification] 441772002726 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 441772002727 ATP binding site [chemical binding]; other site 441772002728 Mg2+ binding site [ion binding]; other site 441772002729 G-X-G motif; other site 441772002730 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772002731 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772002732 Walker A/P-loop; other site 441772002733 ATP binding site [chemical binding]; other site 441772002734 Q-loop/lid; other site 441772002735 ABC transporter signature motif; other site 441772002736 Walker B; other site 441772002737 D-loop; other site 441772002738 H-loop/switch region; other site 441772002739 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 441772002740 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 441772002741 ABC-ATPase subunit interface; other site 441772002742 dimer interface [polypeptide binding]; other site 441772002743 putative PBP binding regions; other site 441772002744 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 441772002745 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 441772002746 putative ligand binding residues [chemical binding]; other site 441772002747 dihydroxyacetone kinase; Provisional; Region: PRK14479 441772002748 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 441772002749 DAK2 domain; Region: Dak2; cl03685 441772002750 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 441772002751 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 441772002752 dimer interface [polypeptide binding]; other site 441772002753 active site 441772002754 metal binding site [ion binding]; metal-binding site 441772002755 Sensory domain found in PocR; Region: PocR; pfam10114 441772002756 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 441772002757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002758 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002760 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 441772002761 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002762 Coenzyme A binding pocket [chemical binding]; other site 441772002763 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002764 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772002765 Coenzyme A binding pocket [chemical binding]; other site 441772002766 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 441772002767 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 441772002768 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 441772002769 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 441772002770 active site 441772002771 catalytic tetrad [active] 441772002772 TfoX N-terminal domain; Region: TfoX_N; cl01167 441772002773 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772002774 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772002775 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 441772002776 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 441772002777 active site 441772002778 purine riboside binding site [chemical binding]; other site 441772002779 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 441772002780 Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may...; Region: SynN; cl00143 441772002781 nSec1 interaction sites; other site 441772002782 interdomain interaction site; other site 441772002783 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 441772002784 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772002785 Predicted membrane protein [Function unknown]; Region: COG1511 441772002786 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 441772002787 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772002788 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 441772002789 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 441772002790 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 441772002791 ATP binding site [chemical binding]; other site 441772002792 putative Mg++ binding site [ion binding]; other site 441772002793 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 441772002794 nucleotide binding region [chemical binding]; other site 441772002795 ATP-binding site [chemical binding]; other site 441772002796 RQC domain; Region: RQC; cl09632 441772002797 HRDC domain; Region: HRDC; cl02578 441772002798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 441772002799 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 441772002800 diiron binding motif [ion binding]; other site 441772002801 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 441772002802 active site 441772002803 metal binding site [ion binding]; metal-binding site 441772002804 homotetramer interface [polypeptide binding]; other site 441772002805 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 441772002806 active site 441772002807 phosphorylation site [posttranslational modification] 441772002808 intermolecular recognition site; other site 441772002809 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 441772002810 TPR motif; other site 441772002811 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 441772002812 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 441772002813 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 441772002814 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 441772002815 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 441772002816 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 441772002817 FeS/SAM binding site; other site 441772002818 Ycf46; Provisional; Region: ycf46; CHL00195 441772002819 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 441772002820 Walker A motif; other site 441772002821 ATP binding site [chemical binding]; other site 441772002822 Walker B motif; other site 441772002823 arginine finger; other site 441772002824 glycolate transporter; Provisional; Region: PRK09695 441772002825 L-lactate permease; Region: Lactate_perm; cl00701 441772002826 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 441772002827 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 441772002828 Ligand binding site [chemical binding]; other site 441772002829 Electron transfer flavoprotein domain; Region: ETF; pfam01012 441772002830 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 441772002831 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 441772002832 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 441772002833 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772002834 FAD binding domain; Region: FAD_binding_4; pfam01565 441772002835 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 441772002836 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772002837 Helix-turn-helix domains; Region: HTH; cl00088 441772002838 Putative cyclase; Region: Cyclase; cl00814 441772002839 aspartate aminotransferase; Provisional; Region: PRK06836 441772002840 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 441772002841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002842 homodimer interface [polypeptide binding]; other site 441772002843 catalytic residue [active] 441772002844 Putative cyclase; Region: Cyclase; cl00814 441772002845 Helix-turn-helix domains; Region: HTH; cl00088 441772002846 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 441772002847 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002848 DNA binding residues [nucleotide binding] 441772002849 drug binding residues [chemical binding]; other site 441772002850 dimer interface [polypeptide binding]; other site 441772002851 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772002852 B3/4 domain; Region: B3_4; cl11458 441772002853 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 441772002854 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 441772002855 Dimer interface [polypeptide binding]; other site 441772002856 anticodon binding site; other site 441772002857 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 441772002858 homodimer interface [polypeptide binding]; other site 441772002859 motif 1; other site 441772002860 motif 2; other site 441772002861 active site 441772002862 motif 3; other site 441772002863 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 441772002864 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772002865 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 441772002866 Helix-turn-helix domains; Region: HTH; cl00088 441772002867 WHG domain; Region: WHG; pfam13305 441772002868 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772002869 dUMP phosphatase; Provisional; Region: PRK09449 441772002870 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 441772002871 motif II; other site 441772002872 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 441772002873 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 441772002874 ligand binding site [chemical binding]; other site 441772002875 flexible hinge region; other site 441772002876 Helix-turn-helix domains; Region: HTH; cl00088 441772002877 DJ-1 family protein; Region: not_thiJ; TIGR01383 441772002878 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 441772002879 conserved cys residue [active] 441772002880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772002881 Helix-turn-helix domains; Region: HTH; cl00088 441772002882 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 441772002883 dimerization interface [polypeptide binding]; other site 441772002884 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772002885 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772002886 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772002887 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 441772002888 YoaP-like; Region: YoaP; pfam14268 441772002889 FeoA domain; Region: FeoA; cl00838 441772002890 FeoA domain; Region: FeoA; cl00838 441772002891 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 441772002892 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 441772002893 G1 box; other site 441772002894 GTP/Mg2+ binding site [chemical binding]; other site 441772002895 Switch I region; other site 441772002896 G2 box; other site 441772002897 G3 box; other site 441772002898 Switch II region; other site 441772002899 G4 box; other site 441772002900 G5 box; other site 441772002901 Nucleoside recognition; Region: Gate; cl00486 441772002902 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 441772002903 Nucleoside recognition; Region: Gate; cl00486 441772002904 Protein of unknown function (DUF421); Region: DUF421; cl00990 441772002905 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772002906 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002907 Coenzyme A binding pocket [chemical binding]; other site 441772002908 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 441772002909 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 441772002910 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830; cl07951 441772002911 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772002912 Helix-turn-helix domains; Region: HTH; cl00088 441772002913 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 441772002914 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772002915 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 441772002916 active site 441772002917 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002918 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 441772002919 active site 441772002920 phosphorylation site [posttranslational modification] 441772002921 intermolecular recognition site; other site 441772002922 dimerization interface [polypeptide binding]; other site 441772002923 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 441772002924 DNA binding site [nucleotide binding] 441772002925 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 441772002926 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 441772002927 dimer interface [polypeptide binding]; other site 441772002928 phosphorylation site [posttranslational modification] 441772002929 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 441772002930 ATP binding site [chemical binding]; other site 441772002931 Mg2+ binding site [ion binding]; other site 441772002932 G-X-G motif; other site 441772002933 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 441772002934 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 441772002935 metal-binding site [ion binding] 441772002936 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 441772002937 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 441772002938 Short C-terminal domain; Region: SHOCT; cl01373 441772002939 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002940 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 441772002941 active site 441772002942 phosphorylation site [posttranslational modification] 441772002943 intermolecular recognition site; other site 441772002944 dimerization interface [polypeptide binding]; other site 441772002945 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 441772002946 DNA binding site [nucleotide binding] 441772002947 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 441772002948 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 441772002949 dimer interface [polypeptide binding]; other site 441772002950 phosphorylation site [posttranslational modification] 441772002951 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 441772002952 ATP binding site [chemical binding]; other site 441772002953 Mg2+ binding site [ion binding]; other site 441772002954 G-X-G motif; other site 441772002955 A new structural DNA glycosylase; Region: AlkD_like; cd06561 441772002956 active site 441772002957 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002958 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002959 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002960 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 441772002961 ABC-ATPase subunit interface; other site 441772002962 dimer interface [polypeptide binding]; other site 441772002963 putative PBP binding regions; other site 441772002964 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 441772002965 ABC-ATPase subunit interface; other site 441772002966 dimer interface [polypeptide binding]; other site 441772002967 putative PBP binding regions; other site 441772002968 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 441772002969 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772002970 Walker A/P-loop; other site 441772002971 ATP binding site [chemical binding]; other site 441772002972 Q-loop/lid; other site 441772002973 ABC transporter signature motif; other site 441772002974 Walker B; other site 441772002975 D-loop; other site 441772002976 H-loop/switch region; other site 441772002977 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 441772002978 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 441772002979 putative ligand binding residues [chemical binding]; other site 441772002980 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002981 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002982 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772002983 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772002984 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 441772002985 Walker A/P-loop; other site 441772002986 ATP binding site [chemical binding]; other site 441772002987 Q-loop/lid; other site 441772002988 ABC transporter signature motif; other site 441772002989 Walker B; other site 441772002990 D-loop; other site 441772002991 H-loop/switch region; other site 441772002992 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772002993 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772002994 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 441772002995 Walker A/P-loop; other site 441772002996 ATP binding site [chemical binding]; other site 441772002997 Q-loop/lid; other site 441772002998 ABC transporter signature motif; other site 441772002999 Walker B; other site 441772003000 D-loop; other site 441772003001 H-loop/switch region; other site 441772003002 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 441772003003 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; cl00075 441772003004 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 441772003005 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 441772003006 active site 441772003007 phosphorylation site [posttranslational modification] 441772003008 intermolecular recognition site; other site 441772003009 dimerization interface [polypeptide binding]; other site 441772003010 LytTr DNA-binding domain; Region: LytTR; cl04498 441772003011 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 441772003012 Fibronectin type III-like domain; Region: Fn3-like; cl15273 441772003013 Fibronectin type III-like domain; Region: Fn3-like; cl15273 441772003014 Fibronectin type III-like domain; Region: Fn3-like; cl15273 441772003015 Fibronectin type III-like domain; Region: Fn3-like; cl15273 441772003016 Fibronectin type III-like domain; Region: Fn3-like; cl15273 441772003017 Fibronectin type III-like domain; Region: Fn3-like; cl15273 441772003018 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 441772003019 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 441772003020 putative active site [active] 441772003021 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 441772003022 Interdomain contacts; other site 441772003023 Cytokine receptor motif; other site 441772003024 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 441772003025 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 441772003026 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 441772003027 catalytic residues [active] 441772003028 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 441772003029 Predicted membrane protein [Function unknown]; Region: COG4129 441772003030 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 441772003031 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 441772003032 Predicted Ser/Thr protein kinase [Signal transduction mechanisms]; Region: COG2112 441772003033 CAAX protease self-immunity; Region: Abi; cl00558 441772003034 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772003035 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772003036 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772003037 Walker A/P-loop; other site 441772003038 ATP binding site [chemical binding]; other site 441772003039 Q-loop/lid; other site 441772003040 ABC transporter signature motif; other site 441772003041 Walker B; other site 441772003042 D-loop; other site 441772003043 H-loop/switch region; other site 441772003044 ABC transporter; Region: ABC_tran_2; pfam12848 441772003045 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772003046 Nucleoside recognition; Region: Gate; cl00486 441772003047 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 441772003048 ArsC family; Region: ArsC; pfam03960 441772003049 catalytic residue [active] 441772003050 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 441772003051 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 441772003052 FeS/SAM binding site; other site 441772003053 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 441772003054 Predicted dehydrogenase [General function prediction only]; Region: COG0579 441772003055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003056 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 441772003057 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 441772003058 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 441772003059 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 441772003060 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 441772003061 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772003062 putative substrate translocation pore; other site 441772003063 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 441772003064 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 441772003065 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 441772003066 active site 441772003067 HIGH motif; other site 441772003068 KMSK motif region; other site 441772003069 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 441772003070 tRNA binding surface [nucleotide binding]; other site 441772003071 anticodon binding site; other site 441772003072 transaminase; Validated; Region: PRK07324 441772003073 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 441772003074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772003075 homodimer interface [polypeptide binding]; other site 441772003076 catalytic residue [active] 441772003077 FOG: CBS domain [General function prediction only]; Region: COG0517 441772003078 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 441772003079 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 441772003080 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 441772003081 G1 box; other site 441772003082 GTP/Mg2+ binding site [chemical binding]; other site 441772003083 Switch I region; other site 441772003084 G2 box; other site 441772003085 G3 box; other site 441772003086 Switch II region; other site 441772003087 G4 box; other site 441772003088 G5 box; other site 441772003089 Nucleoside recognition; Region: Gate; cl00486 441772003090 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 441772003091 Nucleoside recognition; Region: Gate; cl00486 441772003092 FeoA domain; Region: FeoA; cl00838 441772003093 PilZ domain; Region: PilZ; cl01260 441772003094 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772003095 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 441772003096 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 441772003097 active site 441772003098 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 441772003099 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 441772003100 chitin/cellulose binding site [chemical binding]; other site 441772003101 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 441772003102 chitin/cellulose binding site [chemical binding]; other site 441772003103 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772003104 Coenzyme A binding pocket [chemical binding]; other site 441772003105 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 441772003106 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 441772003107 Walker A/P-loop; other site 441772003108 ATP binding site [chemical binding]; other site 441772003109 Q-loop/lid; other site 441772003110 ABC transporter signature motif; other site 441772003111 Walker B; other site 441772003112 D-loop; other site 441772003113 H-loop/switch region; other site 441772003114 NIL domain; Region: NIL; cl09633 441772003115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772003116 dimer interface [polypeptide binding]; other site 441772003117 conserved gate region; other site 441772003118 ABC-ATPase subunit interface; other site 441772003119 NMT1-like family; Region: NMT1_2; cl15260 441772003120 NMT1-like family; Region: NMT1_2; cl15260 441772003121 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 441772003122 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 441772003123 metal binding site [ion binding]; metal-binding site 441772003124 putative dimer interface [polypeptide binding]; other site 441772003125 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 441772003126 Transcriptional regulators [Transcription]; Region: FadR; COG2186 441772003127 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772003128 DNA-binding site [nucleotide binding]; DNA binding site 441772003129 FCD domain; Region: FCD; cl11656 441772003130 Uncharacterized conserved protein [Function unknown]; Region: COG1284 441772003131 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772003132 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772003133 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 441772003134 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 441772003135 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 441772003136 active site 441772003137 HIGH motif; other site 441772003138 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 441772003139 active site 441772003140 KMSKS motif; other site 441772003141 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 441772003142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003143 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 441772003144 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 441772003145 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772003146 Beta-Casp domain; Region: Beta-Casp; cl12567 441772003147 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 441772003148 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 441772003149 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772003150 Zn2+ binding site [ion binding]; other site 441772003151 Mg2+ binding site [ion binding]; other site 441772003152 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 441772003153 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 441772003154 NAD(P) binding site [chemical binding]; other site 441772003155 catalytic residues [active] 441772003156 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772003157 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772003158 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772003159 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772003160 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772003161 Helix-turn-helix domains; Region: HTH; cl00088 441772003162 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772003163 MatE; Region: MatE; cl10513 441772003164 MatE; Region: MatE; cl10513 441772003165 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772003166 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 441772003167 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 441772003168 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 441772003169 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772003170 dimer interface [polypeptide binding]; other site 441772003171 conserved gate region; other site 441772003172 putative PBP binding loops; other site 441772003173 ABC-ATPase subunit interface; other site 441772003174 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772003175 dimer interface [polypeptide binding]; other site 441772003176 conserved gate region; other site 441772003177 putative PBP binding loops; other site 441772003178 ABC-ATPase subunit interface; other site 441772003179 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 441772003180 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 441772003181 Walker A/P-loop; other site 441772003182 ATP binding site [chemical binding]; other site 441772003183 Q-loop/lid; other site 441772003184 ABC transporter signature motif; other site 441772003185 Walker B; other site 441772003186 D-loop; other site 441772003187 H-loop/switch region; other site 441772003188 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 441772003189 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772003190 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772003191 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 441772003192 catalytic residues [active] 441772003193 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 441772003194 maltose O-acetyltransferase; Provisional; Region: PRK10092 441772003195 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 441772003196 active site 441772003197 substrate binding site [chemical binding]; other site 441772003198 trimer interface [polypeptide binding]; other site 441772003199 CoA binding site [chemical binding]; other site 441772003200 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 441772003201 Helix-turn-helix domains; Region: HTH; cl00088 441772003202 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 441772003203 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 441772003204 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 441772003205 metal-binding site [ion binding] 441772003206 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 441772003207 FOG: CBS domain [General function prediction only]; Region: COG0517 441772003208 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 441772003209 dimer interface [polypeptide binding]; other site 441772003210 phosphorylation site [posttranslational modification] 441772003211 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 441772003212 ATP binding site [chemical binding]; other site 441772003213 Mg2+ binding site [ion binding]; other site 441772003214 G-X-G motif; other site 441772003215 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 441772003216 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 441772003217 MgtE intracellular N domain; Region: MgtE_N; cl15244 441772003218 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 441772003219 Divalent cation transporter; Region: MgtE; cl00786 441772003220 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 441772003221 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 441772003222 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772003223 catalytic residue [active] 441772003224 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 441772003225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003226 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 441772003227 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 441772003228 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772003229 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772003230 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772003231 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 441772003232 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772003233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 441772003234 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 441772003235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 441772003236 BCCT family transporter; Region: BCCT; cl00569 441772003237 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772003238 DNA-binding site [nucleotide binding]; DNA binding site 441772003239 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 441772003240 Flavin Reductases; Region: FlaRed; cl00801 441772003241 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 441772003242 Isochorismatase family; Region: Isochorismatase; pfam00857 441772003243 catalytic triad [active] 441772003244 conserved cis-peptide bond; other site 441772003245 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 441772003246 active site residue [active] 441772003247 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 441772003248 TPR repeat; Region: TPR_11; pfam13414 441772003249 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 441772003250 binding surface 441772003251 TPR motif; other site 441772003252 TPR repeat; Region: TPR_11; pfam13414 441772003253 TPR repeat; Region: TPR_11; pfam13414 441772003254 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 441772003255 binding surface 441772003256 TPR motif; other site 441772003257 TPR repeat; Region: TPR_11; pfam13414 441772003258 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 441772003259 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772003260 active site 441772003261 Protein of unknown function (DUF3867); Region: DUF3867; pfam12983 441772003262 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 441772003263 active site residue [active] 441772003264 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 441772003265 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 441772003266 active site residue [active] 441772003267 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 441772003268 active site residue [active] 441772003269 Domain of unknown function DUF20; Region: UPF0118; pfam01594 441772003270 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 441772003271 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 441772003272 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 441772003273 active site 441772003274 metal-binding site [ion binding] 441772003275 nucleotide-binding site [chemical binding]; other site 441772003276 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 441772003277 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 441772003278 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 441772003279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 441772003280 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772003281 dimer interface [polypeptide binding]; other site 441772003282 conserved gate region; other site 441772003283 putative PBP binding loops; other site 441772003284 ABC-ATPase subunit interface; other site 441772003285 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 441772003286 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772003287 Walker A/P-loop; other site 441772003288 ATP binding site [chemical binding]; other site 441772003289 Q-loop/lid; other site 441772003290 ABC transporter signature motif; other site 441772003291 Walker B; other site 441772003292 D-loop; other site 441772003293 H-loop/switch region; other site 441772003294 TOBE domain; Region: TOBE_2; cl01440 441772003295 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 441772003296 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 441772003297 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 441772003298 YARHG domain; Region: YARHG; pfam13308 441772003299 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 441772003300 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 441772003301 RNA binding site [nucleotide binding]; other site 441772003302 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 441772003303 RNA binding site [nucleotide binding]; other site 441772003304 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 441772003305 RNA binding site [nucleotide binding]; other site 441772003306 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 441772003307 RNA binding site [nucleotide binding]; other site 441772003308 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 441772003309 active site 441772003310 HutP; Region: HutP; cl07944 441772003311 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 441772003312 zinc binding site [ion binding]; other site 441772003313 putative ligand binding site [chemical binding]; other site 441772003314 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 441772003315 TM-ABC transporter signature motif; other site 441772003316 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 441772003317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772003318 Walker A/P-loop; other site 441772003319 ATP binding site [chemical binding]; other site 441772003320 Q-loop/lid; other site 441772003321 ABC transporter signature motif; other site 441772003322 Walker B; other site 441772003323 D-loop; other site 441772003324 H-loop/switch region; other site 441772003325 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 441772003326 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 441772003327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772003328 homodimer interface [polypeptide binding]; other site 441772003329 catalytic residue [active] 441772003330 EamA-like transporter family; Region: EamA; cl01037 441772003331 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 441772003332 EamA-like transporter family; Region: EamA; cl01037 441772003333 putative kinase; Provisional; Region: PRK09954 441772003334 Helix-turn-helix domains; Region: HTH; cl00088 441772003335 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 441772003336 substrate binding site [chemical binding]; other site 441772003337 ATP binding site [chemical binding]; other site 441772003338 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 441772003339 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 441772003340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003341 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 441772003342 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 441772003343 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 441772003344 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 441772003345 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 441772003346 homodimer interface [polypeptide binding]; other site 441772003347 NADP binding site [chemical binding]; other site 441772003348 substrate binding site [chemical binding]; other site 441772003349 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 441772003350 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 441772003351 active site 441772003352 motif I; other site 441772003353 motif II; other site 441772003354 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772003355 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772003356 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 441772003357 ZIP Zinc transporter; Region: Zip; pfam02535 441772003358 Predicted transcriptional regulator [Transcription]; Region: COG1959 441772003359 Helix-turn-helix domains; Region: HTH; cl00088 441772003360 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 441772003361 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 441772003362 dimer interface [polypeptide binding]; other site 441772003363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772003364 catalytic residue [active] 441772003365 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 441772003366 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772003367 dimer interface [polypeptide binding]; other site 441772003368 conserved gate region; other site 441772003369 putative PBP binding loops; other site 441772003370 ABC-ATPase subunit interface; other site 441772003371 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772003372 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 441772003373 substrate binding pocket [chemical binding]; other site 441772003374 membrane-bound complex binding site; other site 441772003375 hinge residues; other site 441772003376 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 441772003377 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 441772003378 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772003379 catalytic residue [active] 441772003380 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 441772003381 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 441772003382 Ligand Binding Site [chemical binding]; other site 441772003383 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 441772003384 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 441772003385 Ligand Binding Site [chemical binding]; other site 441772003386 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 441772003387 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 441772003388 active site 441772003389 phosphorylation site [posttranslational modification] 441772003390 intermolecular recognition site; other site 441772003391 LytTr DNA-binding domain; Region: LytTR; cl04498 441772003392 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 441772003393 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; cl00075 441772003394 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772003395 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 441772003396 Walker A/P-loop; other site 441772003397 ATP binding site [chemical binding]; other site 441772003398 Q-loop/lid; other site 441772003399 ABC transporter signature motif; other site 441772003400 Walker B; other site 441772003401 D-loop; other site 441772003402 H-loop/switch region; other site 441772003403 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 441772003404 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 441772003405 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 441772003406 active site 441772003407 catalytic site [active] 441772003408 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 441772003409 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 441772003410 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 441772003411 dimer interface [polypeptide binding]; other site 441772003412 PYR/PP interface [polypeptide binding]; other site 441772003413 TPP binding site [chemical binding]; other site 441772003414 substrate binding site [chemical binding]; other site 441772003415 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 441772003416 Domain of unknown function; Region: EKR; cl11037 441772003417 4Fe-4S binding domain; Region: Fer4; cl02805 441772003418 4Fe-4S binding domain; Region: Fer4; cl02805 441772003419 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 441772003420 TPP-binding site [chemical binding]; other site 441772003421 dimer interface [polypeptide binding]; other site 441772003422 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772003423 Helix-turn-helix domains; Region: HTH; cl00088 441772003424 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 441772003425 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 441772003426 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 441772003427 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 441772003428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003429 Cupin domain; Region: Cupin_2; cl09118 441772003430 Helix-turn-helix domain; Region: HTH_18; pfam12833 441772003431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772003432 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 441772003433 MFS/sugar transport protein; Region: MFS_2; pfam13347 441772003434 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 441772003435 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772003436 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 441772003437 Glycosyl hydrolase family 14; Region: Glyco_hydro_14; cl03185 441772003438 Beta-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Beta-amylase has, in addition to its C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 14, which hydrolyzes the alpha-1; Region: CBM20_beta_amylase; cd05809 441772003439 starch-binding site 2 [chemical binding]; other site 441772003440 starch-binding site 1 [chemical binding]; other site 441772003441 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 441772003442 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 441772003443 active site 441772003444 HIGH motif; other site 441772003445 dimer interface [polypeptide binding]; other site 441772003446 KMSKS motif; other site 441772003447 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 441772003448 RNA binding surface [nucleotide binding]; other site 441772003449 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772003450 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772003451 DNA-binding site [nucleotide binding]; DNA binding site 441772003452 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772003453 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772003454 Walker A/P-loop; other site 441772003455 ATP binding site [chemical binding]; other site 441772003456 Q-loop/lid; other site 441772003457 ABC transporter signature motif; other site 441772003458 Walker B; other site 441772003459 D-loop; other site 441772003460 H-loop/switch region; other site 441772003461 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 441772003462 putative peptidoglycan binding site; other site 441772003463 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 441772003464 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 441772003465 putative peptidoglycan binding site; other site 441772003466 Bacterial SH3 domain; Region: SH3_3; cl02551 441772003467 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 441772003468 active site 441772003469 PAS domain S-box; Region: sensory_box; TIGR00229 441772003470 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 441772003471 putative active site [active] 441772003472 heme pocket [chemical binding]; other site 441772003473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772003474 metal binding site [ion binding]; metal-binding site 441772003475 active site 441772003476 I-site; other site 441772003477 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 441772003478 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 441772003479 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 441772003480 putative L-serine binding site [chemical binding]; other site 441772003481 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 441772003482 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 441772003483 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772003484 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 441772003485 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 441772003486 active site 441772003487 dimer interface [polypeptide binding]; other site 441772003488 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 441772003489 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772003490 FtsX-like permease family; Region: FtsX; cl15850 441772003491 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 441772003492 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772003493 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772003494 Walker A/P-loop; other site 441772003495 ATP binding site [chemical binding]; other site 441772003496 Q-loop/lid; other site 441772003497 ABC transporter signature motif; other site 441772003498 Walker B; other site 441772003499 D-loop; other site 441772003500 H-loop/switch region; other site 441772003501 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 441772003502 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772003503 dimer interface [polypeptide binding]; other site 441772003504 conserved gate region; other site 441772003505 putative PBP binding loops; other site 441772003506 ABC-ATPase subunit interface; other site 441772003507 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 441772003508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772003509 dimer interface [polypeptide binding]; other site 441772003510 conserved gate region; other site 441772003511 putative PBP binding loops; other site 441772003512 ABC-ATPase subunit interface; other site 441772003513 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 441772003514 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 441772003515 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 441772003516 CotJB protein; Region: CotJB; pfam12652 441772003517 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 441772003518 dimanganese center [ion binding]; other site 441772003519 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 441772003520 Scramblase; Region: Scramblase; cl02043 441772003521 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 441772003522 trimer interface [polypeptide binding]; other site 441772003523 active site 441772003524 Small acid-soluble spore protein H family; Region: SspH; cl06949 441772003525 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 441772003526 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 441772003527 non-specific DNA binding site [nucleotide binding]; other site 441772003528 salt bridge; other site 441772003529 sequence-specific DNA binding site [nucleotide binding]; other site 441772003530 Cupin domain; Region: Cupin_2; cl09118 441772003531 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772003532 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772003533 Helix-turn-helix domains; Region: HTH; cl00088 441772003534 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 441772003535 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 441772003536 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772003537 Walker A/P-loop; other site 441772003538 ATP binding site [chemical binding]; other site 441772003539 Q-loop/lid; other site 441772003540 ABC transporter signature motif; other site 441772003541 Walker B; other site 441772003542 D-loop; other site 441772003543 H-loop/switch region; other site 441772003544 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772003545 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772003546 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 441772003547 non-specific DNA binding site [nucleotide binding]; other site 441772003548 salt bridge; other site 441772003549 sequence-specific DNA binding site [nucleotide binding]; other site 441772003550 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 441772003551 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 441772003552 catalytic residues [active] 441772003553 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 441772003554 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 441772003555 tetrameric interface [polypeptide binding]; other site 441772003556 activator binding site; other site 441772003557 NADP binding site [chemical binding]; other site 441772003558 substrate binding site [chemical binding]; other site 441772003559 catalytic residues [active] 441772003560 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 441772003561 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003562 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772003563 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 441772003564 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772003565 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 441772003566 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 441772003567 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 441772003568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003569 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772003570 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 441772003571 catalytic residues [active] 441772003572 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 441772003573 '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 characterized by the...; Region: init_cond_enzymes; cd00827 441772003574 dimer interface [polypeptide binding]; other site 441772003575 active site 441772003576 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 441772003577 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 441772003578 active site 441772003579 DNA binding site [nucleotide binding] 441772003580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003581 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 441772003582 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 441772003583 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 441772003584 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 441772003585 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 441772003586 intersubunit interface [polypeptide binding]; other site 441772003587 active site 441772003588 Zn2+ binding site [ion binding]; other site 441772003589 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 441772003590 Helix-turn-helix domains; Region: HTH; cl00088 441772003591 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 441772003592 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 441772003593 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 441772003594 Cation efflux family; Region: Cation_efflux; cl00316 441772003595 Protein of unknown function (DUF421); Region: DUF421; cl00990 441772003596 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 441772003597 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 441772003598 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 441772003599 IDEAL domain; Region: IDEAL; cl07452 441772003600 PQ loop repeat; Region: PQ-loop; cl12056 441772003601 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 441772003602 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 441772003603 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 441772003604 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 441772003605 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 441772003606 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 441772003607 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; cl00159 441772003608 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 441772003609 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 441772003610 nucleoside/Zn binding site; other site 441772003611 dimer interface [polypeptide binding]; other site 441772003612 catalytic motif [active] 441772003613 DNA topoisomerase III; Provisional; Region: PRK07726 441772003614 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 441772003615 active site 441772003616 putative interdomain interaction site [polypeptide binding]; other site 441772003617 putative metal-binding site [ion binding]; other site 441772003618 putative nucleotide binding site [chemical binding]; other site 441772003619 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 441772003620 domain I; other site 441772003621 DNA binding groove [nucleotide binding] 441772003622 phosphate binding site [ion binding]; other site 441772003623 domain II; other site 441772003624 domain III; other site 441772003625 nucleotide binding site [chemical binding]; other site 441772003626 catalytic site [active] 441772003627 domain IV; other site 441772003628 Predicted membrane protein [Function unknown]; Region: COG1971 441772003629 Domain of unknown function DUF; Region: DUF204; pfam02659 441772003630 Domain of unknown function DUF; Region: DUF204; pfam02659 441772003631 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 441772003632 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 441772003633 active site 441772003634 intersubunit interactions; other site 441772003635 catalytic residue [active] 441772003636 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 441772003637 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772003638 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 441772003639 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772003640 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772003641 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772003642 metal binding site [ion binding]; metal-binding site 441772003643 active site 441772003644 I-site; other site 441772003645 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 441772003646 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 441772003647 NodB motif; other site 441772003648 putative active site [active] 441772003649 putative catalytic site [active] 441772003650 putative Zn binding site [ion binding]; other site 441772003651 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 441772003652 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 441772003653 DXD motif; other site 441772003654 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 441772003655 Probable zinc-binding domain; Region: zf-trcl; pfam13451 441772003656 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 441772003657 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 441772003658 putative homotetramer interface [polypeptide binding]; other site 441772003659 putative homodimer interface [polypeptide binding]; other site 441772003660 putative allosteric switch controlling residues; other site 441772003661 putative metal binding site [ion binding]; other site 441772003662 putative homodimer-homodimer interface [polypeptide binding]; other site 441772003663 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 441772003664 metal-binding site [ion binding] 441772003665 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 441772003666 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 441772003667 metal-binding site [ion binding] 441772003668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772003669 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772003670 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 441772003671 metal-binding site [ion binding] 441772003672 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772003673 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772003674 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772003675 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772003676 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772003677 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772003678 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772003679 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 441772003680 Walker A/P-loop; other site 441772003681 ATP binding site [chemical binding]; other site 441772003682 Q-loop/lid; other site 441772003683 ABC transporter signature motif; other site 441772003684 Walker B; other site 441772003685 D-loop; other site 441772003686 H-loop/switch region; other site 441772003687 CAAX protease self-immunity; Region: Abi; cl00558 441772003688 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 441772003689 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772003690 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 441772003691 active site 441772003692 phosphorylation site [posttranslational modification] 441772003693 intermolecular recognition site; other site 441772003694 dimerization interface [polypeptide binding]; other site 441772003695 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 441772003696 DNA binding site [nucleotide binding] 441772003697 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772003698 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 441772003699 ATP binding site [chemical binding]; other site 441772003700 Mg2+ binding site [ion binding]; other site 441772003701 G-X-G motif; other site 441772003702 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772003703 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772003704 Walker A/P-loop; other site 441772003705 ATP binding site [chemical binding]; other site 441772003706 Q-loop/lid; other site 441772003707 ABC transporter signature motif; other site 441772003708 Walker B; other site 441772003709 D-loop; other site 441772003710 H-loop/switch region; other site 441772003711 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772003712 FtsX-like permease family; Region: FtsX; cl15850 441772003713 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772003714 FtsX-like permease family; Region: FtsX; cl15850 441772003715 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 441772003716 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 441772003717 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 441772003718 nucleotide binding site/active site [active] 441772003719 HIT family signature motif; other site 441772003720 catalytic residue [active] 441772003721 Membrane protein of unknown function; Region: DUF360; cl00850 441772003722 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 441772003723 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 441772003724 YibE/F-like protein; Region: YibE_F; cl02259 441772003725 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 441772003726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003727 NAD(P) binding pocket [chemical binding]; other site 441772003728 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 441772003729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772003730 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 441772003731 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 441772003732 Cation transport protein; Region: TrkH; cl10514 441772003733 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 441772003734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772003735 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 441772003736 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 441772003737 active site 441772003738 substrate binding site [chemical binding]; other site 441772003739 catalytic site [active] 441772003740 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 441772003741 Family description; Region: UvrD_C_2; cl15862 441772003742 Predicted membrane protein [General function prediction only]; Region: COG4194 441772003743 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 441772003744 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772003745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772003746 DNA-binding site [nucleotide binding]; DNA binding site 441772003747 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 441772003748 putative peptidoglycan binding site; other site 441772003749 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 441772003750 putative peptidoglycan binding site; other site 441772003751 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 441772003752 Rubrerythrin [Energy production and conversion]; Region: COG1592 441772003753 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 441772003754 binuclear metal center [ion binding]; other site 441772003755 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 441772003756 iron binding site [ion binding]; other site 441772003757 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772003758 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772003759 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772003760 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772003761 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 441772003762 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 441772003763 active site turn [active] 441772003764 phosphorylation site [posttranslational modification] 441772003765 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 441772003766 HPr interaction site; other site 441772003767 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772003768 active site 441772003769 phosphorylation site [posttranslational modification] 441772003770 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 441772003771 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 441772003772 catalytic residue [active] 441772003773 putative FPP diphosphate binding site; other site 441772003774 putative FPP binding hydrophobic cleft; other site 441772003775 dimer interface [polypeptide binding]; other site 441772003776 putative IPP diphosphate binding site; other site 441772003777 Rrf2 family protein; Region: rrf2_super; TIGR00738 441772003778 Helix-turn-helix domains; Region: HTH; cl00088 441772003779 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 441772003780 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 441772003781 ACS interaction site; other site 441772003782 CODH interaction site; other site 441772003783 metal cluster binding site [ion binding]; other site 441772003784 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 441772003785 4Fe-4S binding domain; Region: Fer4; cl02805 441772003786 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 441772003787 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772003788 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772003789 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 441772003790 active site 441772003791 phosphorylation site [posttranslational modification] 441772003792 intermolecular recognition site; other site 441772003793 dimerization interface [polypeptide binding]; other site 441772003794 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 441772003795 DNA binding site [nucleotide binding] 441772003796 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 441772003797 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 441772003798 ATP binding site [chemical binding]; other site 441772003799 Mg2+ binding site [ion binding]; other site 441772003800 G-X-G motif; other site 441772003801 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772003802 FtsX-like permease family; Region: FtsX; cl15850 441772003803 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772003804 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772003805 Walker A/P-loop; other site 441772003806 ATP binding site [chemical binding]; other site 441772003807 Q-loop/lid; other site 441772003808 ABC transporter signature motif; other site 441772003809 Walker B; other site 441772003810 D-loop; other site 441772003811 H-loop/switch region; other site 441772003812 EamA-like transporter family; Region: EamA; cl01037 441772003813 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 441772003814 EamA-like transporter family; Region: EamA; cl01037 441772003815 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772003816 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 441772003817 ligand binding site [chemical binding]; other site 441772003818 flexible hinge region; other site 441772003819 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 441772003820 putative switch regulator; other site 441772003821 non-specific DNA interactions [nucleotide binding]; other site 441772003822 DNA binding site [nucleotide binding] 441772003823 sequence specific DNA binding site [nucleotide binding]; other site 441772003824 putative cAMP binding site [chemical binding]; other site 441772003825 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772003826 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772003827 putative substrate translocation pore; other site 441772003828 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772003829 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 441772003830 putative binding site residues; other site 441772003831 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 441772003832 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 441772003833 ABC-ATPase subunit interface; other site 441772003834 dimer interface [polypeptide binding]; other site 441772003835 putative PBP binding regions; other site 441772003836 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772003837 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772003838 Walker A/P-loop; other site 441772003839 ATP binding site [chemical binding]; other site 441772003840 Q-loop/lid; other site 441772003841 ABC transporter signature motif; other site 441772003842 Walker B; other site 441772003843 D-loop; other site 441772003844 H-loop/switch region; other site 441772003845 ferredoxin-type protein; Provisional; Region: PRK10194 441772003846 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772003847 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 441772003848 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772003849 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772003850 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 441772003851 putative active site [active] 441772003852 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 441772003853 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 441772003854 putative active site [active] 441772003855 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 441772003856 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 441772003857 active site turn [active] 441772003858 phosphorylation site [posttranslational modification] 441772003859 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772003860 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 441772003861 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 441772003862 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 441772003863 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 441772003864 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772003865 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 441772003866 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 441772003867 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 441772003868 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772003869 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772003870 dimer interface [polypeptide binding]; other site 441772003871 putative CheW interface [polypeptide binding]; other site 441772003872 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 441772003873 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 441772003874 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 441772003875 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772003876 dimer interface [polypeptide binding]; other site 441772003877 conserved gate region; other site 441772003878 putative PBP binding loops; other site 441772003879 ABC-ATPase subunit interface; other site 441772003880 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 441772003881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772003882 dimer interface [polypeptide binding]; other site 441772003883 conserved gate region; other site 441772003884 putative PBP binding loops; other site 441772003885 ABC-ATPase subunit interface; other site 441772003886 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 441772003887 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 441772003888 Walker A/P-loop; other site 441772003889 ATP binding site [chemical binding]; other site 441772003890 Q-loop/lid; other site 441772003891 ABC transporter signature motif; other site 441772003892 Walker B; other site 441772003893 D-loop; other site 441772003894 H-loop/switch region; other site 441772003895 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 441772003896 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 441772003897 Walker A/P-loop; other site 441772003898 ATP binding site [chemical binding]; other site 441772003899 Q-loop/lid; other site 441772003900 ABC transporter signature motif; other site 441772003901 Walker B; other site 441772003902 D-loop; other site 441772003903 H-loop/switch region; other site 441772003904 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 441772003905 ABC-ATPase subunit interface; other site 441772003906 dimer interface [polypeptide binding]; other site 441772003907 putative PBP binding regions; other site 441772003908 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 441772003909 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 441772003910 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 441772003911 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 441772003912 metal binding site [ion binding]; metal-binding site 441772003913 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 441772003914 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 441772003915 nucleotide binding region [chemical binding]; other site 441772003916 ATP-binding site [chemical binding]; other site 441772003917 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 441772003918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772003919 metal binding site [ion binding]; metal-binding site 441772003920 active site 441772003921 I-site; other site 441772003922 NMT1-like family; Region: NMT1_2; cl15260 441772003923 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 441772003924 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 441772003925 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772003926 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772003927 Walker A/P-loop; other site 441772003928 ATP binding site [chemical binding]; other site 441772003929 Q-loop/lid; other site 441772003930 ABC transporter signature motif; other site 441772003931 Walker B; other site 441772003932 D-loop; other site 441772003933 H-loop/switch region; other site 441772003934 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772003935 metal binding site 2 [ion binding]; metal-binding site 441772003936 putative DNA binding helix; other site 441772003937 metal binding site 1 [ion binding]; metal-binding site 441772003938 dimer interface [polypeptide binding]; other site 441772003939 structural Zn2+ binding site [ion binding]; other site 441772003940 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772003941 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 441772003942 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 441772003943 putative peptidoglycan binding site; other site 441772003944 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 441772003945 putative active site [active] 441772003946 Zn binding site [ion binding]; other site 441772003947 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772003948 L-type amino acid transporter; Region: 2A0308; TIGR00911 441772003949 Spore germination protein; Region: Spore_permease; cl15802 441772003950 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 441772003951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 441772003952 Histidine kinase; Region: HisKA_3; pfam07730 441772003953 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 441772003954 ATP binding site [chemical binding]; other site 441772003955 Mg2+ binding site [ion binding]; other site 441772003956 G-X-G motif; other site 441772003957 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 441772003958 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 441772003959 active site 441772003960 phosphorylation site [posttranslational modification] 441772003961 intermolecular recognition site; other site 441772003962 dimerization interface [polypeptide binding]; other site 441772003963 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 441772003964 DNA binding residues [nucleotide binding] 441772003965 dimerization interface [polypeptide binding]; other site 441772003966 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772003967 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 441772003968 Walker A/P-loop; other site 441772003969 ATP binding site [chemical binding]; other site 441772003970 Q-loop/lid; other site 441772003971 ABC transporter signature motif; other site 441772003972 Walker B; other site 441772003973 D-loop; other site 441772003974 H-loop/switch region; other site 441772003975 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 441772003976 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 441772003977 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 441772003978 putative FMN binding site [chemical binding]; other site 441772003979 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 protein; Region: CSP_CDS; cd04458 441772003980 DNA-binding site [nucleotide binding]; DNA binding site 441772003981 RNA-binding motif; other site 441772003982 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 441772003983 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 441772003984 metal binding site [ion binding]; metal-binding site 441772003985 dimer interface [polypeptide binding]; other site 441772003986 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 441772003987 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772003988 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 441772003989 dimer interface [polypeptide binding]; other site 441772003990 pyridoxal binding site [chemical binding]; other site 441772003991 ATP binding site [chemical binding]; other site 441772003992 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 441772003993 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772003994 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772003995 Walker A/P-loop; other site 441772003996 ATP binding site [chemical binding]; other site 441772003997 Q-loop/lid; other site 441772003998 ABC transporter signature motif; other site 441772003999 Walker B; other site 441772004000 D-loop; other site 441772004001 H-loop/switch region; other site 441772004002 FtsX-like permease family; Region: FtsX; cl15850 441772004003 FtsX-like permease family; Region: FtsX; cl15850 441772004004 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772004005 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 441772004006 active site 441772004007 phosphorylation site [posttranslational modification] 441772004008 intermolecular recognition site; other site 441772004009 dimerization interface [polypeptide binding]; other site 441772004010 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 441772004011 DNA binding site [nucleotide binding] 441772004012 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772004013 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; cl00080 441772004014 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 441772004015 ATP binding site [chemical binding]; other site 441772004016 Mg2+ binding site [ion binding]; other site 441772004017 G-X-G motif; other site 441772004018 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772004019 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772004020 Walker A/P-loop; other site 441772004021 ATP binding site [chemical binding]; other site 441772004022 Q-loop/lid; other site 441772004023 ABC transporter signature motif; other site 441772004024 Walker B; other site 441772004025 D-loop; other site 441772004026 H-loop/switch region; other site 441772004027 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 441772004028 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 441772004029 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 441772004030 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 441772004031 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 441772004032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772004033 homodimer interface [polypeptide binding]; other site 441772004034 catalytic residue [active] 441772004035 Cobalt transport protein component CbiN; Region: CbiN; cl00842 441772004036 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 441772004037 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772004038 substrate binding pocket [chemical binding]; other site 441772004039 membrane-bound complex binding site; other site 441772004040 hinge residues; other site 441772004041 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772004042 dimer interface [polypeptide binding]; other site 441772004043 conserved gate region; other site 441772004044 putative PBP binding loops; other site 441772004045 ABC-ATPase subunit interface; other site 441772004046 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 441772004047 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 441772004048 Walker A/P-loop; other site 441772004049 ATP binding site [chemical binding]; other site 441772004050 Q-loop/lid; other site 441772004051 ABC transporter signature motif; other site 441772004052 Walker B; other site 441772004053 D-loop; other site 441772004054 H-loop/switch region; other site 441772004055 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 441772004056 non-specific DNA binding site [nucleotide binding]; other site 441772004057 salt bridge; other site 441772004058 sequence-specific DNA binding site [nucleotide binding]; other site 441772004059 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 441772004060 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 441772004061 putative active site [active] 441772004062 putative CoA binding site [chemical binding]; other site 441772004063 nudix motif; other site 441772004064 metal binding site [ion binding]; metal-binding site 441772004065 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 441772004066 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 441772004067 dimer interface [polypeptide binding]; other site 441772004068 active site 441772004069 metal binding site [ion binding]; metal-binding site 441772004070 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 441772004071 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 441772004072 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 441772004073 active site 441772004074 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 441772004075 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772004076 substrate binding pocket [chemical binding]; other site 441772004077 membrane-bound complex binding site; other site 441772004078 hinge residues; other site 441772004079 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 441772004080 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772004081 dimer interface [polypeptide binding]; other site 441772004082 conserved gate region; other site 441772004083 putative PBP binding loops; other site 441772004084 ABC-ATPase subunit interface; other site 441772004085 Protein of unknown function (DUF523); Region: DUF523; cl00733 441772004086 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 441772004087 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772004088 Family description; Region: UvrD_C_2; cl15862 441772004089 cell division protein FtsA; Region: ftsA; TIGR01174 441772004090 Cell division protein FtsA; Region: FtsA; cl11496 441772004091 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 441772004092 Cell division protein FtsA; Region: FtsA; cl11496 441772004093 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 441772004094 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 441772004095 metal binding site [ion binding]; metal-binding site 441772004096 dimer interface [polypeptide binding]; other site 441772004097 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 441772004098 active site 441772004099 metal binding site [ion binding]; metal-binding site 441772004100 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 441772004101 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 441772004102 RNA binding surface [nucleotide binding]; other site 441772004103 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 441772004104 active site 441772004105 stage V sporulation protein B; Region: spore_V_B; TIGR02900 441772004106 MatE; Region: MatE; cl10513 441772004107 stage V sporulation protein B; Region: spore_V_B; TIGR02900 441772004108 MatE; Region: MatE; cl10513 441772004109 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 441772004110 diiron binding motif [ion binding]; other site 441772004111 Iron-containing alcohol dehydrogenase; Region: Fe-ADH8; cd08186 441772004112 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 441772004113 putative active site [active] 441772004114 metal binding site [ion binding]; metal-binding site 441772004115 AAA domain; Region: AAA_32; pfam13654 441772004116 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 441772004117 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 441772004118 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004119 active site 441772004120 Zn binding site [ion binding]; other site 441772004121 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 441772004122 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772004123 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004124 active site 441772004125 Zn binding site [ion binding]; other site 441772004126 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 441772004127 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772004128 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004129 active site 441772004130 Zn binding site [ion binding]; other site 441772004131 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772004132 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004133 active site 441772004134 Zn binding site [ion binding]; other site 441772004135 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 441772004136 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004137 active site 441772004138 Zn binding site [ion binding]; other site 441772004139 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004140 active site 441772004141 Zn binding site [ion binding]; other site 441772004142 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 441772004143 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 441772004144 dimerization interface [polypeptide binding]; other site 441772004145 active site 441772004146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772004147 FAD binding domain; Region: FAD_binding_2; pfam00890 441772004148 Quinolinate synthetase A protein; Region: NadA; cl00420 441772004149 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 441772004150 Haemolysin-III related; Region: HlyIII; cl03831 441772004151 GTP-binding protein YchF; Reviewed; Region: PRK09601 441772004152 YchF GTPase; Region: YchF; cd01900 441772004153 G1 box; other site 441772004154 GTP/Mg2+ binding site [chemical binding]; other site 441772004155 Switch I region; other site 441772004156 G2 box; other site 441772004157 Switch II region; other site 441772004158 G3 box; other site 441772004159 G4 box; other site 441772004160 G5 box; other site 441772004161 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 441772004162 cell division protein MraZ; Reviewed; Region: PRK00326 441772004163 MraZ protein; Region: MraZ; pfam02381 441772004164 MraZ protein; Region: MraZ; pfam02381 441772004165 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 441772004166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772004167 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 441772004168 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 441772004169 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772004170 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 441772004171 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 441772004172 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 441772004173 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 441772004174 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772004175 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772004176 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 441772004177 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 441772004178 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772004179 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772004180 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 441772004181 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 441772004182 Mg++ binding site [ion binding]; other site 441772004183 putative catalytic motif [active] 441772004184 putative substrate binding site [chemical binding]; other site 441772004185 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 441772004186 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 441772004187 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 441772004188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 441772004189 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 441772004190 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 441772004191 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 441772004192 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 441772004193 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772004194 catalytic residue [active] 441772004195 Protein of unknown function (DUF552); Region: DUF552; cl00775 441772004196 YGGT family; Region: YGGT; cl00508 441772004197 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 441772004198 DivIVA protein; Region: DivIVA; pfam05103 441772004199 DivIVA domain; Region: DivI1A_domain; TIGR03544 441772004200 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 441772004201 active site 441772004202 dimer interface [polypeptide binding]; other site 441772004203 metal binding site [ion binding]; metal-binding site 441772004204 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 441772004205 NeuB family; Region: NeuB; cl00496 441772004206 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 441772004207 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 441772004208 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 441772004209 hinge; other site 441772004210 active site 441772004211 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 441772004212 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 441772004213 lipoprotein signal peptidase; Provisional; Region: PRK14787 441772004214 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 441772004215 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 441772004216 RNA binding surface [nucleotide binding]; other site 441772004217 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 441772004218 active site 441772004219 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772004220 active site 441772004221 uracil transporter; Provisional; Region: PRK10720 441772004222 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 441772004223 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 441772004224 active site 441772004225 phosphate binding site A [ion binding]; other site 441772004226 putative catalytic site [active] 441772004227 DNA binding site [nucleotide binding] 441772004228 metal binding site A [ion binding]; metal-binding site 441772004229 putative AP binding site [nucleotide binding]; other site 441772004230 putative metal binding site B [ion binding]; other site 441772004231 phosphate binding site B [ion binding]; other site 441772004232 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 441772004233 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772004234 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; cl00391 441772004235 active site clefts [active] 441772004236 zinc binding site [ion binding]; other site 441772004237 dimer interface [polypeptide binding]; other site 441772004238 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 441772004239 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 441772004240 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772004241 dimer interface [polypeptide binding]; other site 441772004242 conserved gate region; other site 441772004243 putative PBP binding loops; other site 441772004244 ABC-ATPase subunit interface; other site 441772004245 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 441772004246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772004247 Walker A/P-loop; other site 441772004248 ATP binding site [chemical binding]; other site 441772004249 Q-loop/lid; other site 441772004250 ABC transporter signature motif; other site 441772004251 Walker B; other site 441772004252 D-loop; other site 441772004253 H-loop/switch region; other site 441772004254 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 441772004255 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 441772004256 active site 441772004257 nucleophile elbow; other site 441772004258 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 441772004259 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 441772004260 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 441772004261 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 441772004262 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; cl00159 441772004263 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 441772004264 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772004265 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 441772004266 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 441772004267 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 441772004268 B12 binding site [chemical binding]; other site 441772004269 cobalt ligand [ion binding]; other site 441772004270 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 441772004271 MtaA_CmuA_like family. MtaA/CmuA, also MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M isozymes, are methylcobamide:Coenzyme M methyltransferases, which play a role in metabolic pathways of methane formation from various substrates, such as methylated...; Region: Mta_CmuA_like; cd03307 441772004272 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 441772004273 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 441772004274 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 441772004275 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 441772004276 Walker A/P-loop; other site 441772004277 ATP binding site [chemical binding]; other site 441772004278 Q-loop/lid; other site 441772004279 ABC transporter signature motif; other site 441772004280 Walker B; other site 441772004281 D-loop; other site 441772004282 H-loop/switch region; other site 441772004283 NIL domain; Region: NIL; cl09633 441772004284 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772004285 dimer interface [polypeptide binding]; other site 441772004286 conserved gate region; other site 441772004287 ABC-ATPase subunit interface; other site 441772004288 NMT1-like family; Region: NMT1_2; cl15260 441772004289 MORN repeat; Region: MORN; cl14787 441772004290 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 441772004291 MORN repeat; Region: MORN; cl14787 441772004292 MORN repeat; Region: MORN; cl14787 441772004293 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 441772004294 active site 441772004295 FMN binding site [chemical binding]; other site 441772004296 substrate binding site [chemical binding]; other site 441772004297 putative catalytic residue [active] 441772004298 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 441772004299 dimer interface [polypeptide binding]; other site 441772004300 active site 441772004301 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 441772004302 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 441772004303 [2Fe-2S] cluster binding site [ion binding]; other site 441772004304 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 441772004305 DNA topoisomerase III; Provisional; Region: PRK07726 441772004306 active site 441772004307 putative interdomain interaction site [polypeptide binding]; other site 441772004308 putative metal-binding site [ion binding]; other site 441772004309 putative nucleotide binding site [chemical binding]; other site 441772004310 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 441772004311 domain I; other site 441772004312 DNA binding groove [nucleotide binding] 441772004313 phosphate binding site [ion binding]; other site 441772004314 domain II; other site 441772004315 domain III; other site 441772004316 nucleotide binding site [chemical binding]; other site 441772004317 catalytic site [active] 441772004318 domain IV; other site 441772004319 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 441772004320 MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess...; Region: ABC_MutS-like; cd03283 441772004321 Walker A/P-loop; other site 441772004322 ATP binding site [chemical binding]; other site 441772004323 Q-loop/lid; other site 441772004324 ABC transporter signature motif; other site 441772004325 Walker B; other site 441772004326 D-loop; other site 441772004327 H-loop/switch region; other site 441772004328 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 441772004329 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 441772004330 active site 441772004331 catalytic tetrad [active] 441772004332 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 441772004333 Uncharacterized conserved protein [Function unknown]; Region: COG3760 441772004334 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 441772004335 putative deacylase active site [active] 441772004336 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772004337 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772004338 Walker A/P-loop; other site 441772004339 ATP binding site [chemical binding]; other site 441772004340 Q-loop/lid; other site 441772004341 ABC transporter signature motif; other site 441772004342 Walker B; other site 441772004343 D-loop; other site 441772004344 H-loop/switch region; other site 441772004345 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772004346 FtsX-like permease family; Region: FtsX; cl15850 441772004347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772004348 Helix-turn-helix domains; Region: HTH; cl00088 441772004349 Protein of unknown function (DUF523); Region: DUF523; cl00733 441772004350 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 441772004351 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 441772004352 Walker A/P-loop; other site 441772004353 ATP binding site [chemical binding]; other site 441772004354 Q-loop/lid; other site 441772004355 ABC transporter signature motif; other site 441772004356 Walker B; other site 441772004357 D-loop; other site 441772004358 H-loop/switch region; other site 441772004359 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 441772004360 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772004361 dimer interface [polypeptide binding]; other site 441772004362 conserved gate region; other site 441772004363 putative PBP binding loops; other site 441772004364 ABC-ATPase subunit interface; other site 441772004365 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 441772004366 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772004367 dimer interface [polypeptide binding]; other site 441772004368 conserved gate region; other site 441772004369 putative PBP binding loops; other site 441772004370 ABC-ATPase subunit interface; other site 441772004371 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 441772004372 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 441772004373 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 441772004374 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 441772004375 NAD binding site [chemical binding]; other site 441772004376 dimer interface [polypeptide binding]; other site 441772004377 substrate binding site [chemical binding]; other site 441772004378 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772004379 Transcriptional regulators [Transcription]; Region: FadR; COG2186 441772004380 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772004381 DNA-binding site [nucleotide binding]; DNA binding site 441772004382 FCD domain; Region: FCD; cl11656 441772004383 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 441772004384 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 441772004385 gating phenylalanine in ion channel; other site 441772004386 PAS domain S-box; Region: sensory_box; TIGR00229 441772004387 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 441772004388 PAS domain S-box; Region: sensory_box; TIGR00229 441772004389 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 441772004390 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772004391 metal binding site [ion binding]; metal-binding site 441772004392 active site 441772004393 I-site; other site 441772004394 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772004395 Zn2+ binding site [ion binding]; other site 441772004396 Mg2+ binding site [ion binding]; other site 441772004397 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 441772004398 dimerization interface [polypeptide binding]; other site 441772004399 Cache domain; Region: Cache_1; pfam02743 441772004400 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 441772004401 dimerization interface [polypeptide binding]; other site 441772004402 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772004403 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772004404 dimer interface [polypeptide binding]; other site 441772004405 putative CheW interface [polypeptide binding]; other site 441772004406 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772004407 Helix-turn-helix domains; Region: HTH; cl00088 441772004408 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772004409 Helix-turn-helix domains; Region: HTH; cl00088 441772004410 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772004411 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 441772004412 active site 441772004413 metal binding site [ion binding]; metal-binding site 441772004414 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 441772004415 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 441772004416 DNA binding site [nucleotide binding] 441772004417 active site 441772004418 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 441772004419 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772004420 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772004421 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772004422 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 441772004423 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 441772004424 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 441772004425 non-specific DNA binding site [nucleotide binding]; other site 441772004426 salt bridge; other site 441772004427 sequence-specific DNA binding site [nucleotide binding]; other site 441772004428 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 441772004429 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772004430 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 441772004431 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772004432 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772004433 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772004434 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772004435 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 441772004436 Cation efflux family; Region: Cation_efflux; cl00316 441772004437 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 441772004438 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772004439 putative substrate translocation pore; other site 441772004440 Helix-turn-helix domains; Region: HTH; cl00088 441772004441 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 441772004442 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 441772004443 HDOD domain; Region: HDOD; pfam08668 441772004444 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 441772004445 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772004446 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 441772004447 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772004448 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772004449 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772004450 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772004451 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 441772004452 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772004453 active site 441772004454 metal binding site [ion binding]; metal-binding site 441772004455 Protein of unknown function, DUF606; Region: DUF606; cl01273 441772004456 Protein of unknown function, DUF606; Region: DUF606; cl01273 441772004457 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 441772004458 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 441772004459 ligand binding site [chemical binding]; other site 441772004460 flexible hinge region; other site 441772004461 Helix-turn-helix domains; Region: HTH; cl00088 441772004462 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772004463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772004464 Walker A/P-loop; other site 441772004465 ATP binding site [chemical binding]; other site 441772004466 Q-loop/lid; other site 441772004467 ABC transporter signature motif; other site 441772004468 Walker B; other site 441772004469 D-loop; other site 441772004470 H-loop/switch region; other site 441772004471 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772004472 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772004473 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 441772004474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772004475 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 441772004476 DNA binding residues [nucleotide binding] 441772004477 dimerization interface [polypeptide binding]; other site 441772004478 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 441772004479 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772004480 Predicted transcriptional regulator [Transcription]; Region: COG2378 441772004481 Helix-turn-helix domains; Region: HTH; cl00088 441772004482 WYL domain; Region: WYL; cl14852 441772004483 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 441772004484 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772004485 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 441772004486 active site 441772004487 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 441772004488 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 441772004489 FeS/SAM binding site; other site 441772004490 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 441772004491 active site 441772004492 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 441772004493 Ligand Binding Site [chemical binding]; other site 441772004494 CAAX protease self-immunity; Region: Abi; cl00558 441772004495 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772004496 dimer interface [polypeptide binding]; other site 441772004497 putative CheW interface [polypeptide binding]; other site 441772004498 Protein of unknown function (DUF975); Region: DUF975; cl10504 441772004499 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 441772004500 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772004501 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 441772004502 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 441772004503 intersubunit interface [polypeptide binding]; other site 441772004504 active site 441772004505 catalytic residue [active] 441772004506 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 441772004507 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 441772004508 substrate binding site [chemical binding]; other site 441772004509 dimer interface [polypeptide binding]; other site 441772004510 ATP binding site [chemical binding]; other site 441772004511 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 441772004512 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 ATP-dependent...; Region: HisRS-like_core; cd00773 441772004513 dimer interface [polypeptide binding]; other site 441772004514 motif 1; other site 441772004515 active site 441772004516 motif 2; other site 441772004517 motif 3; other site 441772004518 ATP phosphoribosyltransferase; Region: HisG; cl15266 441772004519 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 441772004520 histidinol dehydrogenase; Region: hisD; TIGR00069 441772004521 NAD binding site [chemical binding]; other site 441772004522 dimerization interface [polypeptide binding]; other site 441772004523 product binding site; other site 441772004524 substrate binding site [chemical binding]; other site 441772004525 zinc binding site [ion binding]; other site 441772004526 catalytic residues [active] 441772004527 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 441772004528 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 441772004529 putative active site pocket [active] 441772004530 4-fold oligomerization interface [polypeptide binding]; other site 441772004531 metal binding residues [ion binding]; metal-binding site 441772004532 3-fold/trimer interface [polypeptide binding]; other site 441772004533 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 441772004534 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 441772004535 putative active site [active] 441772004536 oxyanion strand; other site 441772004537 catalytic triad [active] 441772004538 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 441772004539 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 441772004540 catalytic residues [active] 441772004541 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 441772004542 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 441772004543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772004544 homodimer interface [polypeptide binding]; other site 441772004545 catalytic residue [active] 441772004546 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 441772004547 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 441772004548 substrate binding site [chemical binding]; other site 441772004549 glutamase interaction surface [polypeptide binding]; other site 441772004550 putative inner membrane protein; Provisional; Region: PRK11099 441772004551 Sulphur transport; Region: Sulf_transp; cl01018 441772004552 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 441772004553 CPxP motif; other site 441772004554 putative inner membrane protein; Provisional; Region: PRK11099 441772004555 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772004556 Helix-turn-helix domains; Region: HTH; cl00088 441772004557 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 441772004558 dimerization interface [polypeptide binding]; other site 441772004559 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772004560 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772004561 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 441772004562 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772004563 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 441772004564 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 441772004565 active site residue [active] 441772004566 Sulphur transport; Region: Sulf_transp; cl01018 441772004567 putative inner membrane protein; Provisional; Region: PRK11099 441772004568 Sulphur transport; Region: Sulf_transp; cl01018 441772004569 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 441772004570 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 441772004571 Walker A/P-loop; other site 441772004572 ATP binding site [chemical binding]; other site 441772004573 Q-loop/lid; other site 441772004574 ABC transporter signature motif; other site 441772004575 Walker B; other site 441772004576 D-loop; other site 441772004577 H-loop/switch region; other site 441772004578 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772004579 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772004580 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772004581 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772004582 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 441772004583 active site 441772004584 phosphorylation site [posttranslational modification] 441772004585 intermolecular recognition site; other site 441772004586 dimerization interface [polypeptide binding]; other site 441772004587 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 441772004588 DNA binding site [nucleotide binding] 441772004589 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 441772004590 dimer interface [polypeptide binding]; other site 441772004591 phosphorylation site [posttranslational modification] 441772004592 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 441772004593 ATP binding site [chemical binding]; other site 441772004594 Mg2+ binding site [ion binding]; other site 441772004595 G-X-G motif; other site 441772004596 Amidinotransferase; Region: Amidinotransf; cl12043 441772004597 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 441772004598 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 441772004599 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 441772004600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 441772004601 YmaF family; Region: YmaF; pfam12788 441772004602 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 441772004603 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 441772004604 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 441772004605 ATP binding site [chemical binding]; other site 441772004606 putative Mg++ binding site [ion binding]; other site 441772004607 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 441772004608 nucleotide binding region [chemical binding]; other site 441772004609 ATP-binding site [chemical binding]; other site 441772004610 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 441772004611 synthetase active site [active] 441772004612 NTP binding site [chemical binding]; other site 441772004613 metal binding site [ion binding]; metal-binding site 441772004614 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 441772004615 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 441772004616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772004617 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772004618 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772004619 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772004620 Walker A/P-loop; other site 441772004621 ATP binding site [chemical binding]; other site 441772004622 Q-loop/lid; other site 441772004623 ABC transporter signature motif; other site 441772004624 Walker B; other site 441772004625 D-loop; other site 441772004626 H-loop/switch region; other site 441772004627 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772004628 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772004629 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772004630 Walker A/P-loop; other site 441772004631 ATP binding site [chemical binding]; other site 441772004632 Q-loop/lid; other site 441772004633 ABC transporter signature motif; other site 441772004634 Walker B; other site 441772004635 D-loop; other site 441772004636 H-loop/switch region; other site 441772004637 Transcriptional regulators [Transcription]; Region: PurR; COG1609 441772004638 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 441772004639 DNA binding site [nucleotide binding] 441772004640 domain linker motif; other site 441772004641 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 441772004642 putative dimerization interface [polypeptide binding]; other site 441772004643 putative ligand binding site [chemical binding]; other site 441772004644 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772004645 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 441772004646 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 441772004647 Ca binding site [ion binding]; other site 441772004648 active site 441772004649 catalytic site [active] 441772004650 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772004651 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 441772004652 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 441772004653 active site turn [active] 441772004654 phosphorylation site [posttranslational modification] 441772004655 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 441772004656 putative catalytic site [active] 441772004657 putative metal binding site [ion binding]; other site 441772004658 putative phosphate binding site [ion binding]; other site 441772004659 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 441772004660 Domain of unknown function DUF; Region: DUF204; pfam02659 441772004661 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 441772004662 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 441772004663 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 441772004664 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772004665 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 441772004666 dimer interface [polypeptide binding]; other site 441772004667 phosphorylation site [posttranslational modification] 441772004668 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 441772004669 ATP binding site [chemical binding]; other site 441772004670 Mg2+ binding site [ion binding]; other site 441772004671 G-X-G motif; other site 441772004672 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772004673 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 441772004674 active site 441772004675 phosphorylation site [posttranslational modification] 441772004676 intermolecular recognition site; other site 441772004677 dimerization interface [polypeptide binding]; other site 441772004678 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 441772004679 DNA binding site [nucleotide binding] 441772004680 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772004681 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 441772004682 putative substrate translocation pore; other site 441772004683 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 441772004684 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 441772004685 active site 441772004686 motif I; other site 441772004687 motif II; other site 441772004688 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772004689 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 441772004690 Helix-turn-helix domains; Region: HTH; cl00088 441772004691 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 441772004692 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772004693 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 441772004694 DNA binding residues [nucleotide binding] 441772004695 YvrJ protein family; Region: YvrJ; pfam12841 441772004696 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 441772004697 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772004698 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 441772004699 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 441772004700 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 441772004701 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 441772004702 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 441772004703 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 441772004704 FAD binding site [chemical binding]; other site 441772004705 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 441772004706 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 441772004707 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 441772004708 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 441772004709 substrate binding pocket [chemical binding]; other site 441772004710 dimer interface [polypeptide binding]; other site 441772004711 inhibitor binding site; inhibition site 441772004712 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; cl00293 441772004713 B12 binding site [chemical binding]; other site 441772004714 hypothetical protein; Provisional; Region: PRK12705 441772004715 RNA polymerase factor sigma-70; Validated; Region: PRK06811 441772004716 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772004717 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 441772004718 GAF domain; Region: GAF; cl15785 441772004719 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772004720 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 441772004721 Walker A motif; other site 441772004722 ATP binding site [chemical binding]; other site 441772004723 Walker B motif; other site 441772004724 arginine finger; other site 441772004725 Helix-turn-helix domains; Region: HTH; cl00088 441772004726 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 441772004727 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 441772004728 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 441772004729 tetramer interface [polypeptide binding]; other site 441772004730 TPP-binding site [chemical binding]; other site 441772004731 heterodimer interface [polypeptide binding]; other site 441772004732 phosphorylation loop region [posttranslational modification] 441772004733 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 441772004734 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 441772004735 alpha subunit interface [polypeptide binding]; other site 441772004736 TPP binding site [chemical binding]; other site 441772004737 heterodimer interface [polypeptide binding]; other site 441772004738 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 441772004739 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 441772004740 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 441772004741 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 441772004742 E3 interaction surface; other site 441772004743 lipoyl attachment site [posttranslational modification]; other site 441772004744 e3 binding domain; Region: E3_binding; pfam02817 441772004745 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 441772004746 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 441772004747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772004748 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772004749 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 441772004750 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 441772004751 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 441772004752 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 441772004753 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 441772004754 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 441772004755 Walker A/P-loop; other site 441772004756 ATP binding site [chemical binding]; other site 441772004757 Q-loop/lid; other site 441772004758 ABC transporter signature motif; other site 441772004759 Walker B; other site 441772004760 D-loop; other site 441772004761 H-loop/switch region; other site 441772004762 FOG: CBS domain [General function prediction only]; Region: COG0517 441772004763 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 441772004764 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772004765 dimer interface [polypeptide binding]; other site 441772004766 conserved gate region; other site 441772004767 putative PBP binding loops; other site 441772004768 ABC-ATPase subunit interface; other site 441772004769 NMT1-like family; Region: NMT1_2; cl15260 441772004770 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 441772004771 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 441772004772 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, cyanobacteria; Region: Thr-synth_2; cd01560 441772004773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772004774 catalytic residue [active] 441772004775 homoserine kinase; Provisional; Region: PRK01212 441772004776 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 441772004777 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 441772004778 aspartate kinase; Reviewed; Region: PRK09034 441772004779 nucleotide binding site [chemical binding]; other site 441772004780 substrate binding site [chemical binding]; other site 441772004781 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 441772004782 allosteric regulatory residue; other site 441772004783 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 441772004784 homoserine dehydrogenase; Provisional; Region: PRK06349 441772004785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772004786 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 441772004787 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 441772004788 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 441772004789 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 441772004790 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 441772004791 Walker A motif; other site 441772004792 ATP binding site [chemical binding]; other site 441772004793 Walker B motif; other site 441772004794 arginine finger; other site 441772004795 Helix-turn-helix domains; Region: HTH; cl00088 441772004796 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 441772004797 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 441772004798 putative active site [active] 441772004799 metal binding site [ion binding]; metal-binding site 441772004800 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 441772004801 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 441772004802 FAD binding pocket [chemical binding]; other site 441772004803 FAD binding motif [chemical binding]; other site 441772004804 phosphate binding motif [ion binding]; other site 441772004805 beta-alpha-beta structure motif; other site 441772004806 NAD binding pocket [chemical binding]; other site 441772004807 Iron coordination center [ion binding]; other site 441772004808 putative oxidoreductase; Provisional; Region: PRK12831 441772004809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772004810 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 441772004811 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 441772004812 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 441772004813 Walker A motif; other site 441772004814 ATP binding site [chemical binding]; other site 441772004815 Walker B motif; other site 441772004816 arginine finger; other site 441772004817 Helix-turn-helix domains; Region: HTH; cl00088 441772004818 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 441772004819 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 441772004820 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 441772004821 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 441772004822 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cl02713 441772004823 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 441772004824 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 441772004825 alanine racemase; Reviewed; Region: alr; PRK00053 441772004826 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 441772004827 active site 441772004828 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772004829 dimer interface [polypeptide binding]; other site 441772004830 substrate binding site [chemical binding]; other site 441772004831 catalytic residues [active] 441772004832 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772004833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772004834 dimer interface [polypeptide binding]; other site 441772004835 putative CheW interface [polypeptide binding]; other site 441772004836 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 441772004837 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 441772004838 Protein of unknown function (DUF975); Region: DUF975; cl10504 441772004839 short chain dehydrogenase; Provisional; Region: PRK06701 441772004840 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 441772004841 NAD binding site [chemical binding]; other site 441772004842 metal binding site [ion binding]; metal-binding site 441772004843 active site 441772004844 Cache domain; Region: Cache_1; pfam02743 441772004845 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772004846 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772004847 dimer interface [polypeptide binding]; other site 441772004848 putative CheW interface [polypeptide binding]; other site 441772004849 KWG Leptospira; Region: KWG; pfam07656 441772004850 KWG Leptospira; Region: KWG; pfam07656 441772004851 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 441772004852 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 441772004853 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 441772004854 ATP binding site [chemical binding]; other site 441772004855 putative Mg++ binding site [ion binding]; other site 441772004856 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 441772004857 nucleotide binding region [chemical binding]; other site 441772004858 ATP-binding site [chemical binding]; other site 441772004859 Escherichia coli YaeB and related proteins; Region: UPF0066; cl00749 441772004860 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772004861 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772004862 putative substrate translocation pore; other site 441772004863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772004864 Helix-turn-helix domains; Region: HTH; cl00088 441772004865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772004866 Walker A/P-loop; other site 441772004867 ATP binding site [chemical binding]; other site 441772004868 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 441772004869 active site 441772004870 substrate binding site [chemical binding]; other site 441772004871 catalytic site [active] 441772004872 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 441772004873 Methyltransferase domain; Region: Methyltransf_31; pfam13847 441772004874 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 441772004875 S-adenosylmethionine binding site [chemical binding]; other site 441772004876 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 441772004877 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 441772004878 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772004879 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772004880 putative substrate translocation pore; other site 441772004881 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772004882 Helix-turn-helix domains; Region: HTH; cl00088 441772004883 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 441772004884 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 441772004885 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 441772004886 putative substrate binding site [chemical binding]; other site 441772004887 putative ATP binding site [chemical binding]; other site 441772004888 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772004889 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772004890 putative substrate translocation pore; other site 441772004891 NlpC/P60 family; Region: NLPC_P60; cl11438 441772004892 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 441772004893 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 441772004894 substrate binding site [chemical binding]; other site 441772004895 ATP binding site [chemical binding]; other site 441772004896 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 441772004897 putative peptidoglycan binding site; other site 441772004898 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 441772004899 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 protein; Region: CSP_CDS; cd04458 441772004900 DNA-binding site [nucleotide binding]; DNA binding site 441772004901 RNA-binding motif; other site 441772004902 Cache domain; Region: Cache_1; pfam02743 441772004903 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 441772004904 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772004905 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772004906 dimer interface [polypeptide binding]; other site 441772004907 putative CheW interface [polypeptide binding]; other site 441772004908 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 441772004909 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772004910 Pecanex protein (C-terminus); Region: Pecanex_C; pfam05041 441772004911 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772004912 ABC transporter; Region: ABC_tran_2; pfam12848 441772004913 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772004914 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 441772004915 putative deacylase active site [active] 441772004916 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 441772004917 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 441772004918 4Fe-4S binding domain; Region: Fer4; cl02805 441772004919 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 441772004920 Response regulator receiver domain; Region: Response_reg; pfam00072 441772004921 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 441772004922 active site 441772004923 phosphorylation site [posttranslational modification] 441772004924 intermolecular recognition site; other site 441772004925 dimerization interface [polypeptide binding]; other site 441772004926 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772004927 DEAD-like helicases superfamily; Region: DEXDc; smart00487 441772004928 ATP binding site [chemical binding]; other site 441772004929 putative Mg++ binding site [ion binding]; other site 441772004930 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 441772004931 nucleotide binding region [chemical binding]; other site 441772004932 ATP-binding site [chemical binding]; other site 441772004933 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 441772004934 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 441772004935 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 441772004936 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 441772004937 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 441772004938 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 441772004939 ATP binding site [chemical binding]; other site 441772004940 Mg++ binding site [ion binding]; other site 441772004941 motif III; other site 441772004942 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 441772004943 nucleotide binding region [chemical binding]; other site 441772004944 ATP-binding site [chemical binding]; other site 441772004945 DbpA RNA binding domain; Region: DbpA; pfam03880 441772004946 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772004947 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772004948 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772004949 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772004950 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772004951 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772004952 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 441772004953 Leucine-rich repeats; other site 441772004954 Substrate binding site [chemical binding]; other site 441772004955 Leucine rich repeat; Region: LRR_8; pfam13855 441772004956 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 441772004957 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772004958 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772004959 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 441772004960 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 441772004961 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 441772004962 Ferritin-like domain; Region: Ferritin; pfam00210 441772004963 ferroxidase diiron center [ion binding]; other site 441772004964 Response regulator receiver domain; Region: Response_reg; pfam00072 441772004965 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 441772004966 active site 441772004967 phosphorylation site [posttranslational modification] 441772004968 intermolecular recognition site; other site 441772004969 dimerization interface [polypeptide binding]; other site 441772004970 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 441772004971 Chemotaxis phosphatase CheX; Region: CheX; cl15816 441772004972 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 441772004973 Chemotaxis phosphatase CheX; Region: CheX; cl15816 441772004974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 441772004975 Nucleoside recognition; Region: Gate; cl00486 441772004976 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772004977 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772004978 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 441772004979 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 441772004980 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 441772004981 DNA binding site [nucleotide binding] 441772004982 Int/Topo IB signature motif; other site 441772004983 active site 441772004984 LexA repressor; Validated; Region: PRK00215 441772004985 Helix-turn-helix domains; Region: HTH; cl00088 441772004986 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 441772004987 Catalytic site [active] 441772004988 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 441772004989 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 441772004990 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772004991 catalytic residue [active] 441772004992 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 441772004993 Sm1 motif; other site 441772004994 intra - hexamer interaction site; other site 441772004995 inter - hexamer interaction site [polypeptide binding]; other site 441772004996 nucleotide binding pocket [chemical binding]; other site 441772004997 Sm2 motif; other site 441772004998 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 441772004999 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772005000 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 441772005001 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 441772005002 ATP binding site [chemical binding]; other site 441772005003 Mg2+ binding site [ion binding]; other site 441772005004 G-X-G motif; other site 441772005005 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 441772005006 ATP binding site [chemical binding]; other site 441772005007 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 441772005008 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 441772005009 MutS domain I; Region: MutS_I; pfam01624 441772005010 MutS domain II; Region: MutS_II; pfam05188 441772005011 MutS family domain IV; Region: MutS_IV; pfam05190 441772005012 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 441772005013 Walker A/P-loop; other site 441772005014 ATP binding site [chemical binding]; other site 441772005015 Q-loop/lid; other site 441772005016 ABC transporter signature motif; other site 441772005017 Walker B; other site 441772005018 D-loop; other site 441772005019 H-loop/switch region; other site 441772005020 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 441772005021 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 441772005022 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 441772005023 FeS/SAM binding site; other site 441772005024 TRAM domain; Region: TRAM; cl01282 441772005025 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 441772005026 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 441772005027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005028 homodimer interface [polypeptide binding]; other site 441772005029 catalytic residue [active] 441772005030 aspartate aminotransferase; Provisional; Region: PRK07568 441772005031 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 441772005032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005033 homodimer interface [polypeptide binding]; other site 441772005034 catalytic residue [active] 441772005035 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772005036 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772005037 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 441772005038 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 441772005039 LytB protein; Region: LYTB; cl00507 441772005040 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 441772005041 RNA binding site [nucleotide binding]; other site 441772005042 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 441772005043 RNA binding site [nucleotide binding]; other site 441772005044 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 441772005045 RNA binding site [nucleotide binding]; other site 441772005046 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 441772005047 RNA binding site [nucleotide binding]; other site 441772005048 domain interface; other site 441772005049 cytidylate kinase; Provisional; Region: cmk; PRK00023 441772005050 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 441772005051 CMP-binding site; other site 441772005052 The sites determining sugar specificity; other site 441772005053 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 441772005054 homotrimer interaction site [polypeptide binding]; other site 441772005055 active site 441772005056 flavoprotein, HI0933 family; Region: TIGR00275 441772005057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772005058 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 441772005059 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 441772005060 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 441772005061 NAD(P) binding site [chemical binding]; other site 441772005062 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772005063 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772005064 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 441772005065 putative active site [active] 441772005066 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 441772005067 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; cl09940 441772005068 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 441772005069 active site 441772005070 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 441772005071 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 441772005072 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 441772005073 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 441772005074 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 441772005075 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 441772005076 DXD motif; other site 441772005077 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 441772005078 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 441772005079 dimerization interface [polypeptide binding]; other site 441772005080 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772005081 dimer interface [polypeptide binding]; other site 441772005082 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 441772005083 putative CheW interface [polypeptide binding]; other site 441772005084 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 441772005085 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 441772005086 catalytic residues [active] 441772005087 Predicted amidohydrolase [General function prediction only]; Region: COG0388 441772005088 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 441772005089 putative active site [active] 441772005090 catalytic triad [active] 441772005091 dimer interface [polypeptide binding]; other site 441772005092 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 441772005093 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 441772005094 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 441772005095 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 441772005096 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772005097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772005098 Coenzyme A binding pocket [chemical binding]; other site 441772005099 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 441772005100 active site residue [active] 441772005101 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 441772005102 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 441772005103 dimer interface [polypeptide binding]; other site 441772005104 [2Fe-2S] cluster binding site [ion binding]; other site 441772005105 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 441772005106 4Fe-4S binding domain; Region: Fer4; cl02805 441772005107 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772005108 Putative Fe-S cluster; Region: FeS; pfam04060 441772005109 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 441772005110 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 441772005111 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 441772005112 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 441772005113 4Fe-4S binding domain; Region: Fer4; cl02805 441772005114 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772005115 Putative Fe-S cluster; Region: FeS; pfam04060 441772005116 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 441772005117 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 441772005118 dimerization interface [polypeptide binding]; other site 441772005119 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 441772005120 ATP binding site [chemical binding]; other site 441772005121 Hydrogenase formation hypA family; Region: HypD; cl12072 441772005122 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 441772005123 HupF/HypC family; Region: HupF_HypC; cl00394 441772005124 Acylphosphatase; Region: Acylphosphatase; cl00551 441772005125 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 441772005126 HypF finger; Region: zf-HYPF; pfam07503 441772005127 HypF finger; Region: zf-HYPF; pfam07503 441772005128 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 441772005129 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 441772005130 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 441772005131 nickel binding site [ion binding]; other site 441772005132 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 441772005133 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 441772005134 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 441772005135 TraX protein; Region: TraX; cl05434 441772005136 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 441772005137 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772005138 ATP-grasp domain; Region: ATP-grasp_4; cl03087 441772005139 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 441772005140 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772005141 ATP-grasp domain; Region: ATP-grasp_4; cl03087 441772005142 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 441772005143 IMP binding site; other site 441772005144 dimer interface [polypeptide binding]; other site 441772005145 interdomain contacts; other site 441772005146 partial ornithine binding site; other site 441772005147 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 441772005148 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 441772005149 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 441772005150 catalytic site [active] 441772005151 subunit interface [polypeptide binding]; other site 441772005152 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 441772005153 TIR domain; Region: TIR_2; cl15770 441772005154 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772005155 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772005156 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772005157 ABC transporter; Region: ABC_tran_2; pfam12848 441772005158 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772005159 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 441772005160 catalytic loop [active] 441772005161 iron binding site [ion binding]; other site 441772005162 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 441772005163 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 441772005164 4Fe-4S binding domain; Region: Fer4; cl02805 441772005165 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772005166 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 441772005167 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 441772005168 dimer interface [polypeptide binding]; other site 441772005169 [2Fe-2S] cluster binding site [ion binding]; other site 441772005170 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 441772005171 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 441772005172 SLBB domain; Region: SLBB; pfam10531 441772005173 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 441772005174 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 441772005175 4Fe-4S binding domain; Region: Fer4; cl02805 441772005176 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 441772005177 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 441772005178 putative dimer interface [polypeptide binding]; other site 441772005179 [2Fe-2S] cluster binding site [ion binding]; other site 441772005180 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 441772005181 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 441772005182 Domain of unknown function DUF20; Region: UPF0118; pfam01594 441772005183 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 441772005184 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 441772005185 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772005186 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 441772005187 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 441772005188 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 441772005189 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 441772005190 ScpA/B protein; Region: ScpA_ScpB; cl00598 441772005191 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 441772005192 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772005193 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 441772005194 EcsC protein family; Region: EcsC; pfam12787 441772005195 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 441772005196 putative catalytic site [active] 441772005197 putative metal binding site [ion binding]; other site 441772005198 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 441772005199 putative catalytic site [active] 441772005200 putative phosphate binding site [ion binding]; other site 441772005201 putative phosphate binding site [ion binding]; other site 441772005202 putative metal binding site [ion binding]; other site 441772005203 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 441772005204 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 441772005205 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 441772005206 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 441772005207 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 441772005208 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 441772005209 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 441772005210 Int/Topo IB signature motif; other site 441772005211 active site 441772005212 Integral membrane protein DUF95; Region: DUF95; cl00572 441772005213 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 441772005214 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 441772005215 dimer interface [polypeptide binding]; other site 441772005216 ADP-ribose binding site [chemical binding]; other site 441772005217 active site 441772005218 nudix motif; other site 441772005219 metal binding site [ion binding]; metal-binding site 441772005220 inner membrane transporter YjeM; Provisional; Region: PRK15238 441772005221 NlpC/P60 family; Region: NLPC_P60; cl11438 441772005222 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 441772005223 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 441772005224 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 441772005225 active site 441772005226 metal binding site [ion binding]; metal-binding site 441772005227 Bacterial SH3 domain; Region: SH3_3; cl02551 441772005228 Haemolysin XhlA; Region: XhlA; pfam10779 441772005229 Phage tail protein; Region: Sipho_tail; pfam05709 441772005230 MAEBL; Provisional; Region: PTZ00121 441772005231 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 441772005232 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 441772005233 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 441772005234 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 441772005235 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 441772005236 oligomerization interface [polypeptide binding]; other site 441772005237 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 441772005238 Phage capsid family; Region: Phage_capsid; pfam05065 441772005239 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 441772005240 oligomer interface [polypeptide binding]; other site 441772005241 active site residues [active] 441772005242 Phage portal protein; Region: Phage_portal; pfam04860 441772005243 Phage-related protein [Function unknown]; Region: COG4695; cl01923 441772005244 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 441772005245 Phage Terminase; Region: Terminase_1; pfam03354 441772005246 Phage terminase, small subunit; Region: Terminase_4; cl01525 441772005247 Predicted ATPase [General function prediction only]; Region: COG5293 441772005248 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 441772005249 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 441772005250 N-terminal catalytic domain of GIY-YIG intron endonuclease I-TevI, I-BmoI, I-BanI, I-BthII and similar proteins; Region: GIY-YIG_HE_I-TevI_like; cd10437 441772005251 putative active site [active] 441772005252 catalytic site [active] 441772005253 putative metal binding site [ion binding]; other site 441772005254 YcfA-like protein; Region: YcfA; cl00752 441772005255 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 441772005256 non-specific DNA binding site [nucleotide binding]; other site 441772005257 salt bridge; other site 441772005258 sequence-specific DNA binding site [nucleotide binding]; other site 441772005259 Helix-turn-helix domains; Region: HTH; cl00088 441772005260 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 441772005261 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 441772005262 active site 441772005263 metal binding site [ion binding]; metal-binding site 441772005264 Helix-turn-helix domains; Region: HTH; cl00088 441772005265 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 441772005266 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 441772005267 DNA binding site [nucleotide binding] 441772005268 Int/Topo IB signature motif; other site 441772005269 active site 441772005270 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 441772005271 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 441772005272 active site 441772005273 phosphorylation site [posttranslational modification] 441772005274 intermolecular recognition site; other site 441772005275 dimerization interface [polypeptide binding]; other site 441772005276 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 441772005277 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 441772005278 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 441772005279 Homoserine O-succinyltransferase; Region: HTS; pfam04204 441772005280 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 441772005281 conserved cys residue [active] 441772005282 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 441772005283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772005284 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 441772005285 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 441772005286 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 441772005287 homodimer interface [polypeptide binding]; other site 441772005288 substrate-cofactor binding pocket; other site 441772005289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005290 catalytic residue [active] 441772005291 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 441772005292 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 441772005293 Walker A/P-loop; other site 441772005294 ATP binding site [chemical binding]; other site 441772005295 Q-loop/lid; other site 441772005296 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 441772005297 ABC transporter signature motif; other site 441772005298 Walker B; other site 441772005299 D-loop; other site 441772005300 H-loop/switch region; other site 441772005301 arginine repressor; Provisional; Region: argR; PRK00441 441772005302 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 441772005303 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 441772005304 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 441772005305 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 441772005306 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 441772005307 RNA binding surface [nucleotide binding]; other site 441772005308 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; cl15754 441772005309 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 441772005310 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 441772005311 TPP-binding site; other site 441772005312 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 441772005313 PYR/PP interface [polypeptide binding]; other site 441772005314 dimer interface [polypeptide binding]; other site 441772005315 TPP binding site [chemical binding]; other site 441772005316 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 441772005317 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 441772005318 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 441772005319 substrate binding pocket [chemical binding]; other site 441772005320 chain length determination region; other site 441772005321 substrate-Mg2+ binding site; other site 441772005322 catalytic residues [active] 441772005323 aspartate-rich region 1; other site 441772005324 active site lid residues [active] 441772005325 aspartate-rich region 2; other site 441772005326 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 441772005327 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 441772005328 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 441772005329 generic binding surface I; other site 441772005330 generic binding surface II; other site 441772005331 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 441772005332 Asp23 family; Region: Asp23; cl00574 441772005333 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 441772005334 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 441772005335 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 441772005336 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 441772005337 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 441772005338 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 441772005339 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 441772005340 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 441772005341 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 441772005342 elongation factor P; Validated; Region: PRK00529 441772005343 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 441772005344 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 441772005345 RNA binding site [nucleotide binding]; other site 441772005346 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 441772005347 RNA binding site [nucleotide binding]; other site 441772005348 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 441772005349 trimer interface [polypeptide binding]; other site 441772005350 active site 441772005351 dimer interface [polypeptide binding]; other site 441772005352 shikimate kinase; Reviewed; Region: aroK; PRK00131 441772005353 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 441772005354 ADP binding site [chemical binding]; other site 441772005355 magnesium binding site [ion binding]; other site 441772005356 putative shikimate binding site; other site 441772005357 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 441772005358 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 441772005359 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 441772005360 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 441772005361 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 441772005362 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 441772005363 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 441772005364 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 441772005365 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 441772005366 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 441772005367 Walker A motif; other site 441772005368 ATP binding site [chemical binding]; other site 441772005369 Walker B motif; other site 441772005370 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 441772005371 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 441772005372 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 441772005373 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 441772005374 Domain of unknown function (DUF814); Region: DUF814; pfam05670 441772005375 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 441772005376 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 441772005377 dimerization interface 3.5A [polypeptide binding]; other site 441772005378 active site 441772005379 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 441772005380 nucleotide binding site/active site [active] 441772005381 HIT family signature motif; other site 441772005382 catalytic residue [active] 441772005383 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 441772005384 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 441772005385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005386 catalytic residue [active] 441772005387 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 441772005388 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772005389 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 441772005390 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772005391 dimer interface [polypeptide binding]; other site 441772005392 putative CheW interface [polypeptide binding]; other site 441772005393 Clostripain family; Region: Peptidase_C11; cl04055 441772005394 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 441772005395 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772005396 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 441772005397 active site 441772005398 phosphorylation site [posttranslational modification] 441772005399 intermolecular recognition site; other site 441772005400 dimerization interface [polypeptide binding]; other site 441772005401 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 441772005402 DNA binding site [nucleotide binding] 441772005403 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772005404 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 441772005405 dimer interface [polypeptide binding]; other site 441772005406 phosphorylation site [posttranslational modification] 441772005407 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 441772005408 ATP binding site [chemical binding]; other site 441772005409 Mg2+ binding site [ion binding]; other site 441772005410 G-X-G motif; other site 441772005411 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 441772005412 Response regulator receiver domain; Region: Response_reg; pfam00072 441772005413 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 441772005414 active site 441772005415 phosphorylation site [posttranslational modification] 441772005416 intermolecular recognition site; other site 441772005417 dimerization interface [polypeptide binding]; other site 441772005418 Response regulator receiver domain; Region: Response_reg; pfam00072 441772005419 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 441772005420 active site 441772005421 phosphorylation site [posttranslational modification] 441772005422 intermolecular recognition site; other site 441772005423 dimerization interface [polypeptide binding]; other site 441772005424 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 441772005425 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 441772005426 dimer interface [polypeptide binding]; other site 441772005427 phosphorylation site [posttranslational modification] 441772005428 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 441772005429 ATP binding site [chemical binding]; other site 441772005430 Mg2+ binding site [ion binding]; other site 441772005431 G-X-G motif; other site 441772005432 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772005433 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 441772005434 active site 441772005435 phosphorylation site [posttranslational modification] 441772005436 intermolecular recognition site; other site 441772005437 dimerization interface [polypeptide binding]; other site 441772005438 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 441772005439 DNA binding site [nucleotide binding] 441772005440 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772005441 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 441772005442 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772005443 Walker A/P-loop; other site 441772005444 ATP binding site [chemical binding]; other site 441772005445 Q-loop/lid; other site 441772005446 ABC transporter signature motif; other site 441772005447 Walker B; other site 441772005448 D-loop; other site 441772005449 H-loop/switch region; other site 441772005450 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772005451 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772005452 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 441772005453 Walker A/P-loop; other site 441772005454 ATP binding site [chemical binding]; other site 441772005455 Q-loop/lid; other site 441772005456 ABC transporter signature motif; other site 441772005457 Walker B; other site 441772005458 D-loop; other site 441772005459 H-loop/switch region; other site 441772005460 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772005461 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 441772005462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772005463 Walker A/P-loop; other site 441772005464 ATP binding site [chemical binding]; other site 441772005465 Q-loop/lid; other site 441772005466 ABC transporter signature motif; other site 441772005467 Walker B; other site 441772005468 D-loop; other site 441772005469 H-loop/switch region; other site 441772005470 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772005471 Helix-turn-helix domains; Region: HTH; cl00088 441772005472 Helix-turn-helix domains; Region: HTH; cl00088 441772005473 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 441772005474 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772005475 Coenzyme A binding pocket [chemical binding]; other site 441772005476 hypothetical protein; Provisional; Region: PRK08328 441772005477 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 441772005478 ATP binding site [chemical binding]; other site 441772005479 substrate interface [chemical binding]; other site 441772005480 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 441772005481 MoaE interaction surface [polypeptide binding]; other site 441772005482 MoeB interaction surface [polypeptide binding]; other site 441772005483 thiocarboxylated glycine; other site 441772005484 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 441772005485 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 441772005486 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 441772005487 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 441772005488 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 441772005489 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 441772005490 Walker A motif; other site 441772005491 ATP binding site [chemical binding]; other site 441772005492 Walker B motif; other site 441772005493 arginine finger; other site 441772005494 Helix-turn-helix domains; Region: HTH; cl00088 441772005495 MOSC domain; Region: MOSC; pfam03473 441772005496 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 441772005497 trimer interface [polypeptide binding]; other site 441772005498 dimer interface [polypeptide binding]; other site 441772005499 putative active site [active] 441772005500 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 441772005501 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 441772005502 FeS/SAM binding site; other site 441772005503 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 441772005504 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 441772005505 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 441772005506 dimer interface [polypeptide binding]; other site 441772005507 putative functional site; other site 441772005508 putative MPT binding site; other site 441772005509 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 441772005510 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 441772005511 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 441772005512 dimer interface [polypeptide binding]; other site 441772005513 putative functional site; other site 441772005514 putative MPT binding site; other site 441772005515 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 441772005516 MPT binding site; other site 441772005517 trimer interface [polypeptide binding]; other site 441772005518 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 441772005519 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 441772005520 Walker A/P-loop; other site 441772005521 ATP binding site [chemical binding]; other site 441772005522 Q-loop/lid; other site 441772005523 ABC transporter signature motif; other site 441772005524 Walker B; other site 441772005525 D-loop; other site 441772005526 H-loop/switch region; other site 441772005527 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772005528 dimer interface [polypeptide binding]; other site 441772005529 conserved gate region; other site 441772005530 putative PBP binding loops; other site 441772005531 ABC-ATPase subunit interface; other site 441772005532 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 441772005533 putative efflux protein, MATE family; Region: matE; TIGR00797 441772005534 MatE; Region: MatE; cl10513 441772005535 MatE; Region: MatE; cl10513 441772005536 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 441772005537 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772005538 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772005539 Walker A/P-loop; other site 441772005540 ATP binding site [chemical binding]; other site 441772005541 Q-loop/lid; other site 441772005542 ABC transporter signature motif; other site 441772005543 Walker B; other site 441772005544 D-loop; other site 441772005545 H-loop/switch region; other site 441772005546 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772005547 FtsX-like permease family; Region: FtsX; cl15850 441772005548 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772005549 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772005550 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 441772005551 Walker A/P-loop; other site 441772005552 ATP binding site [chemical binding]; other site 441772005553 Q-loop/lid; other site 441772005554 ABC transporter signature motif; other site 441772005555 Walker B; other site 441772005556 D-loop; other site 441772005557 H-loop/switch region; other site 441772005558 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772005559 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772005560 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772005561 Walker A/P-loop; other site 441772005562 ATP binding site [chemical binding]; other site 441772005563 Q-loop/lid; other site 441772005564 ABC transporter signature motif; other site 441772005565 Walker B; other site 441772005566 D-loop; other site 441772005567 H-loop/switch region; other site 441772005568 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 441772005569 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772005570 DNA binding residues [nucleotide binding] 441772005571 dimer interface [polypeptide binding]; other site 441772005572 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772005573 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772005574 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005575 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005576 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005577 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005578 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005579 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 441772005580 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 441772005581 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772005582 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 441772005583 Walker A motif; other site 441772005584 ATP binding site [chemical binding]; other site 441772005585 Walker B motif; other site 441772005586 arginine finger; other site 441772005587 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 441772005588 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 441772005589 homotrimer interaction site [polypeptide binding]; other site 441772005590 putative active site [active] 441772005591 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 441772005592 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 441772005593 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 441772005594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005595 homodimer interface [polypeptide binding]; other site 441772005596 catalytic residue [active] 441772005597 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 441772005598 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 441772005599 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 441772005600 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 441772005601 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005602 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005603 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005604 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 441772005605 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 441772005606 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 441772005607 dimer interface [polypeptide binding]; other site 441772005608 phosphorylation site [posttranslational modification] 441772005609 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 441772005610 ATP binding site [chemical binding]; other site 441772005611 Mg2+ binding site [ion binding]; other site 441772005612 G-X-G motif; other site 441772005613 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772005614 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 441772005615 active site 441772005616 phosphorylation site [posttranslational modification] 441772005617 intermolecular recognition site; other site 441772005618 dimerization interface [polypeptide binding]; other site 441772005619 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 441772005620 DNA binding site [nucleotide binding] 441772005621 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 441772005622 Cobalt transport protein; Region: CbiQ; cl00463 441772005623 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 441772005624 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 441772005625 Walker A/P-loop; other site 441772005626 ATP binding site [chemical binding]; other site 441772005627 Q-loop/lid; other site 441772005628 ABC transporter signature motif; other site 441772005629 Walker B; other site 441772005630 D-loop; other site 441772005631 H-loop/switch region; other site 441772005632 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 441772005633 Walker A/P-loop; other site 441772005634 ATP binding site [chemical binding]; other site 441772005635 Q-loop/lid; other site 441772005636 ABC transporter signature motif; other site 441772005637 Walker B; other site 441772005638 D-loop; other site 441772005639 H-loop/switch region; other site 441772005640 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 441772005641 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 441772005642 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 441772005643 dimer interface [polypeptide binding]; other site 441772005644 active site 441772005645 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772005646 substrate binding site [chemical binding]; other site 441772005647 catalytic residue [active] 441772005648 Spore germination protein; Region: Spore_permease; cl15802 441772005649 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772005650 Spore germination protein; Region: Spore_permease; cl15802 441772005651 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 441772005652 Spore germination protein; Region: Spore_permease; cl15802 441772005653 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 441772005654 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 441772005655 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 441772005656 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 441772005657 FeS/SAM binding site; other site 441772005658 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 441772005659 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 441772005660 binding surface 441772005661 TPR repeat; Region: TPR_11; pfam13414 441772005662 TPR motif; other site 441772005663 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 441772005664 binding surface 441772005665 TPR motif; other site 441772005666 TPR repeat; Region: TPR_11; pfam13414 441772005667 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 441772005668 potassium/proton antiporter; Reviewed; Region: PRK05326 441772005669 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 441772005670 heat shock protein 90; Provisional; Region: PRK05218 441772005671 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; cl00075 441772005672 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 441772005673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772005674 Walker A/P-loop; other site 441772005675 ATP binding site [chemical binding]; other site 441772005676 Q-loop/lid; other site 441772005677 ABC transporter signature motif; other site 441772005678 Walker B; other site 441772005679 D-loop; other site 441772005680 H-loop/switch region; other site 441772005681 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 441772005682 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 441772005683 active site turn [active] 441772005684 phosphorylation site [posttranslational modification] 441772005685 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772005686 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 441772005687 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 441772005688 Ca binding site [ion binding]; other site 441772005689 active site 441772005690 catalytic site [active] 441772005691 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 441772005692 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772005693 DNA-binding site [nucleotide binding]; DNA binding site 441772005694 UTRA domain; Region: UTRA; cl01230 441772005695 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 441772005696 active site 441772005697 phosphorylation site [posttranslational modification] 441772005698 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 441772005699 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 441772005700 P-loop; other site 441772005701 active site 441772005702 phosphorylation site [posttranslational modification] 441772005703 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772005704 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 441772005705 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 441772005706 putative substrate binding site [chemical binding]; other site 441772005707 putative ATP binding site [chemical binding]; other site 441772005708 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 441772005709 hypothetical protein; Provisional; Region: PRK08185 441772005710 intersubunit interface [polypeptide binding]; other site 441772005711 active site 441772005712 zinc binding site [ion binding]; other site 441772005713 Na+ binding site [ion binding]; other site 441772005714 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772005715 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772005716 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 441772005717 putative active site [active] 441772005718 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 441772005719 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 441772005720 homotrimer interaction site [polypeptide binding]; other site 441772005721 putative active site [active] 441772005722 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 441772005723 Radical SAM superfamily; Region: Radical_SAM; pfam04055 441772005724 FeS/SAM binding site; other site 441772005725 radical SAM protein, TIGR01212 family; Region: TIGR01212 441772005726 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 441772005727 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 441772005728 dimer interface [polypeptide binding]; other site 441772005729 active site 441772005730 metal binding site [ion binding]; metal-binding site 441772005731 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 441772005732 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 441772005733 dimerization interface [polypeptide binding]; other site 441772005734 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772005735 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772005736 dimer interface [polypeptide binding]; other site 441772005737 putative CheW interface [polypeptide binding]; other site 441772005738 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 441772005739 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 441772005740 dimer interface [polypeptide binding]; other site 441772005741 active site 441772005742 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772005743 substrate binding site [chemical binding]; other site 441772005744 catalytic residue [active] 441772005745 ATP cone domain; Region: ATP-cone; pfam03477 441772005746 putative oxidoreductase; Provisional; Region: PRK11579 441772005747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772005748 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 441772005749 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 441772005750 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 441772005751 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 441772005752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772005753 metal binding site [ion binding]; metal-binding site 441772005754 active site 441772005755 I-site; other site 441772005756 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 441772005757 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 441772005758 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 441772005759 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772005760 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 441772005761 Walker A motif; other site 441772005762 ATP binding site [chemical binding]; other site 441772005763 Walker B motif; other site 441772005764 arginine finger; other site 441772005765 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 441772005766 DEAD-like helicases superfamily; Region: DEXDc; smart00487 441772005767 ATP binding site [chemical binding]; other site 441772005768 Mg++ binding site [ion binding]; other site 441772005769 motif III; other site 441772005770 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 441772005771 nucleotide binding region [chemical binding]; other site 441772005772 ATP-binding site [chemical binding]; other site 441772005773 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 441772005774 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 441772005775 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772005776 DNA-binding site [nucleotide binding]; DNA binding site 441772005777 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 441772005778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005779 homodimer interface [polypeptide binding]; other site 441772005780 catalytic residue [active] 441772005781 EamA-like transporter family; Region: EamA; cl01037 441772005782 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 441772005783 aspartate aminotransferase; Provisional; Region: PRK06348 441772005784 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 441772005785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005786 homodimer interface [polypeptide binding]; other site 441772005787 catalytic residue [active] 441772005788 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 441772005789 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 441772005790 Walker A/P-loop; other site 441772005791 ATP binding site [chemical binding]; other site 441772005792 Q-loop/lid; other site 441772005793 ABC transporter signature motif; other site 441772005794 Walker B; other site 441772005795 D-loop; other site 441772005796 H-loop/switch region; other site 441772005797 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 441772005798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772005799 dimer interface [polypeptide binding]; other site 441772005800 conserved gate region; other site 441772005801 putative PBP binding loops; other site 441772005802 ABC-ATPase subunit interface; other site 441772005803 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 441772005804 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772005805 substrate binding pocket [chemical binding]; other site 441772005806 membrane-bound complex binding site; other site 441772005807 hinge residues; other site 441772005808 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 441772005809 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 441772005810 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 441772005811 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772005812 catalytic residue [active] 441772005813 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 441772005814 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 441772005815 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 441772005816 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 441772005817 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 441772005818 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 441772005819 non-specific DNA binding site [nucleotide binding]; other site 441772005820 salt bridge; other site 441772005821 sequence-specific DNA binding site [nucleotide binding]; other site 441772005822 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 441772005823 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 441772005824 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 441772005825 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772005826 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 441772005827 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 441772005828 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772005829 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 441772005830 active site 441772005831 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 441772005832 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; cl12031 441772005833 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 441772005834 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 becoming...; Region: Lipase; cl14883 441772005835 nucleophilic elbow; other site 441772005836 catalytic triad; other site 441772005837 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 441772005838 putative FMN binding site [chemical binding]; other site 441772005839 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 441772005840 metal ion-dependent adhesion site (MIDAS); other site 441772005841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772005842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772005843 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 441772005844 Helix-turn-helix domains; Region: HTH; cl00088 441772005845 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 441772005846 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 441772005847 active site 441772005848 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 441772005849 active site 441772005850 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 441772005851 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 441772005852 putative trimer interface [polypeptide binding]; other site 441772005853 putative CoA binding site [chemical binding]; other site 441772005854 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 441772005855 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 441772005856 inhibitor-cofactor binding pocket; inhibition site 441772005857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005858 catalytic residue [active] 441772005859 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 441772005860 active site 441772005861 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 441772005862 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 441772005863 substrate binding site; other site 441772005864 metal-binding site 441772005865 Oligomer interface; other site 441772005866 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 441772005867 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 441772005868 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 441772005869 NAD binding site [chemical binding]; other site 441772005870 substrate binding site [chemical binding]; other site 441772005871 homodimer interface [polypeptide binding]; other site 441772005872 active site 441772005873 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 441772005874 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 441772005875 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 441772005876 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; cl12031 441772005877 VanZ like family; Region: VanZ; cl01971 441772005878 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 441772005879 glycosyltransferase, MGT family; Region: MGT; TIGR01426 441772005880 active site 441772005881 TDP-binding site; other site 441772005882 acceptor substrate-binding pocket; other site 441772005883 homodimer interface [polypeptide binding]; other site 441772005884 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 441772005885 cytosine deaminase; Provisional; Region: PRK09230 441772005886 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 441772005887 active site 441772005888 Sodium:solute symporter family; Region: SSF; cl00456 441772005889 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]; Region: COG2108 441772005890 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 441772005891 FeS/SAM binding site; other site 441772005892 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; cl15754 441772005893 cofactor binding site; other site 441772005894 DNA binding site [nucleotide binding] 441772005895 substrate interaction site [chemical binding]; other site 441772005896 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; cl15754 441772005897 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; cl15754 441772005898 AIPR protein; Region: AIPR; pfam10592 441772005899 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 441772005900 Z1 domain; Region: Z1; pfam10593 441772005901 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 441772005902 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; cl00075 441772005903 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 441772005904 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; cl00083 441772005905 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 441772005906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772005907 NAD(P) binding site [chemical binding]; other site 441772005908 active site 441772005909 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 441772005910 active site 441772005911 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 441772005912 active site 441772005913 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 441772005914 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 441772005915 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 441772005916 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 441772005917 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 441772005918 G1 box; other site 441772005919 putative GEF interaction site [polypeptide binding]; other site 441772005920 GTP/Mg2+ binding site [chemical binding]; other site 441772005921 Switch I region; other site 441772005922 G2 box; other site 441772005923 G3 box; other site 441772005924 Switch II region; other site 441772005925 G4 box; other site 441772005926 G5 box; other site 441772005927 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 441772005928 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 441772005929 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 441772005930 Viral enhancin protein; Region: Enhancin; pfam03272 441772005931 Peptidase M60-like family; Region: M60-like; pfam13402 441772005932 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 441772005933 chitin/cellulose binding site [chemical binding]; other site 441772005934 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 441772005935 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772005936 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772005937 Uncharacterized family 3; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_3; cd10160 441772005938 putative homotetramer interface [polypeptide binding]; other site 441772005939 putative homodimer interface [polypeptide binding]; other site 441772005940 putative metal binding site [ion binding]; other site 441772005941 putative homodimer-homodimer interface [polypeptide binding]; other site 441772005942 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 441772005943 Hexamer interface [polypeptide binding]; other site 441772005944 Putative hexagonal pore residue; other site 441772005945 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 441772005946 Propanediol utilisation protein PduL; Region: PduL; pfam06130 441772005947 Propanediol utilisation protein PduL; Region: PduL; pfam06130 441772005948 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 441772005949 putative catalytic cysteine [active] 441772005950 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 441772005951 Hexamer interface [polypeptide binding]; other site 441772005952 Hexagonal pore residue; other site 441772005953 Cupin domain; Region: Cupin_2; cl09118 441772005954 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 441772005955 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 441772005956 Hexamer/Pentamer interface [polypeptide binding]; other site 441772005957 central pore; other site 441772005958 Bacterial Micro-Compartment (BMC)-like domain 2; Region: BMC_like_2; cd07055 441772005959 putative hexamer interface [polypeptide binding]; other site 441772005960 putative hexagonal pore; other site 441772005961 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 441772005962 Cell division protein FtsA; Region: FtsA; cl11496 441772005963 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 441772005964 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 441772005965 G1 box; other site 441772005966 GTP/Mg2+ binding site [chemical binding]; other site 441772005967 G2 box; other site 441772005968 Switch I region; other site 441772005969 G3 box; other site 441772005970 Switch II region; other site 441772005971 G4 box; other site 441772005972 G5 box; other site 441772005973 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 441772005974 putative hexamer interface [polypeptide binding]; other site 441772005975 putative hexagonal pore; other site 441772005976 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 441772005977 4Fe-4S binding domain; Region: Fer4; cl02805 441772005978 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 441772005979 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 441772005980 dimer interface [polypeptide binding]; other site 441772005981 active site 441772005982 glycine loop; other site 441772005983 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 441772005984 putative catalytic cysteine [active] 441772005985 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 441772005986 Hexamer interface [polypeptide binding]; other site 441772005987 Hexagonal pore residue; other site 441772005988 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 441772005989 Hexamer interface [polypeptide binding]; other site 441772005990 Hexagonal pore residue; other site 441772005991 EamA-like transporter family; Region: EamA; cl01037 441772005992 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 441772005993 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772005994 DNA binding residues [nucleotide binding] 441772005995 drug binding residues [chemical binding]; other site 441772005996 dimer interface [polypeptide binding]; other site 441772005997 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772005998 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 441772005999 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 441772006000 putative active site [active] 441772006001 metal binding site [ion binding]; metal-binding site 441772006002 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 441772006003 MatE; Region: MatE; cl10513 441772006004 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 441772006005 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772006006 putative substrate translocation pore; other site 441772006007 Transcriptional regulators [Transcription]; Region: FadR; COG2186 441772006008 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772006009 DNA-binding site [nucleotide binding]; DNA binding site 441772006010 FCD domain; Region: FCD; cl11656 441772006011 Helix-turn-helix domains; Region: HTH; cl00088 441772006012 phenylalanyl-tRNA synthetase alpha chain; Provisional; Region: PTZ00326 441772006013 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772006014 Coenzyme A binding pocket [chemical binding]; other site 441772006015 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 441772006016 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 441772006017 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 441772006018 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 441772006019 active site 441772006020 catalytic site [active] 441772006021 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 441772006022 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 441772006023 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; cl00080 441772006024 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 441772006025 ATP binding site [chemical binding]; other site 441772006026 Mg2+ binding site [ion binding]; other site 441772006027 G-X-G motif; other site 441772006028 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772006029 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 441772006030 active site 441772006031 phosphorylation site [posttranslational modification] 441772006032 intermolecular recognition site; other site 441772006033 dimerization interface [polypeptide binding]; other site 441772006034 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 441772006035 DNA binding site [nucleotide binding] 441772006036 TraB family; Region: TraB; cl12050 441772006037 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772006038 Zn binding site [ion binding]; other site 441772006039 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772006040 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 441772006041 Walker A/P-loop; other site 441772006042 ATP binding site [chemical binding]; other site 441772006043 Q-loop/lid; other site 441772006044 ABC transporter signature motif; other site 441772006045 Walker B; other site 441772006046 D-loop; other site 441772006047 H-loop/switch region; other site 441772006048 putative oxidoreductase; Provisional; Region: PRK11445 441772006049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772006050 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772006051 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 441772006052 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 441772006053 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 441772006054 NAD(P) binding site [chemical binding]; other site 441772006055 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 441772006056 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 441772006057 Metal-binding active site; metal-binding site 441772006058 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics; Region: DOIS; cd08197 441772006059 active site 441772006060 dimer interface [polypeptide binding]; other site 441772006061 metal binding site [ion binding]; metal-binding site 441772006062 FtsX-like permease family; Region: FtsX; cl15850 441772006063 FtsX-like permease family; Region: FtsX; cl15850 441772006064 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772006065 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772006066 Walker A/P-loop; other site 441772006067 ATP binding site [chemical binding]; other site 441772006068 Q-loop/lid; other site 441772006069 ABC transporter signature motif; other site 441772006070 Walker B; other site 441772006071 D-loop; other site 441772006072 H-loop/switch region; other site 441772006073 Helix-turn-helix domains; Region: HTH; cl00088 441772006074 Helix-turn-helix domains; Region: HTH; cl00088 441772006075 PRD domain; Region: PRD; cl15445 441772006076 PRD domain; Region: PRD; cl15445 441772006077 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 441772006078 P-loop; other site 441772006079 active site 441772006080 phosphorylation site [posttranslational modification] 441772006081 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 441772006082 active site 441772006083 phosphorylation site [posttranslational modification] 441772006084 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 441772006085 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 441772006086 P-loop; other site 441772006087 active site 441772006088 phosphorylation site [posttranslational modification] 441772006089 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 441772006090 active site 441772006091 phosphorylation site [posttranslational modification] 441772006092 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 441772006093 active site 441772006094 intersubunit interactions; other site 441772006095 catalytic residue [active] 441772006096 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 441772006097 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 441772006098 active site 441772006099 substrate binding site [chemical binding]; other site 441772006100 trimer interface [polypeptide binding]; other site 441772006101 CoA binding site [chemical binding]; other site 441772006102 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 441772006103 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772006104 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 441772006105 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 441772006106 S-adenosylmethionine binding site [chemical binding]; other site 441772006107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772006108 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772006109 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772006110 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772006111 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 441772006112 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; cl09108 441772006113 phosphate binding site [ion binding]; other site 441772006114 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772006115 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 441772006116 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 441772006117 DNA binding residues [nucleotide binding] 441772006118 dimer interface [polypeptide binding]; other site 441772006119 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 441772006120 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 441772006121 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 441772006122 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 441772006123 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cd09748 441772006124 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 441772006125 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 441772006126 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 441772006127 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 441772006128 Protein of unknown function DUF91; Region: DUF91; cl00709 441772006129 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 441772006130 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 441772006131 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 441772006132 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 441772006133 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 441772006134 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772006135 DNA-binding site [nucleotide binding]; DNA binding site 441772006136 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 441772006137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772006138 homodimer interface [polypeptide binding]; other site 441772006139 catalytic residue [active] 441772006140 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772006141 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 441772006142 active site 441772006143 metal binding site [ion binding]; metal-binding site 441772006144 Staygreen protein; Region: Staygreen; pfam12638 441772006145 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; cl12031 441772006146 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 441772006147 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; cl12031 441772006148 Amino acid permease; Region: AA_permease_2; pfam13520 441772006149 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 441772006150 Catalytic domain of Protein Kinases; Region: PKc; cd00180 441772006151 active site 441772006152 ATP binding site [chemical binding]; other site 441772006153 substrate binding site [chemical binding]; other site 441772006154 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 441772006155 substrate binding site [chemical binding]; other site 441772006156 activation loop (A-loop); other site 441772006157 activation loop (A-loop); other site 441772006158 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772006159 Sodium:solute symporter family; Region: SSF; cl00456 441772006160 Uncharacterized membrane protein [Function unknown]; Region: COG3949 441772006161 Transcription initiation factor IIF, alpha subunit, N-terminal region of RAP74. Subunit of transcription initiation complex involved in initiation, elongation and promoter escape.Tetramer of 2 alpha and 2 beta TFIIF subunits interacts directly with RNA...; Region: TFIIFa; cl15395 441772006162 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 441772006163 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 441772006164 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772006165 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 441772006166 Ligand binding site [chemical binding]; other site 441772006167 Electron transfer flavoprotein domain; Region: ETF; pfam01012 441772006168 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 441772006169 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 441772006170 active site 441772006171 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 441772006172 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006173 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 441772006174 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006175 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 441772006176 CoA-transferase family III; Region: CoA_transf_3; pfam02515 441772006177 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772006178 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 441772006179 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006180 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 441772006181 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006182 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006183 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772006184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772006185 dimer interface [polypeptide binding]; other site 441772006186 putative CheW interface [polypeptide binding]; other site 441772006187 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 441772006188 dimer interface [polypeptide binding]; other site 441772006189 FMN binding site [chemical binding]; other site 441772006190 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 441772006191 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 441772006192 active site 441772006193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772006194 Coenzyme A binding pocket [chemical binding]; other site 441772006195 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]; Region: ELP3; COG1243 441772006196 FosX, a fosfomycin resistance protein, catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of configuration at C1; Region: FosX; cd08364 441772006197 dimer interface [polypeptide binding]; other site 441772006198 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772006199 active site 441772006200 Mn binding site [ion binding]; other site 441772006201 GntP family permease; Region: GntP_permease; pfam02447 441772006202 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 441772006203 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 441772006204 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 441772006205 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 441772006206 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 441772006207 Helix-turn-helix domains; Region: HTH; cl00088 441772006208 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 441772006209 CAAX protease self-immunity; Region: Abi; cl00558 441772006210 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772006211 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772006212 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 441772006213 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 441772006214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772006215 Helix-turn-helix domains; Region: HTH; cl00088 441772006216 WHG domain; Region: WHG; pfam13305 441772006217 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772006218 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 441772006219 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 441772006220 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 441772006221 putative NAD(P) binding site [chemical binding]; other site 441772006222 catalytic Zn binding site [ion binding]; other site 441772006223 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 441772006224 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 441772006225 ACS interaction site; other site 441772006226 CODH interaction site; other site 441772006227 cubane metal cluster (B-cluster) [ion binding]; other site 441772006228 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 441772006229 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 441772006230 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 441772006231 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772006232 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 441772006233 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 441772006234 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 441772006235 P loop nucleotide binding; other site 441772006236 Ferredoxin [Energy production and conversion]; Region: COG1146 441772006237 switch II; other site 441772006238 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 441772006239 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 441772006240 P loop nucleotide binding; other site 441772006241 switch II; other site 441772006242 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 441772006243 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 441772006244 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 441772006245 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 441772006246 ligand binding site [chemical binding]; other site 441772006247 flagellar motor protein MotA; Validated; Region: PRK08124 441772006248 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 441772006249 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772006250 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 441772006251 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772006252 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772006253 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 441772006254 OPT oligopeptide transporter protein; Region: OPT; cl14607 441772006255 oligopeptide transporters, OPT superfamily; Region: OPT_sfam; TIGR00728 441772006256 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 441772006257 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 441772006258 metal binding site [ion binding]; metal-binding site 441772006259 dimer interface [polypeptide binding]; other site 441772006260 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 441772006261 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 441772006262 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772006263 catalytic residue [active] 441772006264 Glycerate kinase family; Region: Gly_kinase; cl00841 441772006265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772006266 NAD(P) binding site [chemical binding]; other site 441772006267 active site 441772006268 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 441772006269 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 441772006270 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772006271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772006272 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772006273 Walker A/P-loop; other site 441772006274 ATP binding site [chemical binding]; other site 441772006275 Q-loop/lid; other site 441772006276 ABC transporter signature motif; other site 441772006277 Walker B; other site 441772006278 D-loop; other site 441772006279 H-loop/switch region; other site 441772006280 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772006281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772006282 Coenzyme A binding pocket [chemical binding]; other site 441772006283 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772006284 Helix-turn-helix domains; Region: HTH; cl00088 441772006285 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 441772006286 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 441772006287 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 441772006288 Predicted dehydrogenase [General function prediction only]; Region: COG0579 441772006289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772006290 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 441772006291 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 441772006292 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772006293 DNA binding residues [nucleotide binding] 441772006294 drug binding residues [chemical binding]; other site 441772006295 dimer interface [polypeptide binding]; other site 441772006296 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772006297 Amino acid permease; Region: AA_permease_2; pfam13520 441772006298 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 441772006299 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 441772006300 putative ADP-ribose binding site [chemical binding]; other site 441772006301 putative active site [active] 441772006302 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 441772006303 Helix-turn-helix domains; Region: HTH; cl00088 441772006304 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772006305 TIGR03987 family protein; Region: TIGR03987 441772006306 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 441772006307 substrate binding site [chemical binding]; other site 441772006308 multimerization interface [polypeptide binding]; other site 441772006309 ATP binding site [chemical binding]; other site 441772006310 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 441772006311 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 441772006312 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772006313 Coenzyme A binding pocket [chemical binding]; other site 441772006314 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772006315 Mor transcription activator family; Region: Mor; cl02360 441772006316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772006317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772006318 biotin synthase; Region: bioB; TIGR00433 441772006319 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 441772006320 FeS/SAM binding site; other site 441772006321 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 441772006322 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 441772006323 hypothetical protein; Provisional; Region: PRK09272 441772006324 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772006325 Helix-turn-helix domains; Region: HTH; cl00088 441772006326 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 441772006327 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772006328 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 441772006329 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772006330 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 441772006331 active site 441772006332 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 441772006333 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772006334 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 441772006335 YmaF family; Region: YmaF; pfam12788 441772006336 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 441772006337 active site 441772006338 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772006339 YmaF family; Region: YmaF; pfam12788 441772006340 hypothetical protein; Provisional; Region: PRK05802 441772006341 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 441772006342 FAD binding pocket [chemical binding]; other site 441772006343 FAD binding motif [chemical binding]; other site 441772006344 phosphate binding motif [ion binding]; other site 441772006345 beta-alpha-beta structure motif; other site 441772006346 NAD binding pocket [chemical binding]; other site 441772006347 Iron coordination center [ion binding]; other site 441772006348 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 441772006349 SelR domain; Region: SelR; pfam01641 441772006350 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 441772006351 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 441772006352 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 441772006353 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772006354 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772006355 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772006356 Walker A/P-loop; other site 441772006357 ATP binding site [chemical binding]; other site 441772006358 Q-loop/lid; other site 441772006359 ABC transporter signature motif; other site 441772006360 Walker B; other site 441772006361 D-loop; other site 441772006362 H-loop/switch region; other site 441772006363 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 441772006364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772006365 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772006366 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772006367 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772006368 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 441772006369 Walker A/P-loop; other site 441772006370 ATP binding site [chemical binding]; other site 441772006371 Q-loop/lid; other site 441772006372 ABC transporter signature motif; other site 441772006373 Walker B; other site 441772006374 D-loop; other site 441772006375 H-loop/switch region; other site 441772006376 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 441772006377 dimer interface [polypeptide binding]; other site 441772006378 phosphorylation site [posttranslational modification] 441772006379 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 441772006380 ATP binding site [chemical binding]; other site 441772006381 Mg2+ binding site [ion binding]; other site 441772006382 G-X-G motif; other site 441772006383 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772006384 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 441772006385 active site 441772006386 phosphorylation site [posttranslational modification] 441772006387 intermolecular recognition site; other site 441772006388 dimerization interface [polypeptide binding]; other site 441772006389 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 441772006390 DNA binding site [nucleotide binding] 441772006391 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 441772006392 active site 441772006393 substrate binding site [chemical binding]; other site 441772006394 catalytic site [active] 441772006395 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 441772006396 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772006397 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 441772006398 active site 441772006399 catalytic residues [active] 441772006400 metal binding site [ion binding]; metal-binding site 441772006401 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 441772006402 non-specific DNA binding site [nucleotide binding]; other site 441772006403 salt bridge; other site 441772006404 sequence-specific DNA binding site [nucleotide binding]; other site 441772006405 transglutaminase; Provisional; Region: tgl; PRK03187 441772006406 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772006407 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 441772006408 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 441772006409 tetrameric interface [polypeptide binding]; other site 441772006410 activator binding site; other site 441772006411 NADP binding site [chemical binding]; other site 441772006412 substrate binding site [chemical binding]; other site 441772006413 catalytic residues [active] 441772006414 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 441772006415 FAD binding pocket [chemical binding]; other site 441772006416 FAD binding motif [chemical binding]; other site 441772006417 phosphate binding motif [ion binding]; other site 441772006418 beta-alpha-beta structure motif; other site 441772006419 NAD binding pocket [chemical binding]; other site 441772006420 Heme binding pocket [chemical binding]; other site 441772006421 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 441772006422 active site 441772006423 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 441772006424 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772006425 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772006426 Spore germination protein; Region: Spore_permease; cl15802 441772006427 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 441772006428 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 441772006429 active site 441772006430 NTP binding site [chemical binding]; other site 441772006431 metal binding triad [ion binding]; metal-binding site 441772006432 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 441772006433 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772006434 Zn2+ binding site [ion binding]; other site 441772006435 Mg2+ binding site [ion binding]; other site 441772006436 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 441772006437 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 441772006438 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772006439 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772006440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772006441 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 441772006442 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 441772006443 dimer interface [polypeptide binding]; other site 441772006444 phosphorylation site [posttranslational modification] 441772006445 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 441772006446 ATP binding site [chemical binding]; other site 441772006447 Mg2+ binding site [ion binding]; other site 441772006448 G-X-G motif; other site 441772006449 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 441772006450 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 441772006451 active site 441772006452 phosphorylation site [posttranslational modification] 441772006453 intermolecular recognition site; other site 441772006454 dimerization interface [polypeptide binding]; other site 441772006455 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 441772006456 DNA binding site [nucleotide binding] 441772006457 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 441772006458 Transcription factor homologous to NACalpha-BTF3 [Transcription]; Region: EGD2; COG1308 441772006459 hypothetical protein; Provisional; Region: PRK06921 441772006460 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 441772006461 Walker A motif; other site 441772006462 ATP binding site [chemical binding]; other site 441772006463 Walker B motif; other site 441772006464 arginine finger; other site 441772006465 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 441772006466 non-specific DNA binding site [nucleotide binding]; other site 441772006467 salt bridge; other site 441772006468 sequence-specific DNA binding site [nucleotide binding]; other site 441772006469 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772006470 non-specific DNA binding site [nucleotide binding]; other site 441772006471 salt bridge; other site 441772006472 sequence-specific DNA binding site [nucleotide binding]; other site 441772006473 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 441772006474 NlpC/P60 family; Region: NLPC_P60; cl11438 441772006475 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 441772006476 non-specific DNA binding site [nucleotide binding]; other site 441772006477 salt bridge; other site 441772006478 sequence-specific DNA binding site [nucleotide binding]; other site 441772006479 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 441772006480 catalytic residues [active] 441772006481 catalytic nucleophile [active] 441772006482 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 441772006483 active site 441772006484 metal binding site [ion binding]; metal-binding site 441772006485 Bacterial SH3 domain; Region: SH3_3; cl02551 441772006486 Haemolysin XhlA; Region: XhlA; pfam10779 441772006487 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 441772006488 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 441772006489 Baseplate J-like protein; Region: Baseplate_J; cl01294 441772006490 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 441772006491 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 441772006492 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 441772006493 putative peptidoglycan binding site; other site 441772006494 Short C-terminal domain; Region: SHOCT; cl01373 441772006495 Phage XkdN-like protein; Region: XkdN; pfam08890 441772006496 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 441772006497 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 441772006498 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 441772006499 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 441772006500 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 441772006501 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 441772006502 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 441772006503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 441772006504 Terminase-like family; Region: Terminase_6; pfam03237 441772006505 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 441772006506 Terminase small subunit; Region: Terminase_2; cl01513 441772006507 DEAD-like helicases superfamily; Region: DEXDc; smart00487 441772006508 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 441772006509 ATP binding site [chemical binding]; other site 441772006510 putative Mg++ binding site [ion binding]; other site 441772006511 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 441772006512 nucleotide binding region [chemical binding]; other site 441772006513 ATP-binding site [chemical binding]; other site 441772006514 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 441772006515 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 441772006516 Virulence-associated protein E; Region: VirE; pfam05272 441772006517 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 441772006518 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; cl15754 441772006519 cofactor binding site; other site 441772006520 DNA binding site [nucleotide binding] 441772006521 substrate interaction site [chemical binding]; other site 441772006522 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; cl15754 441772006523 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 441772006524 active site 441772006525 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 441772006526 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 441772006527 active site 441772006528 DNA binding site [nucleotide binding] 441772006529 catalytic site [active] 441772006530 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 441772006531 Domain of unknown function (DUF3797); Region: DUF3797; pfam12677 441772006532 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 441772006533 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 441772006534 replication factor C large subunit; Provisional; Region: PRK04195 441772006535 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 441772006536 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 441772006537 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772006538 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 441772006539 DNA binding residues [nucleotide binding] 441772006540 ORF6N domain; Region: ORF6N; pfam10543 441772006541 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 441772006542 non-specific DNA binding site [nucleotide binding]; other site 441772006543 salt bridge; other site 441772006544 sequence-specific DNA binding site [nucleotide binding]; other site 441772006545 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772006546 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 441772006547 non-specific DNA binding site [nucleotide binding]; other site 441772006548 salt bridge; other site 441772006549 sequence-specific DNA binding site [nucleotide binding]; other site 441772006550 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 441772006551 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 441772006552 catalytic residues [active] 441772006553 catalytic nucleophile [active] 441772006554 Presynaptic Site I dimer interface [polypeptide binding]; other site 441772006555 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 441772006556 Synaptic Flat tetramer interface [polypeptide binding]; other site 441772006557 Synaptic Site I dimer interface [polypeptide binding]; other site 441772006558 DNA binding site [nucleotide binding] 441772006559 Recombinase; Region: Recombinase; pfam07508 441772006560 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 441772006561 Glucose inhibited division protein A; Region: GIDA; pfam01134 441772006562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772006563 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 441772006564 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 441772006565 tetramer interface [polypeptide binding]; other site 441772006566 active site 441772006567 Domain of unknown function (DUF378); Region: DUF378; cl00943 441772006568 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 441772006569 dimerization domain swap beta strand [polypeptide binding]; other site 441772006570 regulatory protein interface [polypeptide binding]; other site 441772006571 active site 441772006572 regulatory phosphorylation site [posttranslational modification]; other site 441772006573 aspartate aminotransferase; Provisional; Region: PRK05764 441772006574 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 441772006575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772006576 homodimer interface [polypeptide binding]; other site 441772006577 catalytic residue [active] 441772006578 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 441772006579 UbiA prenyltransferase family; Region: UbiA; cl00337 441772006580 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 441772006581 phosphodiesterase; Provisional; Region: PRK12704 441772006582 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 441772006583 recombinase A; Provisional; Region: recA; PRK09354 441772006584 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 441772006585 hexamer interface [polypeptide binding]; other site 441772006586 Walker A motif; other site 441772006587 ATP binding site [chemical binding]; other site 441772006588 Walker B motif; other site 441772006589 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 441772006590 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 441772006591 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 441772006592 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 441772006593 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 441772006594 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772006595 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 441772006596 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 441772006597 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 441772006598 active site 441772006599 aspartate kinase I; Reviewed; Region: PRK08210 441772006600 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 441772006601 nucleotide binding site [chemical binding]; other site 441772006602 substrate binding site [chemical binding]; other site 441772006603 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 441772006604 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 441772006605 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 441772006606 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 441772006607 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 441772006608 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 441772006609 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 441772006610 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 441772006611 RNase E interface [polypeptide binding]; other site 441772006612 trimer interface [polypeptide binding]; other site 441772006613 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 441772006614 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 441772006615 RNase E interface [polypeptide binding]; other site 441772006616 trimer interface [polypeptide binding]; other site 441772006617 active site 441772006618 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 441772006619 putative nucleic acid binding region [nucleotide binding]; other site 441772006620 G-X-X-G motif; other site 441772006621 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 441772006622 RNA binding site [nucleotide binding]; other site 441772006623 domain interface; other site 441772006624 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 441772006625 16S/18S rRNA binding site [nucleotide binding]; other site 441772006626 S13e-L30e interaction site [polypeptide binding]; other site 441772006627 25S rRNA binding site [nucleotide binding]; other site 441772006628 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 441772006629 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 441772006630 active site 441772006631 Riboflavin kinase; Region: Flavokinase; cl03312 441772006632 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 441772006633 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 441772006634 RNA binding site [nucleotide binding]; other site 441772006635 active site 441772006636 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 441772006637 DHH family; Region: DHH; pfam01368 441772006638 DHHA1 domain; Region: DHHA1; pfam02272 441772006639 Ribosome-binding factor A; Region: RBFA; cl00542 441772006640 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 441772006641 translation initiation factor IF-2; Region: IF-2; TIGR00487 441772006642 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 441772006643 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 441772006644 G1 box; other site 441772006645 putative GEF interaction site [polypeptide binding]; other site 441772006646 GTP/Mg2+ binding site [chemical binding]; other site 441772006647 Switch I region; other site 441772006648 G2 box; other site 441772006649 G3 box; other site 441772006650 Switch II region; other site 441772006651 G4 box; other site 441772006652 G5 box; other site 441772006653 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 441772006654 Translation-initiation factor 2; Region: IF-2; pfam11987 441772006655 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 441772006656 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 441772006657 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 441772006658 putative RNA binding cleft [nucleotide binding]; other site 441772006659 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 441772006660 NusA N-terminal domain; Region: NusA_N; pfam08529 441772006661 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 441772006662 RNA binding site [nucleotide binding]; other site 441772006663 homodimer interface [polypeptide binding]; other site 441772006664 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 441772006665 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 441772006666 G-X-X-G motif; other site 441772006667 ribosome maturation protein RimP; Reviewed; Region: PRK00092 441772006668 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 441772006669 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 441772006670 Sm1 motif; other site 441772006671 D3 - B interaction site; other site 441772006672 D1 - D2 interaction site; other site 441772006673 Hfq - Hfq interaction site; other site 441772006674 RNA binding pocket [nucleotide binding]; other site 441772006675 Sm2 motif; other site 441772006676 DNA polymerase III PolC; Validated; Region: polC; PRK00448 441772006677 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 441772006678 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 441772006679 generic binding surface II; other site 441772006680 generic binding surface I; other site 441772006681 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 441772006682 active site 441772006683 substrate binding site [chemical binding]; other site 441772006684 catalytic site [active] 441772006685 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 441772006686 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 441772006687 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 441772006688 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 441772006689 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 441772006690 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 441772006691 active site 441772006692 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 441772006693 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 441772006694 putative substrate binding region [chemical binding]; other site 441772006695 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 441772006696 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 441772006697 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 441772006698 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 441772006699 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 441772006700 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 441772006701 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 441772006702 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 441772006703 catalytic residue [active] 441772006704 putative FPP diphosphate binding site; other site 441772006705 putative FPP binding hydrophobic cleft; other site 441772006706 dimer interface [polypeptide binding]; other site 441772006707 putative IPP diphosphate binding site; other site 441772006708 ribosome recycling factor; Reviewed; Region: frr; PRK00083 441772006709 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 round of...; Region: RRF; cd00520 441772006710 hinge region; other site 441772006711 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 441772006712 putative nucleotide binding site [chemical binding]; other site 441772006713 uridine monophosphate binding site [chemical binding]; other site 441772006714 homohexameric interface [polypeptide binding]; other site 441772006715 elongation factor Ts; Provisional; Region: tsf; PRK09377 441772006716 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 441772006717 Elongation factor TS; Region: EF_TS; pfam00889 441772006718 Elongation factor TS; Region: EF_TS; pfam00889 441772006719 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 441772006720 rRNA interaction site [nucleotide binding]; other site 441772006721 S8 interaction site; other site 441772006722 putative laminin-1 binding site; other site 441772006723 transcriptional repressor CodY; Validated; Region: PRK04158 441772006724 CodY GAF-like domain; Region: CodY; pfam06018 441772006725 Helix-turn-helix domains; Region: HTH; cl00088 441772006726 DNA topoisomerase I; Validated; Region: PRK05582 441772006727 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 441772006728 active site 441772006729 interdomain interaction site; other site 441772006730 putative metal-binding site [ion binding]; other site 441772006731 nucleotide binding site [chemical binding]; other site 441772006732 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 441772006733 domain I; other site 441772006734 DNA binding groove [nucleotide binding] 441772006735 phosphate binding site [ion binding]; other site 441772006736 domain II; other site 441772006737 domain III; other site 441772006738 nucleotide binding site [chemical binding]; other site 441772006739 catalytic site [active] 441772006740 domain IV; other site 441772006741 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 441772006742 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 441772006743 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 441772006744 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 441772006745 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 441772006746 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 441772006747 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 441772006748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772006749 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 441772006750 Restriction endonuclease; Region: Mrr_cat; cl00516 441772006751 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 441772006752 RNA/DNA hybrid binding site [nucleotide binding]; other site 441772006753 active site 441772006754 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 441772006755 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 441772006756 GTP/Mg2+ binding site [chemical binding]; other site 441772006757 G4 box; other site 441772006758 G5 box; other site 441772006759 G1 box; other site 441772006760 Switch I region; other site 441772006761 G2 box; other site 441772006762 G3 box; other site 441772006763 Switch II region; other site 441772006764 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 441772006765 Catalytic site [active] 441772006766 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 441772006767 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 441772006768 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 441772006769 RimM N-terminal domain; Region: RimM; pfam01782 441772006770 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 441772006771 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 441772006772 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 441772006773 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 441772006774 signal recognition particle protein; Provisional; Region: PRK10867 441772006775 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 441772006776 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 441772006777 P loop; other site 441772006778 GTP binding site [chemical binding]; other site 441772006779 Signal peptide binding domain; Region: SRP_SPB; pfam02978 441772006780 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772006781 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 441772006782 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 441772006783 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 441772006784 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 441772006785 P loop; other site 441772006786 GTP binding site [chemical binding]; other site 441772006787 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 441772006788 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 441772006789 Walker A/P-loop; other site 441772006790 ATP binding site [chemical binding]; other site 441772006791 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 441772006792 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 441772006793 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 441772006794 Q-loop/lid; other site 441772006795 ABC transporter signature motif; other site 441772006796 Walker B; other site 441772006797 D-loop; other site 441772006798 H-loop/switch region; other site 441772006799 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 441772006800 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 441772006801 FeS/SAM binding site; other site 441772006802 ribonuclease III; Reviewed; Region: rnc; PRK00102 441772006803 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 441772006804 dimerization interface [polypeptide binding]; other site 441772006805 active site 441772006806 metal binding site [ion binding]; metal-binding site 441772006807 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 441772006808 dsRNA binding site [nucleotide binding]; other site 441772006809 Phosphopantetheine attachment site; Region: PP-binding; cl09936 441772006810 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 441772006811 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 441772006812 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 441772006813 Acetokinase family; Region: Acetate_kinase; cl01029 441772006814 propionate/acetate kinase; Provisional; Region: PRK12379 441772006815 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 441772006816 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 441772006817 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 441772006818 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 441772006819 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772006820 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 441772006821 Cache domain; Region: Cache_1; pfam02743 441772006822 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 441772006823 dimerization interface [polypeptide binding]; other site 441772006824 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772006825 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772006826 dimer interface [polypeptide binding]; other site 441772006827 putative CheW interface [polypeptide binding]; other site 441772006828 Uncharacterized conserved protein [Function unknown]; Region: COG1915 441772006829 TIGR00300 family protein; Region: TIGR00300 441772006830 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 441772006831 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 441772006832 proline racemase; Provisional; Region: PRK13969 441772006833 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 441772006834 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772006835 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 441772006836 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772006837 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 441772006838 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 441772006839 SLBB domain; Region: SLBB; pfam10531 441772006840 Predicted permease; Region: DUF318; pfam03773 441772006841 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 441772006842 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 441772006843 FOG: CBS domain [General function prediction only]; Region: COG0517 441772006844 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 441772006845 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 441772006846 PAS fold; Region: PAS_4; pfam08448 441772006847 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 441772006848 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 441772006849 Walker A motif; other site 441772006850 ATP binding site [chemical binding]; other site 441772006851 Walker B motif; other site 441772006852 arginine finger; other site 441772006853 Helix-turn-helix domains; Region: HTH; cl00088 441772006854 hypothetical protein; Provisional; Region: PRK13670 441772006855 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 441772006856 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 441772006857 Nucleoside recognition; Region: Gate; cl00486 441772006858 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 441772006859 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 441772006860 active site 441772006861 (T/H)XGH motif; other site 441772006862 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 441772006863 S-adenosylmethionine binding site [chemical binding]; other site 441772006864 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 441772006865 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 441772006866 ssDNA binding site; other site 441772006867 generic binding surface II; other site 441772006868 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 441772006869 ATP binding site [chemical binding]; other site 441772006870 putative Mg++ binding site [ion binding]; other site 441772006871 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 441772006872 nucleotide binding region [chemical binding]; other site 441772006873 ATP-binding site [chemical binding]; other site 441772006874 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 441772006875 DAK2 domain; Region: Dak2; cl03685 441772006876 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 441772006877 Asp23 family; Region: Asp23; cl00574 441772006878 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 441772006879 Thiamine pyrophosphokinase; Region: TPK; cd07995 441772006880 active site 441772006881 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 441772006882 dimerization interface [polypeptide binding]; other site 441772006883 thiamine binding site [chemical binding]; other site 441772006884 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 441772006885 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 441772006886 substrate binding site [chemical binding]; other site 441772006887 hexamer interface [polypeptide binding]; other site 441772006888 metal binding site [ion binding]; metal-binding site 441772006889 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 441772006890 GTPase RsgA; Reviewed; Region: PRK00098 441772006891 RNA binding site [nucleotide binding]; other site 441772006892 homodimer interface [polypeptide binding]; other site 441772006893 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 441772006894 GTPase/Zn-binding domain interface [polypeptide binding]; other site 441772006895 GTP/Mg2+ binding site [chemical binding]; other site 441772006896 G4 box; other site 441772006897 G5 box; other site 441772006898 G1 box; other site 441772006899 Switch I region; other site 441772006900 G2 box; other site 441772006901 G3 box; other site 441772006902 Switch II region; other site 441772006903 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 441772006904 Catalytic domain of Protein Kinases; Region: PKc; cd00180 441772006905 active site 441772006906 ATP binding site [chemical binding]; other site 441772006907 substrate binding site [chemical binding]; other site 441772006908 activation loop (A-loop); other site 441772006909 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; cl02768 441772006910 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 441772006911 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 441772006912 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 441772006913 active site 441772006914 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 441772006915 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 441772006916 FeS/SAM binding site; other site 441772006917 16S rRNA methyltransferase B; Provisional; Region: PRK14902 441772006918 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 441772006919 putative RNA binding site [nucleotide binding]; other site 441772006920 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; cl15754 441772006921 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 441772006922 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 441772006923 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 441772006924 putative active site [active] 441772006925 substrate binding site [chemical binding]; other site 441772006926 putative cosubstrate binding site; other site 441772006927 catalytic site [active] 441772006928 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 441772006929 substrate binding site [chemical binding]; other site 441772006930 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 441772006931 active site 441772006932 catalytic residues [active] 441772006933 metal binding site [ion binding]; metal-binding site 441772006934 primosome assembly protein PriA; Validated; Region: PRK05580 441772006935 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 441772006936 ATP binding site [chemical binding]; other site 441772006937 putative Mg++ binding site [ion binding]; other site 441772006938 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 441772006939 nucleotide binding region [chemical binding]; other site 441772006940 ATP-binding site [chemical binding]; other site 441772006941 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 441772006942 Flavoprotein; Region: Flavoprotein; cl08021 441772006943 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 441772006944 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 441772006945 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 441772006946 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 441772006947 catalytic site [active] 441772006948 G-X2-G-X-G-K; other site 441772006949 Domain of unknown function (DUF370); Region: DUF370; cl00898 441772006950 hypothetical protein; Provisional; Region: PRK11820 441772006951 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 441772006952 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 441772006953 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 441772006954 active site 441772006955 homotetramer interface [polypeptide binding]; other site 441772006956 homodimer interface [polypeptide binding]; other site 441772006957 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 441772006958 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 441772006959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772006960 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 441772006961 GTP-binding protein Der; Reviewed; Region: PRK00093 441772006962 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 441772006963 G1 box; other site 441772006964 GTP/Mg2+ binding site [chemical binding]; other site 441772006965 Switch I region; other site 441772006966 G2 box; other site 441772006967 Switch II region; other site 441772006968 G3 box; other site 441772006969 G4 box; other site 441772006970 G5 box; other site 441772006971 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 441772006972 G1 box; other site 441772006973 GTP/Mg2+ binding site [chemical binding]; other site 441772006974 Switch I region; other site 441772006975 G2 box; other site 441772006976 G3 box; other site 441772006977 Switch II region; other site 441772006978 G4 box; other site 441772006979 G5 box; other site 441772006980 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 441772006981 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 441772006982 Protein of unknown function (DUF512); Region: DUF512; pfam04459 441772006983 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 441772006984 PhoU domain; Region: PhoU; pfam01895 441772006985 PhoU domain; Region: PhoU; pfam01895 441772006986 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 441772006987 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 441772006988 Walker A/P-loop; other site 441772006989 ATP binding site [chemical binding]; other site 441772006990 Q-loop/lid; other site 441772006991 ABC transporter signature motif; other site 441772006992 Walker B; other site 441772006993 D-loop; other site 441772006994 H-loop/switch region; other site 441772006995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772006996 dimer interface [polypeptide binding]; other site 441772006997 conserved gate region; other site 441772006998 putative PBP binding loops; other site 441772006999 ABC-ATPase subunit interface; other site 441772007000 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 441772007001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772007002 dimer interface [polypeptide binding]; other site 441772007003 conserved gate region; other site 441772007004 putative PBP binding loops; other site 441772007005 ABC-ATPase subunit interface; other site 441772007006 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 441772007007 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 441772007008 dimerization interface [polypeptide binding]; other site 441772007009 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 441772007010 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 441772007011 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 441772007012 dimer interface [polypeptide binding]; other site 441772007013 phosphorylation site [posttranslational modification] 441772007014 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 441772007015 ATP binding site [chemical binding]; other site 441772007016 Mg2+ binding site [ion binding]; other site 441772007017 G-X-G motif; other site 441772007018 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772007019 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 441772007020 active site 441772007021 phosphorylation site [posttranslational modification] 441772007022 intermolecular recognition site; other site 441772007023 dimerization interface [polypeptide binding]; other site 441772007024 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 441772007025 DNA binding site [nucleotide binding] 441772007026 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 441772007027 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 441772007028 ATP cone domain; Region: ATP-cone; pfam03477 441772007029 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 441772007030 sporulation sigma factor SigG; Reviewed; Region: PRK08215 441772007031 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772007032 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 441772007033 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 441772007034 DNA binding residues [nucleotide binding] 441772007035 sporulation sigma factor SigE; Reviewed; Region: PRK08301 441772007036 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772007037 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 441772007038 DNA binding residues [nucleotide binding] 441772007039 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 441772007040 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 441772007041 cell division protein FtsZ; Validated; Region: PRK09330 441772007042 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 441772007043 nucleotide binding site [chemical binding]; other site 441772007044 SulA interaction site; other site 441772007045 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 441772007046 Cell division protein FtsA; Region: FtsA; cl11496 441772007047 Cell division protein FtsA; Region: FtsA; cl11496 441772007048 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 441772007049 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 441772007050 DXD motif; other site 441772007051 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 441772007052 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 441772007053 Walker A motif; other site 441772007054 ATP binding site [chemical binding]; other site 441772007055 Walker B motif; other site 441772007056 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 441772007057 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 441772007058 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 441772007059 shikimate binding site; other site 441772007060 NAD(P) binding site [chemical binding]; other site 441772007061 sporulation sigma factor SigK; Reviewed; Region: PRK05803 441772007062 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772007063 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772007064 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 441772007065 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 441772007066 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 441772007067 RecT family; Region: RecT; cl04285 441772007068 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 441772007069 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 441772007070 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772007071 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 441772007072 Sugar specificity; other site 441772007073 Pyrimidine base specificity; other site 441772007074 ATP-binding site [chemical binding]; other site 441772007075 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 441772007076 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 441772007077 Peptidase family U32; Region: Peptidase_U32; cl03113 441772007078 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 441772007079 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 441772007080 S-adenosylmethionine binding site [chemical binding]; other site 441772007081 YceG-like family; Region: YceG; pfam02618 441772007082 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 441772007083 dimerization interface [polypeptide binding]; other site 441772007084 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 441772007085 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 441772007086 G1 box; other site 441772007087 putative GEF interaction site [polypeptide binding]; other site 441772007088 GTP/Mg2+ binding site [chemical binding]; other site 441772007089 Switch I region; other site 441772007090 G2 box; other site 441772007091 G3 box; other site 441772007092 Switch II region; other site 441772007093 G4 box; other site 441772007094 G5 box; other site 441772007095 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 441772007096 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 441772007097 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 441772007098 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772007099 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 441772007100 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772007101 metal binding site 2 [ion binding]; metal-binding site 441772007102 putative DNA binding helix; other site 441772007103 metal binding site 1 [ion binding]; metal-binding site 441772007104 dimer interface [polypeptide binding]; other site 441772007105 structural Zn2+ binding site [ion binding]; other site 441772007106 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 441772007107 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 includes...; Region: RuvC_resolvase; cl00243 441772007108 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 441772007109 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 441772007110 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 formation of...; Region: AlaRS_core; cd00673 441772007111 motif 1; other site 441772007112 active site 441772007113 motif 2; other site 441772007114 motif 3; other site 441772007115 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 441772007116 Domain of unknown function DUF20; Region: UPF0118; pfam01594 441772007117 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 441772007118 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 441772007119 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 441772007120 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 441772007121 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 441772007122 trimerization site [polypeptide binding]; other site 441772007123 active site 441772007124 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 441772007125 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 441772007126 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772007127 catalytic residue [active] 441772007128 Helix-turn-helix domains; Region: HTH; cl00088 441772007129 Rrf2 family protein; Region: rrf2_super; TIGR00738 441772007130 recombination factor protein RarA; Reviewed; Region: PRK13342 441772007131 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 441772007132 Walker A motif; other site 441772007133 ATP binding site [chemical binding]; other site 441772007134 Walker B motif; other site 441772007135 arginine finger; other site 441772007136 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 441772007137 histidinol-phosphatase; Provisional; Region: PRK05588 441772007138 Membrane transport protein; Region: Mem_trans; cl09117 441772007139 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 441772007140 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 441772007141 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 441772007142 CPxP motif; other site 441772007143 DsrE/DsrF-like family; Region: DrsE; cl00672 441772007144 ornithine cyclodeaminase; Validated; Region: PRK08618 441772007145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007146 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772007147 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772007148 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772007149 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772007150 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 441772007151 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 441772007152 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 441772007153 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 441772007154 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 441772007155 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 441772007156 dimerization interface [polypeptide binding]; other site 441772007157 ATP binding site [chemical binding]; other site 441772007158 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 441772007159 dimerization interface [polypeptide binding]; other site 441772007160 ATP binding site [chemical binding]; other site 441772007161 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 441772007162 putative active site [active] 441772007163 catalytic triad [active] 441772007164 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772007165 MatE; Region: MatE; cl10513 441772007166 MatE; Region: MatE; cl10513 441772007167 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 441772007168 phosphoenolpyruvate synthase; Validated; Region: PRK06241 441772007169 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 441772007170 Phosphopantetheine attachment site; Region: PP-binding; cl09936 441772007171 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 441772007172 AMP-binding enzyme; Region: AMP-binding; cl15778 441772007173 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 441772007174 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 441772007175 dimer interface [polypeptide binding]; other site 441772007176 active site 441772007177 CoA binding pocket [chemical binding]; other site 441772007178 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 441772007179 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 441772007180 AMP-binding enzyme; Region: AMP-binding; cl15778 441772007181 Phosphopantetheine attachment site; Region: PP-binding; cl09936 441772007182 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772007183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772007184 Coenzyme A binding pocket [chemical binding]; other site 441772007185 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 441772007186 Ligand Binding Site [chemical binding]; other site 441772007187 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 attaches...; Region: class_II_aaRS-like_core; cl00268 441772007188 motif 1; other site 441772007189 dimer interface [polypeptide binding]; other site 441772007190 active site 441772007191 motif 2; other site 441772007192 motif 3; other site 441772007193 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 441772007194 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 441772007195 ornithine carbamoyltransferase; Provisional; Region: PRK04284 441772007196 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 441772007197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007198 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 441772007199 carbamate kinase; Reviewed; Region: PRK12686 441772007200 putative substrate binding site [chemical binding]; other site 441772007201 nucleotide binding site [chemical binding]; other site 441772007202 nucleotide binding site [chemical binding]; other site 441772007203 homodimer interface [polypeptide binding]; other site 441772007204 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 441772007205 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 441772007206 dimer interface [polypeptide binding]; other site 441772007207 glycine-pyridoxal phosphate binding site [chemical binding]; other site 441772007208 active site 441772007209 folate binding site [chemical binding]; other site 441772007210 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 441772007211 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 441772007212 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 441772007213 putative homotetramer interface [polypeptide binding]; other site 441772007214 putative homodimer interface [polypeptide binding]; other site 441772007215 putative allosteric switch controlling residues; other site 441772007216 putative metal binding site [ion binding]; other site 441772007217 putative homodimer-homodimer interface [polypeptide binding]; other site 441772007218 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 441772007219 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 441772007220 active site 441772007221 motif I; other site 441772007222 motif II; other site 441772007223 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772007224 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 441772007225 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 441772007226 active site 441772007227 nucleotide binding site [chemical binding]; other site 441772007228 HIGH motif; other site 441772007229 KMSKS motif; other site 441772007230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007231 NAD(P) binding site [chemical binding]; other site 441772007232 LDH/MDH dimer interface [polypeptide binding]; other site 441772007233 substrate binding site [chemical binding]; other site 441772007234 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772007235 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 441772007236 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 441772007237 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 441772007238 oligomer interface [polypeptide binding]; other site 441772007239 putative active site [active] 441772007240 metal binding site [ion binding]; metal-binding site 441772007241 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 441772007242 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 441772007243 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 441772007244 HPr kinase/phosphorylase; Provisional; Region: PRK05428 441772007245 DRTGG domain; Region: DRTGG; cl12147 441772007246 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 441772007247 Hpr binding site; other site 441772007248 active site 441772007249 homohexamer subunit interaction site [polypeptide binding]; other site 441772007250 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 441772007251 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 441772007252 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 441772007253 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 441772007254 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 441772007255 Cysteine-rich domain; Region: CCG; pfam02754 441772007256 Cysteine-rich domain; Region: CCG; pfam02754 441772007257 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 441772007258 Phosphotransferase enzyme family; Region: APH; pfam01636 441772007259 active site 441772007260 ATP binding site [chemical binding]; other site 441772007261 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 441772007262 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 441772007263 Probable Catalytic site; other site 441772007264 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 441772007265 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 441772007266 active site residue [active] 441772007267 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 441772007268 active site residue [active] 441772007269 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 441772007270 putative active site [active] 441772007271 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 441772007272 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 441772007273 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772007274 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772007275 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 441772007276 active site 441772007277 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 441772007278 active site 441772007279 catalytic residues [active] 441772007280 metal binding site [ion binding]; metal-binding site 441772007281 ATP synthase subunit D; Region: ATP-synt_D; cl00613 441772007282 V-type ATP synthase subunit B; Provisional; Region: PRK04196 441772007283 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 441772007284 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 441772007285 Walker A motif homologous position; other site 441772007286 Walker B motif; other site 441772007287 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 441772007288 V-type ATP synthase subunit A; Provisional; Region: PRK04192 441772007289 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 441772007290 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 441772007291 Walker A motif/ATP binding site; other site 441772007292 Walker B motif; other site 441772007293 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 441772007294 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 441772007295 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 441772007296 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 441772007297 Plant ATP synthase F0; Region: YMF19; cl07975 441772007298 V-type ATP synthase subunit K; Validated; Region: PRK06558 441772007299 ATP synthase subunit C; Region: ATP-synt_C; cl00466 441772007300 ATP synthase subunit C; Region: ATP-synt_C; cl00466 441772007301 V-type ATP synthase subunit I; Validated; Region: PRK05771 441772007302 V-type ATP synthase subunit H; Validated; Region: PRK08404 441772007303 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 441772007304 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 441772007305 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 441772007306 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 441772007307 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 441772007308 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 441772007309 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772007310 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772007311 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772007312 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772007313 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772007314 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 441772007315 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 441772007316 DRTGG domain; Region: DRTGG; cl12147 441772007317 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 441772007318 DHH family; Region: DHH; pfam01368 441772007319 DHHA2 domain; Region: DHHA2; pfam02833 441772007320 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 441772007321 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 441772007322 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 441772007323 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 441772007324 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 441772007325 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 441772007326 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 441772007327 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772007328 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 441772007329 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 441772007330 DNA binding residues [nucleotide binding] 441772007331 Flagellar protein YcgR; Region: YcgR_2; pfam12945 441772007332 PilZ domain; Region: PilZ; cl01260 441772007333 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 441772007334 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 441772007335 P-loop; other site 441772007336 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 441772007337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772007338 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 441772007339 FHIPEP family; Region: FHIPEP; pfam00771 441772007340 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 441772007341 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 441772007342 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 441772007343 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 441772007344 FliP family; Region: FliP; cl00593 441772007345 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 441772007346 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 441772007347 flagellar motor protein MotS; Reviewed; Region: PRK06925 441772007348 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 441772007349 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 441772007350 ligand binding site [chemical binding]; other site 441772007351 flagellar motor protein MotP; Reviewed; Region: PRK06926 441772007352 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 441772007353 Flagellar protein (FlbD); Region: FlbD; cl00683 441772007354 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 441772007355 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 441772007356 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 441772007357 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 441772007358 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 441772007359 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 441772007360 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 441772007361 Flagellar FliJ protein; Region: FliJ; pfam02050 441772007362 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 441772007363 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 441772007364 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 441772007365 Walker A motif/ATP binding site; other site 441772007366 Walker B motif; other site 441772007367 Flagellar assembly protein FliH; Region: FliH; pfam02108 441772007368 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 441772007369 FliG C-terminal domain; Region: FliG_C; pfam01706 441772007370 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 441772007371 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 441772007372 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 441772007373 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 441772007374 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 441772007375 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 441772007376 flagellin; Provisional; Region: PRK12804 441772007377 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772007378 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772007379 argininosuccinate lyase; Provisional; Region: PRK00855 441772007380 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 441772007381 active sites [active] 441772007382 tetramer interface [polypeptide binding]; other site 441772007383 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 441772007384 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 441772007385 ANP binding site [chemical binding]; other site 441772007386 Substrate Binding Site II [chemical binding]; other site 441772007387 Substrate Binding Site I [chemical binding]; other site 441772007388 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 441772007389 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 441772007390 putative active site [active] 441772007391 catalytic site [active] 441772007392 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 441772007393 putative active site [active] 441772007394 catalytic site [active] 441772007395 Predicted membrane protein [Function unknown]; Region: COG4129 441772007396 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 441772007397 VanZ like family; Region: VanZ; cl01971 441772007398 MatE; Region: MatE; cl10513 441772007399 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 441772007400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007401 NAD(P) binding site [chemical binding]; other site 441772007402 active site 441772007403 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 441772007404 NeuB family; Region: NeuB; cl00496 441772007405 SAF domain; Region: SAF; cl00555 441772007406 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 441772007407 ligand binding site; other site 441772007408 tetramer interface; other site 441772007409 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 441772007410 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 441772007411 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 441772007412 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 441772007413 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 441772007414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007415 UDP-galactopyranose mutase; Region: GLF; pfam03275 441772007416 Bacterial sugar transferase; Region: Bac_transf; cl00939 441772007417 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 441772007418 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772007419 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 441772007420 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 441772007421 Chain length determinant protein; Region: Wzz; cl15801 441772007422 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 441772007423 Putative motility protein; Region: YjfB_motility; pfam14070 441772007424 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772007425 dimer interface [polypeptide binding]; other site 441772007426 putative CheW interface [polypeptide binding]; other site 441772007427 flagellin; Provisional; Region: PRK12804 441772007428 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772007429 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772007430 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 441772007431 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 441772007432 inhibitor-cofactor binding pocket; inhibition site 441772007433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772007434 catalytic residue [active] 441772007435 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 441772007436 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 441772007437 NAD binding site [chemical binding]; other site 441772007438 substrate binding site [chemical binding]; other site 441772007439 active site 441772007440 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 441772007441 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 441772007442 putative trimer interface [polypeptide binding]; other site 441772007443 putative CoA binding site [chemical binding]; other site 441772007444 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 441772007445 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 441772007446 ligand binding site; other site 441772007447 tetramer interface; other site 441772007448 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772007449 ATP-grasp domain; Region: ATP-grasp_4; cl03087 441772007450 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 441772007451 NeuB family; Region: NeuB; cl00496 441772007452 SAF domain; Region: SAF; cl00555 441772007453 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 441772007454 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 441772007455 S-adenosylmethionine binding site [chemical binding]; other site 441772007456 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 441772007457 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 441772007458 active site 441772007459 homodimer interface [polypeptide binding]; other site 441772007460 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 441772007461 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 441772007462 Substrate binding site; other site 441772007463 metal-binding site 441772007464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 441772007465 flagellin; Provisional; Region: PRK12804 441772007466 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772007467 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772007468 Flagellar protein FliT; Region: FliT; cl05125 441772007469 flagellar capping protein; Validated; Region: fliD; PRK07737 441772007470 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 441772007471 flagellar capping protein; Validated; Region: fliD; PRK06798 441772007472 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 441772007473 Flagellar protein FliS; Region: FliS; cl00654 441772007474 FlaG protein; Region: FlaG; cl00591 441772007475 Global regulator protein family; Region: CsrA; cl00670 441772007476 FliW protein; Region: FliW; cl00740 441772007477 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 441772007478 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772007479 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772007480 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 441772007481 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 441772007482 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 441772007483 FlgN protein; Region: FlgN; cl09176 441772007484 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 441772007485 flagellar motor switch protein; Validated; Region: PRK08119 441772007486 Chemotaxis phosphatase CheX; Region: CheX; cl15816 441772007487 Chemotaxis phosphatase CheX; Region: CheX; cl15816 441772007488 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 441772007489 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 441772007490 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 441772007491 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 441772007492 Response regulator receiver domain; Region: Response_reg; pfam00072 441772007493 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 441772007494 active site 441772007495 phosphorylation site [posttranslational modification] 441772007496 intermolecular recognition site; other site 441772007497 dimerization interface [polypeptide binding]; other site 441772007498 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 441772007499 Chemotaxis phosphatase CheX; Region: CheX; cl15816 441772007500 Chemotaxis phosphatase CheX; Region: CheX; cl15816 441772007501 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 441772007502 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 441772007503 putative binding surface; other site 441772007504 active site 441772007505 P2 response regulator binding domain; Region: P2; pfam07194 441772007506 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 441772007507 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 441772007508 ATP binding site [chemical binding]; other site 441772007509 Mg2+ binding site [ion binding]; other site 441772007510 G-X-G motif; other site 441772007511 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 441772007512 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 441772007513 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 441772007514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007515 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 441772007516 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 441772007517 active site 441772007518 phosphorylation site [posttranslational modification] 441772007519 intermolecular recognition site; other site 441772007520 dimerization interface [polypeptide binding]; other site 441772007521 CheB methylesterase; Region: CheB_methylest; pfam01339 441772007522 CheD chemotactic sensory transduction; Region: CheD; cl00810 441772007523 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 441772007524 Protein of unknown function (DUF342); Region: DUF342; pfam03961 441772007525 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772007526 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 441772007527 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 441772007528 active site turn [active] 441772007529 phosphorylation site [posttranslational modification] 441772007530 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 441772007531 HPr interaction site; other site 441772007532 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772007533 active site 441772007534 phosphorylation site [posttranslational modification] 441772007535 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772007536 CAT RNA binding domain; Region: CAT_RBD; cl03904 441772007537 PRD domain; Region: PRD; cl15445 441772007538 PRD domain; Region: PRD; cl15445 441772007539 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 441772007540 homodimer interface [polypeptide binding]; other site 441772007541 substrate-cofactor binding pocket; other site 441772007542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772007543 catalytic residue [active] 441772007544 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 441772007545 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 441772007546 motif II; other site 441772007547 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 441772007548 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 441772007549 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 441772007550 dimer interface [polypeptide binding]; other site 441772007551 PYR/PP interface [polypeptide binding]; other site 441772007552 TPP binding site [chemical binding]; other site 441772007553 substrate binding site [chemical binding]; other site 441772007554 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 441772007555 Domain of unknown function; Region: EKR; cl11037 441772007556 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 441772007557 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 441772007558 TPP-binding site [chemical binding]; other site 441772007559 dimer interface [polypeptide binding]; other site 441772007560 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 441772007561 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 441772007562 active site 441772007563 homodimer interface [polypeptide binding]; other site 441772007564 PAS fold; Region: PAS_7; pfam12860 441772007565 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 441772007566 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 441772007567 dimer interface [polypeptide binding]; other site 441772007568 phosphorylation site [posttranslational modification] 441772007569 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 441772007570 ATP binding site [chemical binding]; other site 441772007571 Mg2+ binding site [ion binding]; other site 441772007572 G-X-G motif; other site 441772007573 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 441772007574 DHH family; Region: DHH; pfam01368 441772007575 DHHA1 domain; Region: DHHA1; pfam02272 441772007576 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 441772007577 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 441772007578 AP (apurinic/apyrimidinic) site pocket; other site 441772007579 DNA interaction; other site 441772007580 Metal-binding active site; metal-binding site 441772007581 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 441772007582 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 441772007583 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 441772007584 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 441772007585 GtrA-like protein; Region: GtrA; cl00971 441772007586 DJ-1 family protein; Region: not_thiJ; TIGR01383 441772007587 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 441772007588 conserved cys residue [active] 441772007589 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 441772007590 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 441772007591 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 in DNA...; Region: TOP4c; cd00187 441772007592 CAP-like domain; other site 441772007593 active site 441772007594 primary dimer interface [polypeptide binding]; other site 441772007595 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772007596 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772007597 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 441772007598 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 441772007599 ATP binding site [chemical binding]; other site 441772007600 Mg2+ binding site [ion binding]; other site 441772007601 G-X-G motif; other site 441772007602 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 441772007603 anchoring element; other site 441772007604 dimer interface [polypeptide binding]; other site 441772007605 ATP binding site [chemical binding]; other site 441772007606 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 441772007607 active site 441772007608 metal binding site [ion binding]; metal-binding site 441772007609 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 441772007610 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 441772007611 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 441772007612 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 441772007613 NodB motif; other site 441772007614 active site 441772007615 catalytic site [active] 441772007616 Zn binding site [ion binding]; other site 441772007617 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 441772007618 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 441772007619 NAD binding site [chemical binding]; other site 441772007620 homodimer interface [polypeptide binding]; other site 441772007621 active site 441772007622 substrate binding site [chemical binding]; other site 441772007623 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772007624 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772007625 MatE; Region: MatE; cl10513 441772007626 MatE; Region: MatE; cl10513 441772007627 Cupin domain; Region: Cupin_2; cl09118 441772007628 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 441772007629 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772007630 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 441772007631 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 441772007632 putative dimer interface [polypeptide binding]; other site 441772007633 catalytic triad [active] 441772007634 glycerol kinase; Provisional; Region: glpK; PRK00047 441772007635 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 441772007636 N- and C-terminal domain interface [polypeptide binding]; other site 441772007637 active site 441772007638 MgATP binding site [chemical binding]; other site 441772007639 catalytic site [active] 441772007640 metal binding site [ion binding]; metal-binding site 441772007641 glycerol binding site [chemical binding]; other site 441772007642 homotetramer interface [polypeptide binding]; other site 441772007643 homodimer interface [polypeptide binding]; other site 441772007644 FBP binding site [chemical binding]; other site 441772007645 protein IIAGlc interface [polypeptide binding]; other site 441772007646 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 441772007647 amphipathic channel; other site 441772007648 Asn-Pro-Ala signature motifs; other site 441772007649 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 441772007650 VanZ like family; Region: VanZ; cl01971 441772007651 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772007652 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 441772007653 Walker A/P-loop; other site 441772007654 ATP binding site [chemical binding]; other site 441772007655 Q-loop/lid; other site 441772007656 ABC transporter signature motif; other site 441772007657 Walker B; other site 441772007658 D-loop; other site 441772007659 H-loop/switch region; other site 441772007660 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772007661 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772007662 DNA-binding site [nucleotide binding]; DNA binding site 441772007663 VanZ like family; Region: VanZ; cl01971 441772007664 hybrid cluster protein; Provisional; Region: PRK05290 441772007665 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 441772007666 ACS interaction site; other site 441772007667 CODH interaction site; other site 441772007668 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 441772007669 hybrid metal cluster; other site 441772007670 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 441772007671 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 441772007672 Spore germination protein; Region: Spore_permease; cl15802 441772007673 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772007674 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 441772007675 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 441772007676 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 441772007677 active site 441772007678 multimer interface [polypeptide binding]; other site 441772007679 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 441772007680 NodB motif; other site 441772007681 active site 441772007682 catalytic site [active] 441772007683 Zn binding site [ion binding]; other site 441772007684 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 441772007685 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 441772007686 ATP binding site [chemical binding]; other site 441772007687 Mg++ binding site [ion binding]; other site 441772007688 motif III; other site 441772007689 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 441772007690 nucleotide binding region [chemical binding]; other site 441772007691 ATP-binding site [chemical binding]; other site 441772007692 DbpA RNA binding domain; Region: DbpA; pfam03880 441772007693 Probable zinc-binding domain; Region: zf-trcl; pfam13451 441772007694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772007695 dimer interface [polypeptide binding]; other site 441772007696 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 441772007697 putative CheW interface [polypeptide binding]; other site 441772007698 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 441772007699 Ligand Binding Site [chemical binding]; other site 441772007700 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 441772007701 4Fe-4S binding domain; Region: Fer4_5; pfam12801 441772007702 4Fe-4S binding domain; Region: Fer4; cl02805 441772007703 Glutaminase; Region: Glutaminase; cl00907 441772007704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 441772007705 3D domain; Region: 3D; cl01439 441772007706 Cache domain; Region: Cache_1; pfam02743 441772007707 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 441772007708 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772007709 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772007710 dimer interface [polypeptide binding]; other site 441772007711 putative CheW interface [polypeptide binding]; other site 441772007712 TraX protein; Region: TraX; cl05434 441772007713 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 441772007714 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 441772007715 dimer interface [polypeptide binding]; other site 441772007716 putative radical transfer pathway; other site 441772007717 diiron center [ion binding]; other site 441772007718 tyrosyl radical; other site 441772007719 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 441772007720 ATP cone domain; Region: ATP-cone; pfam03477 441772007721 Class I ribonucleotide reductase; Region: RNR_I; cd01679 441772007722 active site 441772007723 dimer interface [polypeptide binding]; other site 441772007724 catalytic residues [active] 441772007725 effector binding site; other site 441772007726 R2 peptide binding site; other site 441772007727 NlpC/P60 family; Region: NLPC_P60; cl11438 441772007728 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 441772007729 DNA polymerase IV; Provisional; Region: PRK14133 441772007730 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 441772007731 active site 441772007732 DNA binding site [nucleotide binding] 441772007733 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 441772007734 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 441772007735 homodimer interface [polypeptide binding]; other site 441772007736 active site 441772007737 FMN binding site [chemical binding]; other site 441772007738 substrate binding site [chemical binding]; other site 441772007739 4Fe-4S binding domain; Region: Fer4; cl02805 441772007740 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 441772007741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007742 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772007743 active site 441772007744 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 441772007745 putative active site [active] 441772007746 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772007747 Helix-turn-helix domains; Region: HTH; cl00088 441772007748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772007749 Walker A/P-loop; other site 441772007750 ATP binding site [chemical binding]; other site 441772007751 Q-loop/lid; other site 441772007752 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 441772007753 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772007754 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 441772007755 Walker A/P-loop; other site 441772007756 ATP binding site [chemical binding]; other site 441772007757 Q-loop/lid; other site 441772007758 ABC transporter signature motif; other site 441772007759 Walker B; other site 441772007760 D-loop; other site 441772007761 H-loop/switch region; other site 441772007762 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 441772007763 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 441772007764 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 441772007765 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 441772007766 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 441772007767 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 441772007768 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772007769 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 441772007770 dimerization interface [polypeptide binding]; other site 441772007771 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772007772 dimer interface [polypeptide binding]; other site 441772007773 putative CheW interface [polypeptide binding]; other site 441772007774 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_17; cd04676 441772007775 nudix motif; other site 441772007776 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772007777 metal binding site 2 [ion binding]; metal-binding site 441772007778 putative DNA binding helix; other site 441772007779 metal binding site 1 [ion binding]; metal-binding site 441772007780 dimer interface [polypeptide binding]; other site 441772007781 structural Zn2+ binding site [ion binding]; other site 441772007782 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 441772007783 Glyco_18 domain; Region: Glyco_18; smart00636 441772007784 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 441772007785 active site 441772007786 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 441772007787 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 441772007788 active site 441772007789 trimer interface [polypeptide binding]; other site 441772007790 allosteric site; other site 441772007791 active site lid [active] 441772007792 hexamer (dimer of trimers) interface [polypeptide binding]; other site 441772007793 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 441772007794 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 441772007795 active site 441772007796 dimer interface [polypeptide binding]; other site 441772007797 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 441772007798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772007799 DNA-binding site [nucleotide binding]; DNA binding site 441772007800 UTRA domain; Region: UTRA; cl01230 441772007801 PQQ-like domain; Region: PQQ_2; pfam13360 441772007802 PQQ-like domain; Region: PQQ_2; pfam13360 441772007803 CAT RNA binding domain; Region: CAT_RBD; cl03904 441772007804 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772007805 PRD domain; Region: PRD; cl15445 441772007806 PRD domain; Region: PRD; cl15445 441772007807 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 441772007808 HPr interaction site; other site 441772007809 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772007810 active site 441772007811 phosphorylation site [posttranslational modification] 441772007812 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772007813 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 441772007814 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 441772007815 active site turn [active] 441772007816 phosphorylation site [posttranslational modification] 441772007817 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 441772007818 MatE; Region: MatE; cl10513 441772007819 MatE; Region: MatE; cl10513 441772007820 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772007821 MatE; Region: MatE; cl10513 441772007822 MatE; Region: MatE; cl10513 441772007823 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 441772007824 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772007825 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772007826 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 441772007827 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 441772007828 FAD binding site [chemical binding]; other site 441772007829 homotetramer interface [polypeptide binding]; other site 441772007830 substrate binding pocket [chemical binding]; other site 441772007831 catalytic base [active] 441772007832 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772007833 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 441772007834 Rubredoxin; Region: Rubredoxin; pfam00301 441772007835 iron binding site [ion binding]; other site 441772007836 HTH-like domain; Region: HTH_21; pfam13276 441772007837 Integrase core domain; Region: rve; cl01316 441772007838 Integrase core domain; Region: rve_3; cl15866 441772007839 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 441772007840 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 441772007841 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 441772007842 Ligand binding site; other site 441772007843 metal-binding site 441772007844 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 441772007845 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; cl00159 441772007846 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 441772007847 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 441772007848 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 441772007849 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 441772007850 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 441772007851 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 441772007852 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 441772007853 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 441772007854 active site turn [active] 441772007855 phosphorylation site [posttranslational modification] 441772007856 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772007857 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 441772007858 HPr interaction site; other site 441772007859 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772007860 active site 441772007861 phosphorylation site [posttranslational modification] 441772007862 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 441772007863 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772007864 CAT RNA binding domain; Region: CAT_RBD; cl03904 441772007865 PRD domain; Region: PRD; cl15445 441772007866 PRD domain; Region: PRD; cl15445 441772007867 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 441772007868 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 441772007869 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 441772007870 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 441772007871 motif II; other site 441772007872 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 441772007873 amidase catalytic site [active] 441772007874 Zn binding residues [ion binding]; other site 441772007875 substrate binding site [chemical binding]; other site 441772007876 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 441772007877 chloramphenicol/florfenicol resistance protein; Provisional; Region: PRK14453 441772007878 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 441772007879 FeS/SAM binding site; other site 441772007880 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772007881 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772007882 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772007883 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 441772007884 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 441772007885 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 441772007886 TRAM domain; Region: TRAM; cl01282 441772007887 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 441772007888 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 441772007889 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 441772007890 S-adenosylmethionine binding site [chemical binding]; other site 441772007891 Sulfatase; Region: Sulfatase; cl10460 441772007892 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 441772007893 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 441772007894 homopentamer interface [polypeptide binding]; other site 441772007895 active site 441772007896 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 441772007897 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 441772007898 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 441772007899 dimerization interface [polypeptide binding]; other site 441772007900 active site 441772007901 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 441772007902 Lumazine binding domain; Region: Lum_binding; pfam00677 441772007903 Lumazine binding domain; Region: Lum_binding; pfam00677 441772007904 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 441772007905 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 441772007906 catalytic motif [active] 441772007907 Zn binding site [ion binding]; other site 441772007908 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; cl00161 441772007909 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 441772007910 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 441772007911 metal binding site [ion binding]; metal-binding site 441772007912 dimer interface [polypeptide binding]; other site 441772007913 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772007914 magnesium-transporting ATPase; Provisional; Region: PRK15122 441772007915 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 441772007916 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772007917 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772007918 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772007919 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772007920 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 441772007921 active site 441772007922 Spore germination protein; Region: Spore_permease; cl15802 441772007923 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772007924 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 441772007925 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 441772007926 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 441772007927 ATP-grasp domain; Region: ATP-grasp_4; cl03087 441772007928 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 441772007929 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 441772007930 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 441772007931 purine monophosphate binding site [chemical binding]; other site 441772007932 dimer interface [polypeptide binding]; other site 441772007933 putative catalytic residues [active] 441772007934 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 441772007935 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 441772007936 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 441772007937 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 441772007938 active site 441772007939 substrate binding site [chemical binding]; other site 441772007940 cosubstrate binding site; other site 441772007941 catalytic site [active] 441772007942 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 441772007943 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 441772007944 dimerization interface [polypeptide binding]; other site 441772007945 putative ATP binding site [chemical binding]; other site 441772007946 amidophosphoribosyltransferase; Provisional; Region: PRK05793 441772007947 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 441772007948 active site 441772007949 tetramer interface [polypeptide binding]; other site 441772007950 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772007951 active site 441772007952 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 441772007953 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 441772007954 ATP binding site [chemical binding]; other site 441772007955 active site 441772007956 substrate binding site [chemical binding]; other site 441772007957 AIR carboxylase; Region: AIRC; cl00310 441772007958 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 441772007959 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; cl00159 441772007960 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 441772007961 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 441772007962 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 441772007963 putative selenium metabolism hydrolase; Region: selenium_YgeY; TIGR03526 441772007964 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 441772007965 putative metal binding site [ion binding]; other site 441772007966 putative dimer interface [polypeptide binding]; other site 441772007967 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 441772007968 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 441772007969 active site 441772007970 putative substrate binding pocket [chemical binding]; other site 441772007971 putative selenate reductase, YgfK subunit; Region: Se_ygfK; TIGR03315 441772007972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007973 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 441772007974 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 441772007975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007976 phenylhydantoinase; Validated; Region: PRK08323 441772007977 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 441772007978 tetramer interface [polypeptide binding]; other site 441772007979 active site 441772007980 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 441772007981 xanthine permease; Region: pbuX; TIGR03173 441772007982 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 441772007983 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 441772007984 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772007985 catalytic residue [active] 441772007986 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772007987 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 441772007988 Walker A motif; other site 441772007989 ATP binding site [chemical binding]; other site 441772007990 Walker B motif; other site 441772007991 arginine finger; other site 441772007992 Helix-turn-helix domains; Region: HTH; cl00088 441772007993 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 441772007994 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 441772007995 Ligand binding site; other site 441772007996 metal-binding site 441772007997 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 441772007998 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 441772007999 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 441772008000 XdhC Rossmann domain; Region: XdhC_C; pfam13478 441772008001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772008002 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 441772008003 ABC-ATPase subunit interface; other site 441772008004 dimer interface [polypeptide binding]; other site 441772008005 putative PBP binding regions; other site 441772008006 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772008007 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772008008 Walker A/P-loop; other site 441772008009 ATP binding site [chemical binding]; other site 441772008010 Q-loop/lid; other site 441772008011 ABC transporter signature motif; other site 441772008012 Walker B; other site 441772008013 D-loop; other site 441772008014 H-loop/switch region; other site 441772008015 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772008016 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 441772008017 putative ligand binding residues [chemical binding]; other site 441772008018 ALIX V-shaped domain binding to HIV; Region: ALIX_LYPXL_bnd; pfam13949 441772008019 Members of the SGNH-hydrolase superfamily, 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_like_4; cd04501 441772008020 active site 441772008021 catalytic triad [active] 441772008022 oxyanion hole [active] 441772008023 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 441772008024 putative active site [active] 441772008025 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 441772008026 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772008027 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772008028 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 441772008029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772008030 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 441772008031 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 441772008032 tetramer interface [polypeptide binding]; other site 441772008033 catalytic Zn binding site [ion binding]; other site 441772008034 NADP binding site [chemical binding]; other site 441772008035 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 441772008036 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 441772008037 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 441772008038 Walker A motif; other site 441772008039 ATP binding site [chemical binding]; other site 441772008040 Walker B motif; other site 441772008041 arginine finger; other site 441772008042 Helix-turn-helix domains; Region: HTH; cl00088 441772008043 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 441772008044 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 441772008045 Ligand Binding Site [chemical binding]; other site 441772008046 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 441772008047 Arginine degradation protein (predicted deacylase) [Amino acid transport and metabolism]; Region: RocB; COG4187 441772008048 putative metal binding site [ion binding]; other site 441772008049 putative dimer interface [polypeptide binding]; other site 441772008050 GAF domain; Region: GAF; cl15785 441772008051 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 441772008052 Domain of unknown function DUF21; Region: DUF21; pfam01595 441772008053 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 441772008054 Transporter associated domain; Region: CorC_HlyC; cl08393 441772008055 Domain of unknown function DUF77; Region: DUF77; cl00307 441772008056 ThiC family; Region: ThiC; cl08031 441772008057 amidophosphoribosyltransferase; Provisional; Region: PRK05793 441772008058 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 441772008059 active site 441772008060 tetramer interface [polypeptide binding]; other site 441772008061 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772008062 active site 441772008063 Protein of unknown function (DUF503); Region: DUF503; cl00669 441772008064 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 441772008065 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 441772008066 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772008067 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 441772008068 Walker A/P-loop; other site 441772008069 ATP binding site [chemical binding]; other site 441772008070 Q-loop/lid; other site 441772008071 ABC transporter signature motif; other site 441772008072 Walker B; other site 441772008073 D-loop; other site 441772008074 H-loop/switch region; other site 441772008075 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772008076 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772008077 DNA-binding site [nucleotide binding]; DNA binding site 441772008078 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 441772008079 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 441772008080 4Fe-4S binding domain; Region: Fer4; cl02805 441772008081 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 441772008082 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 441772008083 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772008084 ligand binding site [chemical binding]; other site 441772008085 flexible hinge region; other site 441772008086 Helix-turn-helix domains; Region: HTH; cl00088 441772008087 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 441772008088 Cupin domain; Region: Cupin_2; cl09118 441772008089 Predicted membrane protein [Function unknown]; Region: COG1511 441772008090 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 441772008091 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772008092 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 441772008093 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 441772008094 active site 441772008095 catalytic site [active] 441772008096 metal binding site [ion binding]; metal-binding site 441772008097 dimer interface [polypeptide binding]; other site 441772008098 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 441772008099 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772008100 catalytic residue [active] 441772008101 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 441772008102 Domain of unknown function DUF21; Region: DUF21; pfam01595 441772008103 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 441772008104 Transporter associated domain; Region: CorC_HlyC; cl08393 441772008105 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 441772008106 Putative zinc ribbon domain; Region: DUF164; pfam02591 441772008107 Uncharacterized conserved protein [Function unknown]; Region: COG0327 441772008108 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 441772008109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008110 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 441772008111 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 441772008112 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 441772008113 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 441772008114 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772008115 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 441772008116 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 441772008117 DNA binding residues [nucleotide binding] 441772008118 DNA primase, catalytic core; Region: dnaG; TIGR01391 441772008119 CHC2 zinc finger; Region: zf-CHC2; cl15369 441772008120 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 441772008121 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 441772008122 active site 441772008123 metal binding site [ion binding]; metal-binding site 441772008124 interdomain interaction site; other site 441772008125 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 441772008126 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 441772008127 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772008128 Zn2+ binding site [ion binding]; other site 441772008129 Mg2+ binding site [ion binding]; other site 441772008130 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 441772008131 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772008132 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 441772008133 substrate binding site [chemical binding]; other site 441772008134 pyruvate phosphate dikinase; Provisional; Region: PRK09279 441772008135 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 441772008136 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 441772008137 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; cl09155 441772008138 Helix-turn-helix domains; Region: HTH; cl00088 441772008139 FOG: CBS domain [General function prediction only]; Region: COG0517 441772008140 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 441772008141 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 441772008142 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 441772008143 GTPase Era; Reviewed; Region: era; PRK00089 441772008144 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 441772008145 G1 box; other site 441772008146 GTP/Mg2+ binding site [chemical binding]; other site 441772008147 Switch I region; other site 441772008148 G2 box; other site 441772008149 Switch II region; other site 441772008150 G3 box; other site 441772008151 G4 box; other site 441772008152 G5 box; other site 441772008153 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 441772008154 active site 441772008155 catalytic motif [active] 441772008156 Zn binding site [ion binding]; other site 441772008157 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 441772008158 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 441772008159 active site 441772008160 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 441772008161 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 441772008162 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 441772008163 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772008164 Zn2+ binding site [ion binding]; other site 441772008165 Mg2+ binding site [ion binding]; other site 441772008166 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 441772008167 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 441772008168 YabP family; Region: YabP; cl06766 441772008169 GatB domain; Region: GatB_Yqey; cl11497 441772008170 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 441772008171 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 441772008172 nucleotide binding site/active site [active] 441772008173 HIT family signature motif; other site 441772008174 catalytic residue [active] 441772008175 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 441772008176 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 441772008177 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 441772008178 FeS/SAM binding site; other site 441772008179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 441772008180 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 441772008181 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 441772008182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008183 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 441772008184 S-adenosylmethionine binding site [chemical binding]; other site 441772008185 chaperone protein DnaJ; Provisional; Region: PRK14297 441772008186 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 441772008187 HSP70 interaction site [polypeptide binding]; other site 441772008188 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 441772008189 substrate binding site [polypeptide binding]; other site 441772008190 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 441772008191 Zn binding sites [ion binding]; other site 441772008192 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 441772008193 dimer interface [polypeptide binding]; other site 441772008194 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 441772008195 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 441772008196 dimer interface [polypeptide binding]; other site 441772008197 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 441772008198 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 441772008199 Helix-turn-helix domains; Region: HTH; cl00088 441772008200 DNA-binding site [nucleotide binding]; DNA binding site 441772008201 HrcA protein C terminal domain; Region: HrcA; pfam01628 441772008202 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 441772008203 HemN C-terminal domain; Region: HemN_C; pfam06969 441772008204 GTP-binding protein LepA; Provisional; Region: PRK05433 441772008205 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 441772008206 G1 box; other site 441772008207 putative GEF interaction site [polypeptide binding]; other site 441772008208 GTP/Mg2+ binding site [chemical binding]; other site 441772008209 Switch I region; other site 441772008210 G2 box; other site 441772008211 G3 box; other site 441772008212 Switch II region; other site 441772008213 G4 box; other site 441772008214 G5 box; other site 441772008215 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 441772008216 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 441772008217 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 441772008218 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 441772008219 stage II sporulation protein P; Region: spore_II_P; TIGR02867 441772008220 Germination protease; Region: Peptidase_A25; cl04057 441772008221 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 441772008222 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 441772008223 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 441772008224 Competence protein; Region: Competence; cl00471 441772008225 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 441772008226 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 441772008227 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772008228 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772008229 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 441772008230 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 441772008231 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 441772008232 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 441772008233 G1 box; other site 441772008234 putative GEF interaction site [polypeptide binding]; other site 441772008235 GTP/Mg2+ binding site [chemical binding]; other site 441772008236 Switch I region; other site 441772008237 G2 box; other site 441772008238 G3 box; other site 441772008239 Switch II region; other site 441772008240 G4 box; other site 441772008241 G5 box; other site 441772008242 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 441772008243 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 441772008244 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 441772008245 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 441772008246 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 441772008247 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 441772008248 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 441772008249 SLBB domain; Region: SLBB; pfam10531 441772008250 comEA protein; Region: comE; TIGR01259 441772008251 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 441772008252 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 441772008253 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772008254 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 441772008255 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 441772008256 RNA binding surface [nucleotide binding]; other site 441772008257 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 441772008258 active site 441772008259 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 441772008260 homotrimer interaction site [polypeptide binding]; other site 441772008261 putative active site [active] 441772008262 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 441772008263 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 441772008264 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 441772008265 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 441772008266 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 441772008267 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 441772008268 active site 441772008269 (T/H)XGH motif; other site 441772008270 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 441772008271 GTPase CgtA; Reviewed; Region: obgE; PRK12297 441772008272 GTP1/OBG; Region: GTP1_OBG; pfam01018 441772008273 Obg GTPase; Region: Obg; cd01898 441772008274 G1 box; other site 441772008275 GTP/Mg2+ binding site [chemical binding]; other site 441772008276 Switch I region; other site 441772008277 G2 box; other site 441772008278 G3 box; other site 441772008279 Switch II region; other site 441772008280 G4 box; other site 441772008281 G5 box; other site 441772008282 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 441772008283 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 441772008284 Protein of unknown function (DUF464); Region: DUF464; cl01080 441772008285 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 441772008286 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 441772008287 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 441772008288 homodimer interface [polypeptide binding]; other site 441772008289 oligonucleotide binding site [chemical binding]; other site 441772008290 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 441772008291 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 441772008292 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 441772008293 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 441772008294 FeS/SAM binding site; other site 441772008295 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 441772008296 active site 441772008297 putative substrate binding region [chemical binding]; other site 441772008298 Peptidase family M23; Region: Peptidase_M23; pfam01551 441772008299 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 441772008300 Septum formation topological specificity factor MinE; Region: MinE; cl00538 441772008301 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 441772008302 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 441772008303 Switch I; other site 441772008304 Switch II; other site 441772008305 septum formation inhibitor; Reviewed; Region: minC; PRK00513 441772008306 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 441772008307 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 441772008308 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 441772008309 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 441772008310 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772008311 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772008312 rod shape-determining protein MreD; Region: MreD; cl01087 441772008313 rod shape-determining protein MreC; Provisional; Region: PRK13922 441772008314 rod shape-determining protein MreC; Region: MreC; pfam04085 441772008315 rod shape-determining protein MreB; Provisional; Region: PRK13927 441772008316 Cell division protein FtsA; Region: FtsA; cl11496 441772008317 hypothetical protein; Reviewed; Region: PRK00024 441772008318 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 441772008319 helix-hairpin-helix signature motif; other site 441772008320 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 441772008321 MPN+ (JAMM) motif; other site 441772008322 Zinc-binding site [ion binding]; other site 441772008323 Maf-like protein; Region: Maf; pfam02545 441772008324 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 441772008325 active site 441772008326 dimer interface [polypeptide binding]; other site 441772008327 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 441772008328 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 441772008329 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 441772008330 hypothetical protein; Provisional; Region: PRK04435 441772008331 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 441772008332 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 catalyze...; Region: LT_GEWL; cd00254 441772008333 N-acetyl-D-glucosamine binding site [chemical binding]; other site 441772008334 catalytic residue [active] 441772008335 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 441772008336 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 441772008337 CoA-binding site [chemical binding]; other site 441772008338 ATP-binding [chemical binding]; other site 441772008339 DNA polymerase I; Provisional; Region: PRK05755 441772008340 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 441772008341 active site 441772008342 metal binding site 1 [ion binding]; metal-binding site 441772008343 putative 5' ssDNA interaction site; other site 441772008344 metal binding site 3; metal-binding site 441772008345 metal binding site 2 [ion binding]; metal-binding site 441772008346 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 441772008347 putative DNA binding site [nucleotide binding]; other site 441772008348 putative metal binding site [ion binding]; other site 441772008349 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 441772008350 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 441772008351 active site 441772008352 DNA binding site [nucleotide binding] 441772008353 catalytic site [active] 441772008354 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 441772008355 Tetramer interface [polypeptide binding]; other site 441772008356 active site 441772008357 FMN-binding site [chemical binding]; other site 441772008358 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 441772008359 active site 441772008360 metal binding site [ion binding]; metal-binding site 441772008361 Bacterial SH3 domain; Region: SH3_3; cl02551 441772008362 Haemolysin XhlA; Region: XhlA; pfam10779 441772008363 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 441772008364 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 441772008365 DivIVA protein; Region: DivIVA; pfam05103 441772008366 hypothetical protein; Validated; Region: PRK08116 441772008367 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 441772008368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772008369 Walker A motif; other site 441772008370 ATP binding site [chemical binding]; other site 441772008371 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 441772008372 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 441772008373 non-specific DNA binding site [nucleotide binding]; other site 441772008374 salt bridge; other site 441772008375 sequence-specific DNA binding site [nucleotide binding]; other site 441772008376 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 441772008377 non-specific DNA binding site [nucleotide binding]; other site 441772008378 salt bridge; other site 441772008379 sequence-specific DNA binding site [nucleotide binding]; other site 441772008380 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 441772008381 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772008382 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 441772008383 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 441772008384 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 441772008385 dimer interface [polypeptide binding]; other site 441772008386 anticodon binding site; other site 441772008387 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 the...; Region: AspRS_core; cd00777 441772008388 homodimer interface [polypeptide binding]; other site 441772008389 motif 1; other site 441772008390 active site 441772008391 motif 2; other site 441772008392 GAD domain; Region: GAD; pfam02938 441772008393 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 the...; Region: AspRS_core; cd00777 441772008394 motif 3; other site 441772008395 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 441772008396 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 ATP-dependent...; Region: HisRS-like_core; cd00773 441772008397 dimer interface [polypeptide binding]; other site 441772008398 motif 1; other site 441772008399 active site 441772008400 motif 2; other site 441772008401 motif 3; other site 441772008402 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 441772008403 anticodon binding site; other site 441772008404 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 441772008405 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 441772008406 FeS/SAM binding site; other site 441772008407 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772008408 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 441772008409 putative active site [active] 441772008410 dimerization interface [polypeptide binding]; other site 441772008411 putative tRNAtyr binding site [nucleotide binding]; other site 441772008412 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 441772008413 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 441772008414 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 441772008415 synthetase active site [active] 441772008416 NTP binding site [chemical binding]; other site 441772008417 metal binding site [ion binding]; metal-binding site 441772008418 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 441772008419 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 441772008420 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 441772008421 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772008422 active site 441772008423 DHH family; Region: DHH; pfam01368 441772008424 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 441772008425 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 441772008426 Protein export membrane protein; Region: SecD_SecF; cl14618 441772008427 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 441772008428 Protein export membrane protein; Region: SecD_SecF; cl14618 441772008429 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 441772008430 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 441772008431 FeS/SAM binding site; other site 441772008432 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 441772008433 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 441772008434 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 441772008435 Preprotein translocase subunit; Region: YajC; cl00806 441772008436 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 441772008437 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 441772008438 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 441772008439 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 441772008440 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 441772008441 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 441772008442 Walker A motif; other site 441772008443 ATP binding site [chemical binding]; other site 441772008444 Walker B motif; other site 441772008445 arginine finger; other site 441772008446 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 441772008447 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 441772008448 RuvA N terminal domain; Region: RuvA_N; pfam01330 441772008449 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 441772008450 Transcriptional regulator; Region: Transcrip_reg; cl00361 441772008451 Uncharacterized conserved protein [Function unknown]; Region: COG1739 441772008452 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 441772008453 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 441772008454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 441772008455 HEAT repeats; Region: HEAT_2; pfam13646 441772008456 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 441772008457 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772008458 DNA-binding site [nucleotide binding]; DNA binding site 441772008459 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 441772008460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772008461 homodimer interface [polypeptide binding]; other site 441772008462 catalytic residue [active] 441772008463 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 441772008464 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 441772008465 Rubredoxin; Region: Rubredoxin; pfam00301 441772008466 iron binding site [ion binding]; other site 441772008467 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 441772008468 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 441772008469 HflX GTPase family; Region: HflX; cd01878 441772008470 G1 box; other site 441772008471 GTP/Mg2+ binding site [chemical binding]; other site 441772008472 Switch I region; other site 441772008473 G2 box; other site 441772008474 G3 box; other site 441772008475 Switch II region; other site 441772008476 G4 box; other site 441772008477 G5 box; other site 441772008478 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772008479 active site 441772008480 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 441772008481 Transglycosylase; Region: Transgly; cl07896 441772008482 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 441772008483 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772008484 SpoVA protein; Region: SpoVA; cl04298 441772008485 stage V sporulation protein AD; Validated; Region: PRK08304 441772008486 stage V sporulation protein AD; Provisional; Region: PRK12404 441772008487 SpoVA protein; Region: SpoVA; cl04298 441772008488 sporulation sigma factor SigF; Validated; Region: PRK05572 441772008489 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772008490 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 441772008491 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 441772008492 DNA binding residues [nucleotide binding] 441772008493 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; cl00075 441772008494 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 441772008495 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 441772008496 anti sigma factor interaction site; other site 441772008497 regulatory phosphorylation site [posttranslational modification]; other site 441772008498 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 441772008499 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 441772008500 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 441772008501 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 441772008502 NodB motif; other site 441772008503 active site 441772008504 catalytic site [active] 441772008505 Cd binding site [ion binding]; other site 441772008506 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 441772008507 Bacterial sugar transferase; Region: Bac_transf; cl00939 441772008508 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 441772008509 MatE; Region: MatE; cl10513 441772008510 integral membrane protein MviN; Region: mviN; TIGR01695 441772008511 MatE; Region: MatE; cl10513 441772008512 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 441772008513 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 441772008514 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 441772008515 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 441772008516 O-Antigen ligase; Region: Wzy_C; cl04850 441772008517 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 441772008518 putative glycosyl transferase; Provisional; Region: PRK10307 441772008519 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 441772008520 active site 441772008521 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 441772008522 homodimer interface [polypeptide binding]; other site 441772008523 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 441772008524 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 441772008525 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 441772008526 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008527 Leucine-rich repeats; other site 441772008528 Substrate binding site [chemical binding]; other site 441772008529 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008530 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008531 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008532 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008533 MatE; Region: MatE; cl10513 441772008534 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 441772008535 putative trimer interface [polypeptide binding]; other site 441772008536 putative CoA binding site [chemical binding]; other site 441772008537 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 441772008538 putative trimer interface [polypeptide binding]; other site 441772008539 putative active site [active] 441772008540 putative substrate binding site [chemical binding]; other site 441772008541 putative CoA binding site [chemical binding]; other site 441772008542 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 441772008543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008544 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 441772008545 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 441772008546 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 441772008547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008548 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 441772008549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008550 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 441772008551 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 441772008552 NAD(P) binding site [chemical binding]; other site 441772008553 homodimer interface [polypeptide binding]; other site 441772008554 substrate binding site [chemical binding]; other site 441772008555 active site 441772008556 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 441772008557 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 441772008558 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772008559 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772008560 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772008561 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772008562 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 441772008563 active site 441772008564 metal binding site [ion binding]; metal-binding site 441772008565 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 441772008566 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 441772008567 active site 441772008568 metal binding site [ion binding]; metal-binding site 441772008569 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 441772008570 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 441772008571 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 441772008572 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 441772008573 active site 441772008574 tetramer interface; other site 441772008575 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772008576 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 441772008577 binding surface 441772008578 TPR motif; other site 441772008579 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 441772008580 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 441772008581 active site 441772008582 substrate binding site [chemical binding]; other site 441772008583 metal binding site [ion binding]; metal-binding site 441772008584 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 441772008585 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 441772008586 5S rRNA interface [nucleotide binding]; other site 441772008587 CTC domain interface [polypeptide binding]; other site 441772008588 L16 interface [polypeptide binding]; other site 441772008589 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 441772008590 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 441772008591 homodimer interface [polypeptide binding]; other site 441772008592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772008593 catalytic residue [active] 441772008594 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 441772008595 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 441772008596 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 441772008597 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 441772008598 active site 441772008599 substrate binding site [chemical binding]; other site 441772008600 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 441772008601 FMN binding site [chemical binding]; other site 441772008602 putative catalytic residues [active] 441772008603 Protein of unknown function (DUF523); Region: DUF523; cl00733 441772008604 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 441772008605 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 441772008606 Walker A/P-loop; other site 441772008607 ATP binding site [chemical binding]; other site 441772008608 Q-loop/lid; other site 441772008609 ABC transporter signature motif; other site 441772008610 Walker B; other site 441772008611 D-loop; other site 441772008612 H-loop/switch region; other site 441772008613 Smr domain; Region: Smr; cl02619 441772008614 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 441772008615 Peptidase family U32; Region: Peptidase_U32; cl03113 441772008616 Collagenase; Region: DUF3656; pfam12392 441772008617 Peptidase family U32; Region: Peptidase_U32; cl03113 441772008618 phosphodiesterase; Provisional; Region: PRK12704 441772008619 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 441772008620 putative metal binding site; other site 441772008621 Cell division protein ZapA; Region: ZapA; cl01146 441772008622 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 441772008623 B-cell receptor-associated protein 31-like; Region: Bap31; cl02219 441772008624 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 441772008625 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 441772008626 putative tRNA-binding site [nucleotide binding]; other site 441772008627 B3/4 domain; Region: B3_4; cl11458 441772008628 tRNA synthetase B5 domain; Region: B5; cl08394 441772008629 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 441772008630 dimer interface [polypeptide binding]; other site 441772008631 motif 1; other site 441772008632 motif 3; other site 441772008633 motif 2; other site 441772008634 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 441772008635 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 441772008636 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 441772008637 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 441772008638 dimer interface [polypeptide binding]; other site 441772008639 motif 1; other site 441772008640 active site 441772008641 motif 2; other site 441772008642 motif 3; other site 441772008643 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 441772008644 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 441772008645 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 441772008646 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 441772008647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008648 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 441772008649 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 441772008650 Cation transport protein; Region: TrkH; cl10514 441772008651 ribosomal protein L20; Region: rpl20; CHL00068 441772008652 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 441772008653 23S rRNA binding site [nucleotide binding]; other site 441772008654 L21 binding site [polypeptide binding]; other site 441772008655 L13 binding site [polypeptide binding]; other site 441772008656 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 441772008657 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 441772008658 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 441772008659 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 441772008660 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 441772008661 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 441772008662 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 441772008663 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 441772008664 active site 441772008665 dimer interface [polypeptide binding]; other site 441772008666 motif 1; other site 441772008667 motif 2; other site 441772008668 motif 3; other site 441772008669 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 441772008670 anticodon binding site; other site 441772008671 YtxC-like family; Region: YtxC; cl08500 441772008672 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 441772008673 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 441772008674 Walker A/P-loop; other site 441772008675 ATP binding site [chemical binding]; other site 441772008676 Q-loop/lid; other site 441772008677 ABC transporter signature motif; other site 441772008678 Walker B; other site 441772008679 D-loop; other site 441772008680 H-loop/switch region; other site 441772008681 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 441772008682 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 441772008683 dimerization interface [polypeptide binding]; other site 441772008684 domain crossover interface; other site 441772008685 redox-dependent activation switch; other site 441772008686 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 441772008687 S-adenosylmethionine binding site [chemical binding]; other site 441772008688 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772008689 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 441772008690 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 441772008691 Walker A/P-loop; other site 441772008692 ATP binding site [chemical binding]; other site 441772008693 Q-loop/lid; other site 441772008694 ABC transporter signature motif; other site 441772008695 Walker B; other site 441772008696 D-loop; other site 441772008697 H-loop/switch region; other site 441772008698 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 441772008699 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 441772008700 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 441772008701 Walker A/P-loop; other site 441772008702 ATP binding site [chemical binding]; other site 441772008703 Q-loop/lid; other site 441772008704 ABC transporter signature motif; other site 441772008705 Walker B; other site 441772008706 D-loop; other site 441772008707 H-loop/switch region; other site 441772008708 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 441772008709 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 441772008710 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 441772008711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772008712 putative PBP binding loops; other site 441772008713 dimer interface [polypeptide binding]; other site 441772008714 ABC-ATPase subunit interface; other site 441772008715 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 441772008716 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772008717 dimer interface [polypeptide binding]; other site 441772008718 conserved gate region; other site 441772008719 putative PBP binding loops; other site 441772008720 ABC-ATPase subunit interface; other site 441772008721 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 441772008722 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 441772008723 peptide binding site [polypeptide binding]; other site 441772008724 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 441772008725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008726 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 441772008727 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 441772008728 dihydrodipicolinate synthase; Region: dapA; TIGR00674 441772008729 dimer interface [polypeptide binding]; other site 441772008730 active site 441772008731 catalytic residue [active] 441772008732 dihydrodipicolinate reductase; Provisional; Region: PRK00048 441772008733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008734 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 441772008735 aminotransferase A; Validated; Region: PRK07683 441772008736 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 441772008737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772008738 homodimer interface [polypeptide binding]; other site 441772008739 catalytic residue [active] 441772008740 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 441772008741 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 441772008742 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 441772008743 trimer interface [polypeptide binding]; other site 441772008744 active site 441772008745 substrate binding site [chemical binding]; other site 441772008746 CoA binding site [chemical binding]; other site 441772008747 single-stranded DNA-binding protein; Provisional; Region: PRK05813 441772008748 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 441772008749 dimer interface [polypeptide binding]; other site 441772008750 ssDNA binding site [nucleotide binding]; other site 441772008751 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772008752 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 441772008753 NodB motif; other site 441772008754 active site 441772008755 catalytic site [active] 441772008756 metal binding site [ion binding]; metal-binding site 441772008757 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 441772008758 Uncharacterized conserved protein [Function unknown]; Region: COG3391 441772008759 TSCPD domain; Region: TSCPD; cl14834 441772008760 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 441772008761 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772008762 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772008763 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 441772008764 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 441772008765 active site 441772008766 HIGH motif; other site 441772008767 nucleotide binding site [chemical binding]; other site 441772008768 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 441772008769 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 441772008770 active site 441772008771 KMSKS motif; other site 441772008772 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 441772008773 tRNA binding surface [nucleotide binding]; other site 441772008774 anticodon binding site; other site 441772008775 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 441772008776 putative acetyltransferase YhhY; Provisional; Region: PRK10140 441772008777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772008778 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772008779 Coenzyme A binding pocket [chemical binding]; other site 441772008780 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 441772008781 active site 441772008782 catalytic triad [active] 441772008783 peptide maturation system acyl carrier-related protein; Region: ocin_ACP_rel; TIGR04069 441772008784 peptide maturation system protein, TIGR04066 family; Region: nat_prod_clost 441772008785 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 441772008786 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 441772008787 FeS/SAM binding site; other site 441772008788 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 441772008789 putative bacteriocin precursor, CLI_3235 family; Region: ocin_CLI_3235; TIGR04065 441772008790 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772008791 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772008792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772008793 Walker A/P-loop; other site 441772008794 ATP binding site [chemical binding]; other site 441772008795 Q-loop/lid; other site 441772008796 ABC transporter signature motif; other site 441772008797 Walker B; other site 441772008798 D-loop; other site 441772008799 H-loop/switch region; other site 441772008800 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772008801 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 441772008802 Walker A/P-loop; other site 441772008803 ATP binding site [chemical binding]; other site 441772008804 Q-loop/lid; other site 441772008805 ABC transporter signature motif; other site 441772008806 Walker B; other site 441772008807 D-loop; other site 441772008808 H-loop/switch region; other site 441772008809 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772008810 FtsX-like permease family; Region: FtsX; cl15850 441772008811 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772008812 FtsX-like permease family; Region: FtsX; cl15850 441772008813 NMT1/THI5 like; Region: NMT1; pfam09084 441772008814 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 441772008815 non-specific DNA binding site [nucleotide binding]; other site 441772008816 salt bridge; other site 441772008817 sequence-specific DNA binding site [nucleotide binding]; other site 441772008818 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772008819 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 441772008820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772008821 Walker A motif; other site 441772008822 ATP binding site [chemical binding]; other site 441772008823 Walker B motif; other site 441772008824 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 441772008825 non-specific DNA binding site [nucleotide binding]; other site 441772008826 salt bridge; other site 441772008827 sequence-specific DNA binding site [nucleotide binding]; other site 441772008828 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 441772008829 catalytic residues [active] 441772008830 catalytic nucleophile [active] 441772008831 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 441772008832 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 441772008833 substrate binding site [chemical binding]; other site 441772008834 amidase catalytic site [active] 441772008835 Zn binding residues [ion binding]; other site 441772008836 Bacterial SH3 domain; Region: SH3_3; cl02551 441772008837 Bacterial SH3 domain; Region: SH3_3; cl02551 441772008838 Holin family; Region: Phage_holin_4; cl01989 441772008839 Phage tail protein; Region: Sipho_tail; pfam05709 441772008840 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 441772008841 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 441772008842 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 441772008843 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 441772008844 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 441772008845 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 441772008846 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 441772008847 oligomerization interface [polypeptide binding]; other site 441772008848 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 441772008849 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 441772008850 Phage capsid family; Region: Phage_capsid; pfam05065 441772008851 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 441772008852 oligomer interface [polypeptide binding]; other site 441772008853 active site residues [active] 441772008854 Phage portal protein; Region: Phage_portal; pfam04860 441772008855 Phage-related protein [Function unknown]; Region: COG4695; cl01923 441772008856 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 441772008857 Phage Terminase; Region: Terminase_1; pfam03354 441772008858 Phage terminase, small subunit; Region: Terminase_4; cl01525 441772008859 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 441772008860 Int/Topo IB signature motif; other site 441772008861 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 441772008862 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 441772008863 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 441772008864 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 441772008865 cofactor binding site; other site 441772008866 DNA binding site [nucleotide binding] 441772008867 substrate interaction site [chemical binding]; other site 441772008868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008869 Loader and inhibitor of phage G40P; Region: Inhibitor_G39P; pfam11417 441772008870 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 441772008871 KTSC domain; Region: KTSC; pfam13619 441772008872 ORF6N domain; Region: ORF6N; pfam10543 441772008873 ORF6C domain; Region: ORF6C; pfam10552 441772008874 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 441772008875 non-specific DNA binding site [nucleotide binding]; other site 441772008876 salt bridge; other site 441772008877 sequence-specific DNA binding site [nucleotide binding]; other site 441772008878 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 441772008879 non-specific DNA binding site [nucleotide binding]; other site 441772008880 salt bridge; other site 441772008881 sequence-specific DNA binding site [nucleotide binding]; other site 441772008882 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 441772008883 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 441772008884 catalytic residues [active] 441772008885 catalytic nucleophile [active] 441772008886 Presynaptic Site I dimer interface [polypeptide binding]; other site 441772008887 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 441772008888 Synaptic Flat tetramer interface [polypeptide binding]; other site 441772008889 Synaptic Site I dimer interface [polypeptide binding]; other site 441772008890 DNA binding site [nucleotide binding] 441772008891 Recombinase; Region: Recombinase; pfam07508 441772008892 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 441772008893 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 441772008894 NMT1-like family; Region: NMT1_2; cl15260 441772008895 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772008896 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 441772008897 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772008898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 441772008899 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 441772008900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 441772008901 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 441772008902 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 441772008903 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 441772008904 Walker A/P-loop; other site 441772008905 ATP binding site [chemical binding]; other site 441772008906 Q-loop/lid; other site 441772008907 ABC transporter signature motif; other site 441772008908 Walker B; other site 441772008909 D-loop; other site 441772008910 H-loop/switch region; other site 441772008911 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 441772008912 dimer interface [polypeptide binding]; other site 441772008913 conserved gate region; other site 441772008914 putative PBP binding loops; other site 441772008915 ABC-ATPase subunit interface; other site 441772008916 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 441772008917 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 441772008918 RecX family; Region: RecX; cl00936 441772008919 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 441772008920 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 441772008921 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 441772008922 QueT transporter; Region: QueT; cl01932 441772008923 Flavin Reductases; Region: FlaRed; cl00801 441772008924 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 441772008925 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 441772008926 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 441772008927 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 441772008928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008929 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 441772008930 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 441772008931 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 441772008932 dimer interface [polypeptide binding]; other site 441772008933 active site 441772008934 glycine loop; other site 441772008935 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 441772008936 4Fe-4S binding domain; Region: Fer4; cl02805 441772008937 4Fe-4S binding domain; Region: Fer4; cl02805 441772008938 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772008939 Cupin domain; Region: Cupin_2; cl09118 441772008940 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 441772008941 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cl00038 441772008942 agmatine deiminase; Region: agmatine_aguA; TIGR03380 441772008943 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 441772008944 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 441772008945 metal ion-dependent adhesion site (MIDAS); other site 441772008946 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 441772008947 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 441772008948 Walker A motif; other site 441772008949 ATP binding site [chemical binding]; other site 441772008950 Walker B motif; other site 441772008951 arginine finger; other site 441772008952 pyruvate kinase complex alpha subunit; Region: PLN02762 441772008953 TIGR00300 family protein; Region: TIGR00300 441772008954 Uncharacterized conserved protein [Function unknown]; Region: COG1915 441772008955 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 441772008956 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 441772008957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 441772008958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 441772008959 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 441772008960 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772008961 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772008962 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 441772008963 Walker A motif; other site 441772008964 ATP binding site [chemical binding]; other site 441772008965 Walker B motif; other site 441772008966 arginine finger; other site 441772008967 Helix-turn-helix domains; Region: HTH; cl00088 441772008968 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 441772008969 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 441772008970 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772008971 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 441772008972 Ligand binding site [chemical binding]; other site 441772008973 Electron transfer flavoprotein domain; Region: ETF; pfam01012 441772008974 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 441772008975 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 441772008976 FAD binding site [chemical binding]; other site 441772008977 homotetramer interface [polypeptide binding]; other site 441772008978 substrate binding pocket [chemical binding]; other site 441772008979 catalytic base [active] 441772008980 putative acyltransferase; Provisional; Region: PRK05790 441772008981 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 441772008982 dimer interface [polypeptide binding]; other site 441772008983 active site 441772008984 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 441772008985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772008986 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 441772008987 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 441772008988 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 441772008989 substrate binding site [chemical binding]; other site 441772008990 oxyanion hole (OAH) forming residues; other site 441772008991 trimer interface [polypeptide binding]; other site 441772008992 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 441772008993 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 441772008994 GIY-YIG motif/motif A; other site 441772008995 active site 441772008996 catalytic site [active] 441772008997 putative DNA binding site [nucleotide binding]; other site 441772008998 metal binding site [ion binding]; metal-binding site 441772008999 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 441772009000 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 441772009001 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772009002 Zn2+ binding site [ion binding]; other site 441772009003 Mg2+ binding site [ion binding]; other site 441772009004 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 441772009005 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 441772009006 homotetramer interface [polypeptide binding]; other site 441772009007 active site 441772009008 metal binding site [ion binding]; metal-binding site 441772009009 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 441772009010 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 441772009011 active site 441772009012 catalytic site [active] 441772009013 metal binding site [ion binding]; metal-binding site 441772009014 dimer interface [polypeptide binding]; other site 441772009015 Cache domain; Region: Cache_1; pfam02743 441772009016 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772009017 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772009018 dimer interface [polypeptide binding]; other site 441772009019 putative CheW interface [polypeptide binding]; other site 441772009020 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 441772009021 Rubredoxin; Region: Rubredoxin; pfam00301 441772009022 iron binding site [ion binding]; other site 441772009023 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 441772009024 diiron binding motif [ion binding]; other site 441772009025 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 441772009026 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 441772009027 FeS/SAM binding site; other site 441772009028 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 441772009029 Pyruvate formate lyase 1; Region: PFL1; cd01678 441772009030 coenzyme A binding site [chemical binding]; other site 441772009031 active site 441772009032 catalytic residues [active] 441772009033 glycine loop; other site 441772009034 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 441772009035 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 441772009036 5S rRNA interface [nucleotide binding]; other site 441772009037 CTC domain interface [polypeptide binding]; other site 441772009038 L16 interface [polypeptide binding]; other site 441772009039 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772009040 metal binding site 2 [ion binding]; metal-binding site 441772009041 putative DNA binding helix; other site 441772009042 metal binding site 1 [ion binding]; metal-binding site 441772009043 dimer interface [polypeptide binding]; other site 441772009044 structural Zn2+ binding site [ion binding]; other site 441772009045 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 441772009046 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 441772009047 Predicted transcriptional regulator [Transcription]; Region: COG2378 441772009048 Helix-turn-helix domains; Region: HTH; cl00088 441772009049 WYL domain; Region: WYL; cl14852 441772009050 CAAX protease self-immunity; Region: Abi; cl00558 441772009051 Predicted GTPase [General function prediction only]; Region: COG0218 441772009052 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 441772009053 G1 box; other site 441772009054 GTP/Mg2+ binding site [chemical binding]; other site 441772009055 Switch I region; other site 441772009056 G2 box; other site 441772009057 G3 box; other site 441772009058 Switch II region; other site 441772009059 G4 box; other site 441772009060 G5 box; other site 441772009061 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 441772009062 Found in ATP-dependent protease La (LON); Region: LON; smart00464 441772009063 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 441772009064 Walker A motif; other site 441772009065 ATP binding site [chemical binding]; other site 441772009066 Walker B motif; other site 441772009067 arginine finger; other site 441772009068 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 441772009069 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 441772009070 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 441772009071 Walker A motif; other site 441772009072 ATP binding site [chemical binding]; other site 441772009073 Walker B motif; other site 441772009074 arginine finger; other site 441772009075 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 441772009076 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 441772009077 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 441772009078 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 441772009079 Walker A motif; other site 441772009080 ATP binding site [chemical binding]; other site 441772009081 Walker B motif; other site 441772009082 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 441772009083 Clp protease; Region: CLP_protease; pfam00574 441772009084 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 441772009085 oligomer interface [polypeptide binding]; other site 441772009086 active site residues [active] 441772009087 trigger factor; Provisional; Region: tig; PRK01490 441772009088 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 441772009089 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 441772009090 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 441772009091 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 441772009092 DNA interaction; other site 441772009093 Metal-binding active site; metal-binding site 441772009094 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 441772009095 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772009096 active site 441772009097 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 441772009098 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 441772009099 heterodimer interface [polypeptide binding]; other site 441772009100 active site 441772009101 FMN binding site [chemical binding]; other site 441772009102 homodimer interface [polypeptide binding]; other site 441772009103 substrate binding site [chemical binding]; other site 441772009104 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 441772009105 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 441772009106 FAD binding pocket [chemical binding]; other site 441772009107 FAD binding motif [chemical binding]; other site 441772009108 phosphate binding motif [ion binding]; other site 441772009109 beta-alpha-beta structure motif; other site 441772009110 NAD binding pocket [chemical binding]; other site 441772009111 Iron coordination center [ion binding]; other site 441772009112 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 contains two...; Region: OMP_decarboxylase_like; cd04725 441772009113 active site 441772009114 dimer interface [polypeptide binding]; other site 441772009115 dihydroorotase; Validated; Region: pyrC; PRK09357 441772009116 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 441772009117 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 441772009118 active site 441772009119 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 441772009120 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 441772009121 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 441772009122 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 441772009123 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 441772009124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772009125 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772009126 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 441772009127 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 441772009128 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772009129 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 441772009130 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772009131 DsrE/DsrF-like family; Region: DrsE; cl00672 441772009132 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 441772009133 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 441772009134 Walker A/P-loop; other site 441772009135 ATP binding site [chemical binding]; other site 441772009136 Q-loop/lid; other site 441772009137 ABC transporter signature motif; other site 441772009138 Walker B; other site 441772009139 D-loop; other site 441772009140 H-loop/switch region; other site 441772009141 Alkylmercury lyase; Region: MerB; pfam03243 441772009142 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 441772009143 NMT1-like family; Region: NMT1_2; cl15260 441772009144 Predicted permeases [General function prediction only]; Region: COG0701 441772009145 Predicted permease; Region: DUF318; pfam03773 441772009146 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 441772009147 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 441772009148 active site 441772009149 metal binding site [ion binding]; metal-binding site 441772009150 homotetramer interface [polypeptide binding]; other site 441772009151 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 441772009152 active site 441772009153 dimerization interface [polypeptide binding]; other site 441772009154 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 441772009155 peptide binding site [polypeptide binding]; other site 441772009156 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 441772009157 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 441772009158 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 441772009159 GatB domain; Region: GatB_Yqey; cl11497 441772009160 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 441772009161 Amidase; Region: Amidase; cl11426 441772009162 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 441772009163 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 441772009164 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 441772009165 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 441772009166 nucleotide binding pocket [chemical binding]; other site 441772009167 K-X-D-G motif; other site 441772009168 catalytic site [active] 441772009169 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 441772009170 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 441772009171 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 441772009172 Dimer interface [polypeptide binding]; other site 441772009173 BRCT sequence motif; other site 441772009174 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 441772009175 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772009176 Family description; Region: UvrD_C_2; cl15862 441772009177 Helix-turn-helix domains; Region: HTH; cl00088 441772009178 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 441772009179 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 441772009180 RNA binding surface [nucleotide binding]; other site 441772009181 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 441772009182 active site 441772009183 uracil binding [chemical binding]; other site 441772009184 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 catalyze...; Region: LT_GEWL; cd00254 441772009185 N-acetyl-D-glucosamine binding site [chemical binding]; other site 441772009186 catalytic residue [active] 441772009187 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 441772009188 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772009189 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772009190 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772009191 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772009192 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 441772009193 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 441772009194 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 441772009195 active site 441772009196 dimer interface [polypeptide binding]; other site 441772009197 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 441772009198 dimer interface [polypeptide binding]; other site 441772009199 active site 441772009200 Probable zinc-binding domain; Region: zf-trcl; pfam13451 441772009201 Helix-turn-helix domains; Region: HTH; cl00088 441772009202 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 441772009203 D-lactate dehydrogenase; Validated; Region: PRK08605 441772009204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772009205 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 441772009206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772009207 Uncharacterized membrane protein [Function unknown]; Region: COG3949 441772009208 ferredoxin; Validated; Region: PRK07118 441772009209 4Fe-4S binding domain; Region: Fer4; cl02805 441772009210 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 441772009211 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 441772009212 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772009213 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 441772009214 Ligand binding site [chemical binding]; other site 441772009215 Electron transfer flavoprotein domain; Region: ETF; pfam01012 441772009216 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 441772009217 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 441772009218 active site 441772009219 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 441772009220 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772009221 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 441772009222 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772009223 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 441772009224 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 441772009225 CoA-transferase family III; Region: CoA_transf_3; pfam02515 441772009226 AMP-binding domain protein; Validated; Region: PRK08315 441772009227 AMP-binding enzyme; Region: AMP-binding; cl15778 441772009228 AMP-binding enzyme; Region: AMP-binding; cl15778 441772009229 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 441772009230 GMP synthase; Reviewed; Region: guaA; PRK00074 441772009231 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 441772009232 AMP/PPi binding site [chemical binding]; other site 441772009233 candidate oxyanion hole; other site 441772009234 catalytic triad [active] 441772009235 potential glutamine specificity residues [chemical binding]; other site 441772009236 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 441772009237 ATP Binding subdomain [chemical binding]; other site 441772009238 Ligand Binding sites [chemical binding]; other site 441772009239 Dimerization subdomain; other site 441772009240 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 441772009241 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; cl09108 441772009242 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 key...; Region: CBS_pair_IMPDH; cd04601 441772009243 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 the guanine...; Region: IMPDH; cd00381 441772009244 active site 441772009245 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 441772009246 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 441772009247 Ligand Binding Site [chemical binding]; other site 441772009248 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 441772009249 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 441772009250 ring oligomerisation interface [polypeptide binding]; other site 441772009251 ATP/Mg binding site [chemical binding]; other site 441772009252 stacking interactions; other site 441772009253 hinge regions; other site 441772009254 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 441772009255 oligomerisation interface [polypeptide binding]; other site 441772009256 mobile loop; other site 441772009257 roof hairpin; other site 441772009258 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 441772009259 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 441772009260 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 441772009261 4Fe-4S binding domain; Region: Fer4; cl02805 441772009262 4Fe-4S binding domain; Region: Fer4; cl02805 441772009263 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772009264 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 441772009265 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 441772009266 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 441772009267 minor groove reading motif; other site 441772009268 helix-hairpin-helix signature motif; other site 441772009269 substrate binding pocket [chemical binding]; other site 441772009270 active site 441772009271 putative oxidoreductase; Provisional; Region: PRK12831 441772009272 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 441772009273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772009274 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 441772009275 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 441772009276 FAD binding pocket [chemical binding]; other site 441772009277 FAD binding motif [chemical binding]; other site 441772009278 phosphate binding motif [ion binding]; other site 441772009279 beta-alpha-beta structure motif; other site 441772009280 NAD binding pocket [chemical binding]; other site 441772009281 Iron coordination center [ion binding]; other site 441772009282 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 441772009283 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 441772009284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772009285 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772009286 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772009287 Walker A/P-loop; other site 441772009288 ATP binding site [chemical binding]; other site 441772009289 Q-loop/lid; other site 441772009290 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772009291 ABC transporter; Region: ABC_tran_2; pfam12848 441772009292 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 441772009293 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 441772009294 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 441772009295 active site 441772009296 phosphorylation site [posttranslational modification] 441772009297 intermolecular recognition site; other site 441772009298 dimerization interface [polypeptide binding]; other site 441772009299 LytTr DNA-binding domain; Region: LytTR; cl04498 441772009300 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 441772009301 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 441772009302 Histidine kinase; Region: His_kinase; pfam06580 441772009303 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 441772009304 ATP binding site [chemical binding]; other site 441772009305 Mg2+ binding site [ion binding]; other site 441772009306 G-X-G motif; other site 441772009307 Carbon starvation protein CstA; Region: CstA; pfam02554 441772009308 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 441772009309 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 441772009310 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 441772009311 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 441772009312 Peptidase M16C associated; Region: M16C_assoc; pfam08367 441772009313 pyruvate carboxylase; Reviewed; Region: PRK12999 441772009314 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772009315 ATP-grasp domain; Region: ATP-grasp_4; cl03087 441772009316 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 441772009317 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 441772009318 active site 441772009319 catalytic residues [active] 441772009320 metal binding site [ion binding]; metal-binding site 441772009321 homodimer binding site [polypeptide binding]; other site 441772009322 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 441772009323 carboxyltransferase (CT) interaction site; other site 441772009324 biotinylation site [posttranslational modification]; other site 441772009325 UGMP family protein; Validated; Region: PRK09604 441772009326 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 441772009327 Endodeoxyribonuclease RusA; Region: RusA; cl01885 441772009328 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 441772009329 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 441772009330 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 441772009331 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 441772009332 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 441772009333 intersubunit interface [polypeptide binding]; other site 441772009334 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772009335 Zn2+ binding site [ion binding]; other site 441772009336 Mg2+ binding site [ion binding]; other site 441772009337 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772009338 Zn2+ binding site [ion binding]; other site 441772009339 Mg2+ binding site [ion binding]; other site 441772009340 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 441772009341 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 441772009342 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 441772009343 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772009344 Coenzyme A binding pocket [chemical binding]; other site 441772009345 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 441772009346 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 441772009347 active site 441772009348 HIGH motif; other site 441772009349 dimer interface [polypeptide binding]; other site 441772009350 KMSKS motif; other site 441772009351 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; cl09940 441772009352 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 441772009353 Divergent AAA domain; Region: AAA_4; pfam04326 441772009354 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 441772009355 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 441772009356 active site 441772009357 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 441772009358 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 441772009359 G1 box; other site 441772009360 putative GEF interaction site [polypeptide binding]; other site 441772009361 GTP/Mg2+ binding site [chemical binding]; other site 441772009362 Switch I region; other site 441772009363 G2 box; other site 441772009364 G3 box; other site 441772009365 Switch II region; other site 441772009366 G4 box; other site 441772009367 G5 box; other site 441772009368 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 441772009369 sugar phosphate phosphatase; Provisional; Region: PRK10513 441772009370 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 441772009371 active site 441772009372 motif I; other site 441772009373 motif II; other site 441772009374 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772009375 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 441772009376 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 441772009377 active site 441772009378 HIGH motif; other site 441772009379 dimer interface [polypeptide binding]; other site 441772009380 KMSKS motif; other site 441772009381 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 441772009382 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 441772009383 non-heme iron binding site [ion binding]; other site 441772009384 dimer interface [polypeptide binding]; other site 441772009385 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 441772009386 non-heme iron binding site [ion binding]; other site 441772009387 dimer interface [polypeptide binding]; other site 441772009388 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 441772009389 Putative glucoamylase; Region: Glycoamylase; pfam10091 441772009390 Putative carbohydrate binding domain; Region: CBM_X; cl05621 441772009391 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 441772009392 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 441772009393 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 441772009394 Putative carbohydrate binding domain; Region: CBM_X; cl05621 441772009395 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 441772009396 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 441772009397 diaminopimelate decarboxylase; Region: lysA; TIGR01048 441772009398 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 441772009399 active site 441772009400 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772009401 substrate binding site [chemical binding]; other site 441772009402 catalytic residues [active] 441772009403 dimer interface [polypeptide binding]; other site 441772009404 aspartate kinase; Reviewed; Region: PRK06635 441772009405 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 441772009406 putative nucleotide binding site [chemical binding]; other site 441772009407 putative catalytic residues [active] 441772009408 putative Mg ion binding site [ion binding]; other site 441772009409 putative aspartate binding site [chemical binding]; other site 441772009410 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 441772009411 putative allosteric regulatory site; other site 441772009412 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 441772009413 putative allosteric regulatory residue; other site 441772009414 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 441772009415 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 441772009416 active site 441772009417 metal binding site [ion binding]; metal-binding site 441772009418 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 441772009419 Cation efflux family; Region: Cation_efflux; cl00316 441772009420 hypothetical protein; Provisional; Region: PRK06851 441772009421 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772009422 Walker A motif; other site 441772009423 ATP binding site [chemical binding]; other site 441772009424 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 441772009425 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772009426 FtsH Extracellular; Region: FtsH_ext; pfam06480 441772009427 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 441772009428 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 441772009429 Walker A motif; other site 441772009430 ATP binding site [chemical binding]; other site 441772009431 Walker B motif; other site 441772009432 arginine finger; other site 441772009433 Peptidase family M41; Region: Peptidase_M41; pfam01434 441772009434 dipeptidase PepV; Reviewed; Region: PRK07318 441772009435 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 441772009436 active site 441772009437 metal binding site [ion binding]; metal-binding site 441772009438 prolyl-tRNA synthetase; Provisional; Region: PRK08661 441772009439 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 formation of...; Region: ProRS_core_arch_euk; cd00778 441772009440 dimer interface [polypeptide binding]; other site 441772009441 motif 1; other site 441772009442 active site 441772009443 motif 2; other site 441772009444 motif 3; other site 441772009445 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 441772009446 anticodon binding site; other site 441772009447 zinc-binding site [ion binding]; other site 441772009448 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 441772009449 GIY-YIG motif/motif A; other site 441772009450 putative active site [active] 441772009451 putative metal binding site [ion binding]; other site 441772009452 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772009453 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772009454 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 441772009455 Walker A/P-loop; other site 441772009456 ATP binding site [chemical binding]; other site 441772009457 Q-loop/lid; other site 441772009458 ABC transporter signature motif; other site 441772009459 Walker B; other site 441772009460 D-loop; other site 441772009461 H-loop/switch region; other site 441772009462 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 441772009463 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772009464 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 441772009465 DNA binding residues [nucleotide binding] 441772009466 putative transporter; Provisional; Region: PRK11660 441772009467 Sulfate transporter family; Region: Sulfate_transp; cl15842 441772009468 Sulfate transporter family; Region: Sulfate_transp; cl15842 441772009469 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 441772009470 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 441772009471 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 441772009472 dimer interface [polypeptide binding]; other site 441772009473 phosphorylation site [posttranslational modification] 441772009474 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 441772009475 ATP binding site [chemical binding]; other site 441772009476 Mg2+ binding site [ion binding]; other site 441772009477 G-X-G motif; other site 441772009478 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772009479 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 441772009480 active site 441772009481 phosphorylation site [posttranslational modification] 441772009482 intermolecular recognition site; other site 441772009483 dimerization interface [polypeptide binding]; other site 441772009484 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 441772009485 DNA binding site [nucleotide binding] 441772009486 ABC-2 type transporter; Region: ABC2_membrane; cl11417 441772009487 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772009488 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772009489 Walker A/P-loop; other site 441772009490 ATP binding site [chemical binding]; other site 441772009491 Q-loop/lid; other site 441772009492 ABC transporter signature motif; other site 441772009493 Walker B; other site 441772009494 D-loop; other site 441772009495 H-loop/switch region; other site 441772009496 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 441772009497 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 441772009498 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 441772009499 catalytic site [active] 441772009500 metal binding site [ion binding]; metal-binding site 441772009501 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 441772009502 methionine cluster; other site 441772009503 active site 441772009504 phosphorylation site [posttranslational modification] 441772009505 metal binding site [ion binding]; metal-binding site 441772009506 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 441772009507 active site 441772009508 P-loop; other site 441772009509 phosphorylation site [posttranslational modification] 441772009510 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 441772009511 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 441772009512 Walker A motif; other site 441772009513 ATP binding site [chemical binding]; other site 441772009514 Walker B motif; other site 441772009515 arginine finger; other site 441772009516 Transcriptional antiterminator [Transcription]; Region: COG3933 441772009517 PRD domain; Region: PRD; cl15445 441772009518 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 441772009519 active pocket/dimerization site; other site 441772009520 active site 441772009521 phosphorylation site [posttranslational modification] 441772009522 PRD domain; Region: PRD; cl15445 441772009523 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 441772009524 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 441772009525 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 441772009526 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 441772009527 NAD binding site [chemical binding]; other site 441772009528 sugar binding site [chemical binding]; other site 441772009529 divalent metal binding site [ion binding]; other site 441772009530 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772009531 dimer interface [polypeptide binding]; other site 441772009532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772009533 metal binding site [ion binding]; metal-binding site 441772009534 active site 441772009535 I-site; other site 441772009536 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 441772009537 DNA binding site [nucleotide binding] 441772009538 Int/Topo IB signature motif; other site 441772009539 active site 441772009540 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 441772009541 Protein of unknown function DUF43; Region: DUF43; pfam01861 441772009542 Mor transcription activator family; Region: Mor; cl02360 441772009543 Helix-turn-helix domains; Region: HTH; cl00088 441772009544 Flavin Reductases; Region: FlaRed; cl00801 441772009545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772009546 NmrA-like family; Region: NmrA; pfam05368 441772009547 NAD(P) binding site [chemical binding]; other site 441772009548 active site 441772009549 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 441772009550 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 441772009551 active site 441772009552 catalytic tetrad [active] 441772009553 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772009554 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 441772009555 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 441772009556 DNA binding residues [nucleotide binding] 441772009557 putative dimer interface [polypeptide binding]; other site 441772009558 Protein of unknown function, DUF606; Region: DUF606; cl01273 441772009559 Protein of unknown function, DUF606; Region: DUF606; cl01273 441772009560 Rrf2 family protein; Region: rrf2_super; TIGR00738 441772009561 Helix-turn-helix domains; Region: HTH; cl00088 441772009562 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772009563 Coenzyme A binding pocket [chemical binding]; other site 441772009564 TRAM domain; Region: TRAM; cl01282 441772009565 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 441772009566 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 441772009567 S-adenosylmethionine binding site [chemical binding]; other site 441772009568 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 441772009569 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 441772009570 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 441772009571 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 441772009572 active site 441772009573 catalytic tetrad [active] 441772009574 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 441772009575 pyruvate kinase; Provisional; Region: PRK06354 441772009576 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; cl09155 441772009577 domain interfaces; other site 441772009578 active site 441772009579 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 441772009580 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 441772009581 active site 441772009582 ADP/pyrophosphate binding site [chemical binding]; other site 441772009583 dimerization interface [polypeptide binding]; other site 441772009584 allosteric effector site; other site 441772009585 fructose-1,6-bisphosphate binding site; other site 441772009586 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 441772009587 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 441772009588 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 441772009589 generic binding surface II; other site 441772009590 generic binding surface I; other site 441772009591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 441772009592 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 441772009593 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 441772009594 phosphate binding site [ion binding]; other site 441772009595 putative substrate binding pocket [chemical binding]; other site 441772009596 dimer interface [polypeptide binding]; other site 441772009597 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 441772009598 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 441772009599 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 441772009600 FAD binding domain; Region: FAD_binding_4; pfam01565 441772009601 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 441772009602 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 441772009603 RNase P subunit p30; Region: RNase_P_p30; cl03389 441772009604 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 441772009605 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 441772009606 GIY-YIG motif/motif A; other site 441772009607 active site 441772009608 catalytic site [active] 441772009609 putative DNA binding site [nucleotide binding]; other site 441772009610 metal binding site [ion binding]; metal-binding site 441772009611 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 441772009612 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 441772009613 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 441772009614 generic binding surface II; other site 441772009615 generic binding surface I; other site 441772009616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 441772009617 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 441772009618 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 441772009619 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 441772009620 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 441772009621 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 441772009622 phosphopeptide binding site; other site 441772009623 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 441772009624 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 441772009625 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 441772009626 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 441772009627 excinuclease ABC subunit B; Provisional; Region: PRK05298 441772009628 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 441772009629 ATP binding site [chemical binding]; other site 441772009630 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 441772009631 nucleotide binding region [chemical binding]; other site 441772009632 ATP-binding site [chemical binding]; other site 441772009633 Ultra-violet resistance protein B; Region: UvrB; pfam12344 441772009634 UvrB/uvrC motif; Region: UVR; pfam02151 441772009635 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 441772009636 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 441772009637 C-terminal peptidase (prc); Region: prc; TIGR00225 441772009638 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 441772009639 protein binding site [polypeptide binding]; other site 441772009640 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 441772009641 Catalytic dyad [active] 441772009642 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 441772009643 FtsX-like permease family; Region: FtsX; cl15850 441772009644 FtsX-like permease family; Region: FtsX; cl15850 441772009645 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 441772009646 FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and...; Region: ABC_FtsE_transporter; cd03292 441772009647 Walker A/P-loop; other site 441772009648 ATP binding site [chemical binding]; other site 441772009649 Q-loop/lid; other site 441772009650 ABC transporter signature motif; other site 441772009651 Walker B; other site 441772009652 D-loop; other site 441772009653 H-loop/switch region; other site 441772009654 Uncharacterized conserved protein [Function unknown]; Region: COG1284 441772009655 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772009656 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 441772009657 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 441772009658 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 441772009659 PYR/PP interface [polypeptide binding]; other site 441772009660 dimer interface [polypeptide binding]; other site 441772009661 TPP binding site [chemical binding]; other site 441772009662 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 441772009663 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 441772009664 TPP-binding site [chemical binding]; other site 441772009665 dimer interface [polypeptide binding]; other site 441772009666 PemK-like protein; Region: PemK; cl00995 441772009667 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 441772009668 alanine racemase; Reviewed; Region: alr; PRK00053 441772009669 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 441772009670 active site 441772009671 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772009672 dimer interface [polypeptide binding]; other site 441772009673 substrate binding site [chemical binding]; other site 441772009674 catalytic residues [active] 441772009675 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 441772009676 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 441772009677 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 441772009678 putative substrate binding site [chemical binding]; other site 441772009679 putative ATP binding site [chemical binding]; other site 441772009680 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 441772009681 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 441772009682 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 441772009683 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 441772009684 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 441772009685 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 441772009686 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 441772009687 RNA binding surface [nucleotide binding]; other site 441772009688 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 441772009689 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 441772009690 dinuclear metal binding motif [ion binding]; other site 441772009691 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 441772009692 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 441772009693 glutaminase active site [active] 441772009694 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 441772009695 dimer interface [polypeptide binding]; other site 441772009696 active site 441772009697 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 441772009698 dimer interface [polypeptide binding]; other site 441772009699 active site 441772009700 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 441772009701 active site 441772009702 intersubunit interactions; other site 441772009703 catalytic residue [active] 441772009704 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 441772009705 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772009706 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 441772009707 motif II; other site 441772009708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772009709 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 441772009710 NAD(P) binding site [chemical binding]; other site 441772009711 active site 441772009712 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 441772009713 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 441772009714 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 441772009715 Nucleoside recognition; Region: Gate; cl00486 441772009716 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 441772009717 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 441772009718 Glucitol operon activator protein (GutM); Region: GutM; cl01890 441772009719 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 441772009720 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 441772009721 putative NAD(P) binding site [chemical binding]; other site 441772009722 catalytic Zn binding site [ion binding]; other site 441772009723 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 441772009724 Helix-turn-helix domains; Region: HTH; cl00088 441772009725 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 441772009726 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 441772009727 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 441772009728 active site 441772009729 substrate binding site [chemical binding]; other site 441772009730 metal binding site [ion binding]; metal-binding site 441772009731 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 441772009732 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 441772009733 dimer interface [polypeptide binding]; other site 441772009734 PYR/PP interface [polypeptide binding]; other site 441772009735 TPP binding site [chemical binding]; other site 441772009736 substrate binding site [chemical binding]; other site 441772009737 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 441772009738 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772009739 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 441772009740 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 441772009741 Acetokinase family; Region: Acetate_kinase; cl01029 441772009742 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 441772009743 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 441772009744 Acetokinase family; Region: Acetate_kinase; cl01029 441772009745 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 441772009746 YbbR-like protein; Region: YbbR; pfam07949 441772009747 YbbR-like protein; Region: YbbR; pfam07949 441772009748 Uncharacterized conserved protein [Function unknown]; Region: COG1624 441772009749 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 441772009750 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 441772009751 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 441772009752 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 441772009753 catalytic residues [active] 441772009754 isoaspartyl dipeptidase; Provisional; Region: PRK10657 441772009755 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 441772009756 active site 441772009757 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772009758 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 441772009759 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 441772009760 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 441772009761 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 441772009762 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; cl09155 441772009763 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 441772009764 dimerization domain swap beta strand [polypeptide binding]; other site 441772009765 regulatory protein interface [polypeptide binding]; other site 441772009766 active site 441772009767 regulatory phosphorylation site [posttranslational modification]; other site 441772009768 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772009769 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 441772009770 putative active site [active] 441772009771 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 441772009772 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 441772009773 Walker A motif; other site 441772009774 ATP binding site [chemical binding]; other site 441772009775 Walker B motif; other site 441772009776 arginine finger; other site 441772009777 Helix-turn-helix domains; Region: HTH; cl00088 441772009778 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 441772009779 binding surface 441772009780 TPR motif; other site 441772009781 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772009782 Fumarase C-terminus; Region: Fumerase_C; cl00795 441772009783 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 441772009784 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 441772009785 active site 441772009786 metal binding site [ion binding]; metal-binding site 441772009787 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 441772009788 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 441772009789 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 441772009790 PhoU domain; Region: PhoU; pfam01895 441772009791 PhoU domain; Region: PhoU; pfam01895 441772009792 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 441772009793 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 441772009794 23S rRNA interface [nucleotide binding]; other site 441772009795 L3 interface [polypeptide binding]; other site 441772009796 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 441772009797 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 441772009798 dimerization interface 3.5A [polypeptide binding]; other site 441772009799 active site 441772009800 Cobalt transport protein; Region: CbiQ; cl00463 441772009801 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 441772009802 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 441772009803 Walker A/P-loop; other site 441772009804 ATP binding site [chemical binding]; other site 441772009805 Q-loop/lid; other site 441772009806 ABC transporter signature motif; other site 441772009807 Walker B; other site 441772009808 D-loop; other site 441772009809 H-loop/switch region; other site 441772009810 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 441772009811 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 441772009812 Walker A/P-loop; other site 441772009813 ATP binding site [chemical binding]; other site 441772009814 Q-loop/lid; other site 441772009815 ABC transporter signature motif; other site 441772009816 Walker B; other site 441772009817 D-loop; other site 441772009818 H-loop/switch region; other site 441772009819 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 441772009820 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 441772009821 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 441772009822 alphaNTD homodimer interface [polypeptide binding]; other site 441772009823 alphaNTD - beta interaction site [polypeptide binding]; other site 441772009824 alphaNTD - beta' interaction site [polypeptide binding]; other site 441772009825 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 441772009826 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 441772009827 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 441772009828 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 441772009829 RNA binding surface [nucleotide binding]; other site 441772009830 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 441772009831 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 441772009832 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 441772009833 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 441772009834 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 441772009835 rRNA binding site [nucleotide binding]; other site 441772009836 predicted 30S ribosome binding site; other site 441772009837 Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Region: RPL14A; COG2163 441772009838 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 441772009839 active site 441772009840 adenylate kinase; Reviewed; Region: adk; PRK00279 441772009841 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 441772009842 AMP-binding site [chemical binding]; other site 441772009843 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 441772009844 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 441772009845 SecY translocase; Region: SecY; pfam00344 441772009846 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 441772009847 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 441772009848 23S rRNA binding site [nucleotide binding]; other site 441772009849 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 441772009850 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 441772009851 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 441772009852 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 441772009853 5S rRNA interface [nucleotide binding]; other site 441772009854 L27 interface [polypeptide binding]; other site 441772009855 23S rRNA interface [nucleotide binding]; other site 441772009856 L5 interface [polypeptide binding]; other site 441772009857 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 441772009858 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 441772009859 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 441772009860 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 441772009861 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 441772009862 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 441772009863 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 441772009864 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 441772009865 KOW motif; Region: KOW; cl00354 441772009866 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 441772009867 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 441772009868 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 441772009869 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 441772009870 23S rRNA interface [nucleotide binding]; other site 441772009871 putative translocon interaction site; other site 441772009872 signal recognition particle (SRP54) interaction site; other site 441772009873 L23 interface [polypeptide binding]; other site 441772009874 trigger factor interaction site; other site 441772009875 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 441772009876 23S rRNA interface [nucleotide binding]; other site 441772009877 5S rRNA interface [nucleotide binding]; other site 441772009878 putative antibiotic binding site [chemical binding]; other site 441772009879 L25 interface [polypeptide binding]; other site 441772009880 L27 interface [polypeptide binding]; other site 441772009881 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 441772009882 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 441772009883 G-X-X-G motif; other site 441772009884 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 441772009885 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 441772009886 putative translocon binding site; other site 441772009887 protein-rRNA interface [nucleotide binding]; other site 441772009888 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 441772009889 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 441772009890 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 441772009891 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 441772009892 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 441772009893 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 441772009894 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 441772009895 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 441772009896 elongation factor Tu; Reviewed; Region: PRK00049 441772009897 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 441772009898 G1 box; other site 441772009899 GEF interaction site [polypeptide binding]; other site 441772009900 GTP/Mg2+ binding site [chemical binding]; other site 441772009901 Switch I region; other site 441772009902 G2 box; other site 441772009903 G3 box; other site 441772009904 Switch II region; other site 441772009905 G4 box; other site 441772009906 G5 box; other site 441772009907 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 441772009908 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 441772009909 Antibiotic Binding Site [chemical binding]; other site 441772009910 elongation factor G; Reviewed; Region: PRK00007 441772009911 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 441772009912 G1 box; other site 441772009913 putative GEF interaction site [polypeptide binding]; other site 441772009914 GTP/Mg2+ binding site [chemical binding]; other site 441772009915 Switch I region; other site 441772009916 G2 box; other site 441772009917 G3 box; other site 441772009918 Switch II region; other site 441772009919 G4 box; other site 441772009920 G5 box; other site 441772009921 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 441772009922 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 441772009923 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 441772009924 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 441772009925 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 441772009926 S17 interaction site [polypeptide binding]; other site 441772009927 S8 interaction site; other site 441772009928 16S rRNA interaction site [nucleotide binding]; other site 441772009929 streptomycin interaction site [chemical binding]; other site 441772009930 23S rRNA interaction site [nucleotide binding]; other site 441772009931 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 441772009932 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 441772009933 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 441772009934 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 441772009935 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 441772009936 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 441772009937 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 441772009938 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 441772009939 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 441772009940 G-loop; other site 441772009941 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 441772009942 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 441772009943 DNA binding site [nucleotide binding] 441772009944 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 441772009945 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 441772009946 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; cl04593 441772009947 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 441772009948 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 441772009949 RPB1 interaction site [polypeptide binding]; other site 441772009950 RPB10 interaction site [polypeptide binding]; other site 441772009951 RPB11 interaction site [polypeptide binding]; other site 441772009952 RPB3 interaction site [polypeptide binding]; other site 441772009953 RPB12 interaction site [polypeptide binding]; other site 441772009954 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 441772009955 core dimer interface [polypeptide binding]; other site 441772009956 peripheral dimer interface [polypeptide binding]; other site 441772009957 L10 interface [polypeptide binding]; other site 441772009958 L11 interface [polypeptide binding]; other site 441772009959 putative EF-Tu interaction site [polypeptide binding]; other site 441772009960 putative EF-G interaction site [polypeptide binding]; other site 441772009961 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 441772009962 23S rRNA interface [nucleotide binding]; other site 441772009963 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 441772009964 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 441772009965 mRNA/rRNA interface [nucleotide binding]; other site 441772009966 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 441772009967 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 441772009968 23S rRNA interface [nucleotide binding]; other site 441772009969 L7/L12 interface [polypeptide binding]; other site 441772009970 putative thiostrepton binding site; other site 441772009971 L25 interface [polypeptide binding]; other site 441772009972 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 441772009973 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 441772009974 putative homodimer interface [polypeptide binding]; other site 441772009975 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 441772009976 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 441772009977 elongation factor Tu; Reviewed; Region: PRK00049 441772009978 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 441772009979 G1 box; other site 441772009980 GEF interaction site [polypeptide binding]; other site 441772009981 GTP/Mg2+ binding site [chemical binding]; other site 441772009982 Switch I region; other site 441772009983 G2 box; other site 441772009984 G3 box; other site 441772009985 Switch II region; other site 441772009986 G4 box; other site 441772009987 G5 box; other site 441772009988 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 441772009989 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 441772009990 Antibiotic Binding Site [chemical binding]; other site 441772009991 RNA polymerase factor sigma-70; Validated; Region: PRK08295 441772009992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772009993 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 441772009994 YacP-like NYN domain; Region: NYN_YacP; cl01491 441772009995 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 441772009996 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 441772009997 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 441772009998 Thymidylate synthase complementing protein; Region: Thy1; cl03630 441772009999 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 441772010000 dimerization interface [polypeptide binding]; other site 441772010001 active site 441772010002 metal binding site [ion binding]; metal-binding site 441772010003 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 441772010004 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 441772010005 active site 441772010006 HIGH motif; other site 441772010007 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 441772010008 KMSKS motif; other site 441772010009 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 441772010010 tRNA binding surface [nucleotide binding]; other site 441772010011 anticodon binding site; other site 441772010012 threonine dehydratase; Provisional; Region: PRK08198 441772010013 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 441772010014 tetramer interface [polypeptide binding]; other site 441772010015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772010016 catalytic residue [active] 441772010017 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 441772010018 prolyl-tRNA synthetase; Provisional; Region: PRK09194 441772010019 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 attaches...; Region: class_II_aaRS-like_core; cl00268 441772010020 motif 1; other site 441772010021 dimer interface [polypeptide binding]; other site 441772010022 active site 441772010023 motif 2; other site 441772010024 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 441772010025 putative deacylase active site [active] 441772010026 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 441772010027 anticodon binding site; other site 441772010028 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 441772010029 substrate binding site; other site 441772010030 dimer interface; other site 441772010031 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 441772010032 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 441772010033 putative active site [active] 441772010034 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 441772010035 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 441772010036 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 441772010037 DNA repair protein RadA; Provisional; Region: PRK11823 441772010038 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 441772010039 Walker A motif/ATP binding site; other site 441772010040 ATP binding site [chemical binding]; other site 441772010041 Walker B motif; other site 441772010042 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 441772010043 Clp protease ATP binding subunit; Region: clpC; CHL00095 441772010044 Clp amino terminal domain; Region: Clp_N; pfam02861 441772010045 Clp amino terminal domain; Region: Clp_N; pfam02861 441772010046 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 441772010047 Walker A motif; other site 441772010048 ATP binding site [chemical binding]; other site 441772010049 Walker B motif; other site 441772010050 arginine finger; other site 441772010051 UvrB/uvrC motif; Region: UVR; pfam02151 441772010052 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 441772010053 Walker A motif; other site 441772010054 ATP binding site [chemical binding]; other site 441772010055 Walker B motif; other site 441772010056 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 441772010057 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 441772010058 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 441772010059 ADP binding site [chemical binding]; other site 441772010060 phosphagen binding site; other site 441772010061 substrate specificity loop; other site 441772010062 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 441772010063 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 441772010064 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 441772010065 elongation factor G; Reviewed; Region: PRK12740 441772010066 G1 box; other site 441772010067 putative GEF interaction site [polypeptide binding]; other site 441772010068 GTP/Mg2+ binding site [chemical binding]; other site 441772010069 Switch I region; other site 441772010070 G2 box; other site 441772010071 G3 box; other site 441772010072 Switch II region; other site 441772010073 G4 box; other site 441772010074 G5 box; other site 441772010075 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 441772010076 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 441772010077 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 441772010078 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 441772010079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772010080 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772010081 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; cl09108 441772010082 glycyl-tRNA synthetase; Provisional; Region: PRK04173 441772010083 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 attaches...; Region: class_II_aaRS-like_core; cl00268 441772010084 motif 1; other site 441772010085 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 441772010086 active site 441772010087 motif 2; other site 441772010088 motif 3; other site 441772010089 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 441772010090 anticodon binding site; other site 441772010091 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 441772010092 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 441772010093 dimer interface [polypeptide binding]; other site 441772010094 putative anticodon binding site; other site 441772010095 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 441772010096 motif 1; other site 441772010097 active site 441772010098 motif 2; other site 441772010099 motif 3; other site 441772010100 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 441772010101 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 441772010102 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 441772010103 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 441772010104 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 441772010105 FMN binding site [chemical binding]; other site 441772010106 active site 441772010107 catalytic residues [active] 441772010108 substrate binding site [chemical binding]; other site 441772010109 Type III pantothenate kinase; Region: Pan_kinase; cl09130 441772010110 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 441772010111 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 441772010112 Potassium binding sites [ion binding]; other site 441772010113 Cesium cation binding sites [ion binding]; other site 441772010114 FtsH Extracellular; Region: FtsH_ext; pfam06480 441772010115 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 441772010116 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 441772010117 Walker A motif; other site 441772010118 ATP binding site [chemical binding]; other site 441772010119 Walker B motif; other site 441772010120 arginine finger; other site 441772010121 Peptidase family M41; Region: Peptidase_M41; pfam01434 441772010122 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772010123 active site 441772010124 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 441772010125 Ligand Binding Site [chemical binding]; other site 441772010126 B3/4 domain; Region: B3_4; cl11458 441772010127 stage II sporulation protein E; Region: spore_II_E; TIGR02865 441772010128 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 441772010129 hypothetical protein; Provisional; Region: PRK05807 441772010130 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 441772010131 RNA binding site [nucleotide binding]; other site 441772010132 Septum formation initiator; Region: DivIC; cl11433 441772010133 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 441772010134 YabP family; Region: YabP; cl06766 441772010135 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 441772010136 RNA binding surface [nucleotide binding]; other site 441772010137 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 441772010138 IHF dimer interface [polypeptide binding]; other site 441772010139 IHF - DNA interface [nucleotide binding]; other site 441772010140 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 441772010141 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 441772010142 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 441772010143 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 441772010144 stage V sporulation protein B; Region: spore_V_B; TIGR02900 441772010145 MatE; Region: MatE; cl10513 441772010146 stage V sporulation protein T; Region: spore_V_T; TIGR02851 441772010147 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 441772010148 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 441772010149 SurA N-terminal domain; Region: SurA_N_3; cl07813 441772010150 PPIC-type PPIASE domain; Region: Rotamase; cl08278 441772010151 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 441772010152 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 441772010153 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 441772010154 ATP binding site [chemical binding]; other site 441772010155 putative Mg++ binding site [ion binding]; other site 441772010156 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 441772010157 nucleotide binding region [chemical binding]; other site 441772010158 ATP-binding site [chemical binding]; other site 441772010159 TRCF domain; Region: TRCF; cl04088 441772010160 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 441772010161 putative active site [active] 441772010162 catalytic residue [active] 441772010163 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 441772010164 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 441772010165 protein binding site [polypeptide binding]; other site 441772010166 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 441772010167 dimerization interface [polypeptide binding]; other site 441772010168 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 441772010169 dimer interface [polypeptide binding]; other site 441772010170 phosphorylation site [posttranslational modification] 441772010171 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 441772010172 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 441772010173 ATP binding site [chemical binding]; other site 441772010174 Mg2+ binding site [ion binding]; other site 441772010175 G-X-G motif; other site 441772010176 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772010177 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 441772010178 active site 441772010179 phosphorylation site [posttranslational modification] 441772010180 intermolecular recognition site; other site 441772010181 dimerization interface [polypeptide binding]; other site 441772010182 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 441772010183 DNA binding site [nucleotide binding] 441772010184 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 441772010185 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 441772010186 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772010187 active site 441772010188 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 441772010189 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 441772010190 Substrate binding site; other site 441772010191 Mg++ binding site; other site 441772010192 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 441772010193 active site 441772010194 substrate binding site [chemical binding]; other site 441772010195 CoA binding site [chemical binding]; other site 441772010196 SpoVG; Region: SpoVG; cl00915 441772010197 pur operon repressor; Provisional; Region: PRK09213 441772010198 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 441772010199 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772010200 active site 441772010201 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 441772010202 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 441772010203 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772010204 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772010205 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 441772010206 4Fe-4S binding domain; Region: Fer4; cl02805 441772010207 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772010208 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 441772010209 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 441772010210 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 441772010211 motif II; other site 441772010212 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 441772010213 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 441772010214 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 441772010215 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 441772010216 FeS/SAM binding site; other site 441772010217 Uncharacterized membrane protein [Function unknown]; Region: COG3949 441772010218 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 441772010219 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 441772010220 FeS/SAM binding site; other site 441772010221 Heme NO binding; Region: HNOB; cl15268 441772010222 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772010223 dimer interface [polypeptide binding]; other site 441772010224 putative CheW interface [polypeptide binding]; other site 441772010225 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 441772010226 non-specific DNA binding site [nucleotide binding]; other site 441772010227 salt bridge; other site 441772010228 sequence-specific DNA binding site [nucleotide binding]; other site 441772010229 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 441772010230 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 441772010231 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 441772010232 active site 441772010233 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 441772010234 glutamine synthetase, type I; Region: GlnA; TIGR00653 441772010235 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 441772010236 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 441772010237 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 441772010238 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 441772010239 hinge; other site 441772010240 active site 441772010241 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772010242 Sporulation and spore germination; Region: Germane; cl11253 441772010243 hypothetical protein; Provisional; Region: PRK05590 441772010244 SEC-C motif; Region: SEC-C; pfam02810 441772010245 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 441772010246 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 441772010247 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 441772010248 putative substrate translocation pore; other site 441772010249 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 441772010250 Helix-turn-helix domains; Region: HTH; cl00088 441772010251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772010252 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772010253 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772010254 methionine aminopeptidase; Provisional; Region: PRK12318 441772010255 SEC-C motif; Region: SEC-C; pfam02810 441772010256 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 441772010257 active site 441772010258 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 441772010259 putative FMN binding site [chemical binding]; other site 441772010260 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 441772010261 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772010262 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 441772010263 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 441772010264 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 441772010265 Glycine radical; Region: Gly_radical; cl12026 441772010266 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 441772010267 4Fe-4S binding domain; Region: Fer4; cl02805 441772010268 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 441772010269 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 441772010270 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 441772010271 FeS/SAM binding site; other site 441772010272 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 441772010273 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 441772010274 FeS/SAM binding site; other site 441772010275 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 441772010276 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 441772010277 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 441772010278 G1 box; other site 441772010279 GTP/Mg2+ binding site [chemical binding]; other site 441772010280 Switch I region; other site 441772010281 G2 box; other site 441772010282 Switch II region; other site 441772010283 G3 box; other site 441772010284 Sodium:solute symporter family; Region: SSF; cl00456 441772010285 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 441772010286 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 441772010287 PHP-associated; Region: PHP_C; pfam13263 441772010288 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 441772010289 dUTPase; Region: dUTPase_2; pfam08761 441772010290 Protein of unknown function, DUF606; Region: DUF606; cl01273 441772010291 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772010292 Helix-turn-helix domains; Region: HTH; cl00088 441772010293 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 441772010294 dimerization interface [polypeptide binding]; other site 441772010295 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 441772010296 active site 441772010297 catalytic residues [active] 441772010298 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 441772010299 Helix-turn-helix domains; Region: HTH; cl00088 441772010300 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 441772010301 putative dimerization interface [polypeptide binding]; other site 441772010302 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 441772010303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772010304 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 441772010305 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 441772010306 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 441772010307 biotin carboxylase; Validated; Region: PRK05586 441772010308 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772010309 ATP-grasp domain; Region: ATP-grasp_4; cl03087 441772010310 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 441772010311 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 441772010312 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 441772010313 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 441772010314 carboxyltransferase (CT) interaction site; other site 441772010315 biotinylation site [posttranslational modification]; other site 441772010316 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 441772010317 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 441772010318 dimer interface [polypeptide binding]; other site 441772010319 active site 441772010320 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 441772010321 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 441772010322 NAD(P) binding site [chemical binding]; other site 441772010323 homotetramer interface [polypeptide binding]; other site 441772010324 homodimer interface [polypeptide binding]; other site 441772010325 active site 441772010326 Acyl transferase domain; Region: Acyl_transf_1; cl08282 441772010327 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 441772010328 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 441772010329 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 441772010330 FMN binding site [chemical binding]; other site 441772010331 substrate binding site [chemical binding]; other site 441772010332 putative catalytic residue [active] 441772010333 Phosphopantetheine attachment site; Region: PP-binding; cl09936 441772010334 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 441772010335 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 441772010336 dimer interface [polypeptide binding]; other site 441772010337 active site 441772010338 CoA binding pocket [chemical binding]; other site 441772010339 Helix-turn-helix domains; Region: HTH; cl00088 441772010340 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 441772010341 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 441772010342 FMN binding site [chemical binding]; other site 441772010343 substrate binding site [chemical binding]; other site 441772010344 putative catalytic residue [active] 441772010345 Peptidase family M23; Region: Peptidase_M23; pfam01551 441772010346 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 441772010347 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 441772010348 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 441772010349 DNA replication protein DnaC; Validated; Region: PRK06835 441772010350 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 441772010351 Walker A motif; other site 441772010352 ATP binding site [chemical binding]; other site 441772010353 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 441772010354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772010355 flavoprotein, HI0933 family; Region: TIGR00275 441772010356 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 441772010357 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 441772010358 active site 441772010359 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 441772010360 active site 441772010361 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 441772010362 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 441772010363 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 441772010364 GDP-binding site [chemical binding]; other site 441772010365 ACT binding site; other site 441772010366 IMP binding site; other site 441772010367 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 441772010368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772010369 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 441772010370 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 441772010371 active site 441772010372 substrate binding site [chemical binding]; other site 441772010373 metal binding site [ion binding]; metal-binding site 441772010374 replicative DNA helicase; Provisional; Region: PRK05595 441772010375 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 441772010376 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 441772010377 Walker A motif; other site 441772010378 ATP binding site [chemical binding]; other site 441772010379 Walker B motif; other site 441772010380 DNA binding loops [nucleotide binding] 441772010381 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 441772010382 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 441772010383 Walker A motif; other site 441772010384 ATP binding site [chemical binding]; other site 441772010385 Walker B motif; other site 441772010386 arginine finger; other site 441772010387 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 441772010388 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 441772010389 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 441772010390 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 441772010391 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 441772010392 DHH family; Region: DHH; pfam01368 441772010393 DHHA1 domain; Region: DHHA1; pfam02272 441772010394 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 441772010395 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 441772010396 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 441772010397 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 441772010398 dimer interface [polypeptide binding]; other site 441772010399 ssDNA binding site [nucleotide binding]; other site 441772010400 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772010401 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 441772010402 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 441772010403 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772010404 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 441772010405 Mechanosensitive ion channel; Region: MS_channel; pfam00924 441772010406 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 441772010407 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 441772010408 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 441772010409 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772010410 catalytic residue [active] 441772010411 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 441772010412 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 441772010413 ParB-like partition proteins; Region: parB_part; TIGR00180 441772010414 ParB-like nuclease domain; Region: ParBc; cl02129 441772010415 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 441772010416 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 441772010417 P-loop; other site 441772010418 Magnesium ion binding site [ion binding]; other site 441772010419 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 441772010420 Magnesium ion binding site [ion binding]; other site 441772010421 ParB-like nuclease domain; Region: ParBc; cl02129 441772010422 ParB-like partition proteins; Region: parB_part; TIGR00180 441772010423 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; cl15754 441772010424 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 441772010425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772010426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772010427 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 441772010428 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 441772010429 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 441772010430 trmE is a tRNA modification GTPase; Region: trmE; cd04164 441772010431 G1 box; other site 441772010432 GTP/Mg2+ binding site [chemical binding]; other site 441772010433 Switch I region; other site 441772010434 G2 box; other site 441772010435 Switch II region; other site 441772010436 G3 box; other site 441772010437 G4 box; other site 441772010438 G5 box; other site 441772010439 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 441772010440 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 441772010441 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 441772010442 G-X-X-G motif; other site 441772010443 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 441772010444 RxxxH motif; other site 441772010445 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 441772010446 Haemolytic domain; Region: Haemolytic; cl00506 441772010447 Ribonuclease P; Region: Ribonuclease_P; cl00457 441772010448 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 441772010449 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 441772010450 putative active site [active] 441772010451 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 441772010452 non-specific DNA binding site [nucleotide binding]; other site 441772010453 salt bridge; other site 441772010454 sequence-specific DNA binding site [nucleotide binding]; other site 441772010455 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 441772010456 DNA binding site [nucleotide binding] 441772010457 Int/Topo IB signature motif; other site 441772010458 active site 441772010459 CAAX protease self-immunity; Region: Abi; cl00558 441772010460 Initiator Replication protein; Region: Rep_3; cl03080 441772010461 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 441772010462 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772010463 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772010464 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; cl11399 441772010465 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 441772010466 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 441772010467 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 441772010468 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 441772010469 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 441772010470 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 441772010471 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 441772010472 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 441772010473 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 441772010474 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 441772010475 putative active site [active] 441772010476 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 441772010477 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 441772010478 Walker A/P-loop; other site 441772010479 ATP binding site [chemical binding]; other site 441772010480 Q-loop/lid; other site 441772010481 ABC transporter signature motif; other site 441772010482 Walker B; other site 441772010483 D-loop; other site 441772010484 H-loop/switch region; other site