-- dump date 20140619_042847 -- class Genbank::misc_feature -- table misc_feature_note -- id note 536232000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 536232000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 536232000003 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 536232000004 Walker A motif; other site 536232000005 ATP binding site [chemical binding]; other site 536232000006 Walker B motif; other site 536232000007 arginine finger; other site 536232000008 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 536232000009 DnaA box-binding interface [nucleotide binding]; other site 536232000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 536232000011 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 536232000012 putative DNA binding surface [nucleotide binding]; other site 536232000013 dimer interface [polypeptide binding]; other site 536232000014 beta-clamp/clamp loader binding surface; other site 536232000015 beta-clamp/translesion DNA polymerase binding surface; other site 536232000016 S4 domain; Region: S4_2; pfam13275 536232000017 recombination protein F; Reviewed; Region: recF; PRK00064 536232000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 536232000019 Walker A/P-loop; other site 536232000020 ATP binding site [chemical binding]; other site 536232000021 Q-loop/lid; other site 536232000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232000023 ABC transporter signature motif; other site 536232000024 Walker B; other site 536232000025 D-loop; other site 536232000026 H-loop/switch region; other site 536232000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 536232000028 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 536232000029 Mg2+ binding site [ion binding]; other site 536232000030 G-X-G motif; other site 536232000031 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 536232000032 anchoring element; other site 536232000033 dimer interface [polypeptide binding]; other site 536232000034 ATP binding site [chemical binding]; other site 536232000035 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 536232000036 active site 536232000037 putative metal-binding site [ion binding]; other site 536232000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 536232000039 DNA gyrase subunit A; Validated; Region: PRK05560 536232000040 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 536232000041 CAP-like domain; other site 536232000042 active site 536232000043 primary dimer interface [polypeptide binding]; other site 536232000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536232000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536232000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536232000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536232000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536232000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536232000050 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 536232000051 HTH domain; Region: HTH_11; pfam08279 536232000052 3H domain; Region: 3H; pfam02829 536232000053 Uncharacterized conserved protein [Function unknown]; Region: COG2006 536232000054 Domain of unknown function (DUF362); Region: DUF362; pfam04015 536232000055 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536232000056 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 536232000057 hypothetical protein; Validated; Region: PRK00068 536232000058 Uncharacterized conserved protein [Function unknown]; Region: COG1615 536232000059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 536232000060 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536232000061 Predicted dehydrogenase [General function prediction only]; Region: COG0579 536232000062 hydroxyglutarate oxidase; Provisional; Region: PRK11728 536232000063 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 536232000064 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 536232000065 seryl-tRNA synthetase; Provisional; Region: PRK05431 536232000066 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 536232000067 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 536232000068 dimer interface [polypeptide binding]; other site 536232000069 active site 536232000070 motif 1; other site 536232000071 motif 2; other site 536232000072 motif 3; other site 536232000073 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 536232000074 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 536232000075 ABC1 family; Region: ABC1; cl17513 536232000076 Uncharacterized conserved protein [Function unknown]; Region: COG3937 536232000077 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 536232000078 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 536232000079 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 536232000080 Walker A motif; other site 536232000081 ATP binding site [chemical binding]; other site 536232000082 Walker B motif; other site 536232000083 arginine finger; other site 536232000084 methionine gamma-lyase; Provisional; Region: PRK06234 536232000085 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 536232000086 homodimer interface [polypeptide binding]; other site 536232000087 substrate-cofactor binding pocket; other site 536232000088 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232000089 catalytic residue [active] 536232000090 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 536232000091 nucleoside/Zn binding site; other site 536232000092 dimer interface [polypeptide binding]; other site 536232000093 catalytic motif [active] 536232000094 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 536232000095 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 536232000096 Walker A motif; other site 536232000097 ATP binding site [chemical binding]; other site 536232000098 Walker B motif; other site 536232000099 arginine finger; other site 536232000100 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 536232000101 hypothetical protein; Validated; Region: PRK00153 536232000102 recombination protein RecR; Reviewed; Region: recR; PRK00076 536232000103 RecR protein; Region: RecR; pfam02132 536232000104 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 536232000105 putative active site [active] 536232000106 putative metal-binding site [ion binding]; other site 536232000107 tetramer interface [polypeptide binding]; other site 536232000108 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 536232000109 pro-sigmaK processing inhibitor BofA; Region: spore_BofA; TIGR02862 536232000110 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 536232000111 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 536232000112 putative NADH binding site [chemical binding]; other site 536232000113 putative active site [active] 536232000114 nudix motif; other site 536232000115 putative metal binding site [ion binding]; other site 536232000116 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 536232000117 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 536232000118 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536232000119 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 536232000120 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 536232000121 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 536232000122 putative ATP binding site [chemical binding]; other site 536232000123 putative substrate interface [chemical binding]; other site 536232000124 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 536232000125 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536232000126 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536232000127 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 536232000128 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 536232000129 active site 536232000130 Fe-S cluster binding site [ion binding]; other site 536232000131 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 536232000132 RNA polymerase factor sigma-70; Validated; Region: PRK06811 536232000133 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232000134 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 536232000135 DNA binding residues [nucleotide binding] 536232000136 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 536232000137 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 536232000138 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 536232000139 DltD C-terminal region; Region: DltD_C; pfam04914 536232000140 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 536232000141 SurA N-terminal domain; Region: SurA_N_3; cl07813 536232000142 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 536232000143 NAD-dependent deacetylase; Provisional; Region: PRK00481 536232000144 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 536232000145 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 536232000146 dimer interface [polypeptide binding]; other site 536232000147 catalytic triad [active] 536232000148 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 536232000149 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 536232000150 Cl binding site [ion binding]; other site 536232000151 oligomer interface [polypeptide binding]; other site 536232000152 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 536232000153 amidohydrolase; Region: amidohydrolases; TIGR01891 536232000154 metal binding site [ion binding]; metal-binding site 536232000155 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 536232000156 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 536232000157 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 536232000158 homodimer interface [polypeptide binding]; other site 536232000159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232000160 catalytic residue [active] 536232000161 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 536232000162 thymidylate kinase; Provisional; Region: PRK13975; cl17243 536232000163 Protein of unknown function (DUF970); Region: DUF970; pfam06153 536232000164 DNA polymerase III subunit delta'; Validated; Region: PRK05564 536232000165 DNA polymerase III subunit delta'; Validated; Region: PRK08485 536232000166 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 536232000167 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 536232000168 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 536232000169 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 536232000170 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 536232000171 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 536232000172 S-adenosylmethionine binding site [chemical binding]; other site 536232000173 Predicted methyltransferases [General function prediction only]; Region: COG0313 536232000174 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 536232000175 putative SAM binding site [chemical binding]; other site 536232000176 putative homodimer interface [polypeptide binding]; other site 536232000177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 536232000178 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 536232000179 NlpC/P60 family; Region: NLPC_P60; pfam00877 536232000180 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 536232000181 arginine deiminase; Provisional; Region: PRK01388 536232000182 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 536232000183 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 536232000184 homotrimer interaction site [polypeptide binding]; other site 536232000185 zinc binding site [ion binding]; other site 536232000186 CDP-binding sites; other site 536232000187 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 536232000188 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 536232000189 putative active site [active] 536232000190 putative metal binding site [ion binding]; other site 536232000191 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 536232000192 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 536232000193 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 536232000194 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 536232000195 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 536232000196 Fe-S cluster binding site [ion binding]; other site 536232000197 active site 536232000198 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232000199 MarR family; Region: MarR_2; cl17246 536232000200 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 536232000201 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 536232000202 active site 536232000203 HIGH motif; other site 536232000204 KMSKS motif; other site 536232000205 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 536232000206 anticodon binding site; other site 536232000207 tRNA binding surface [nucleotide binding]; other site 536232000208 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 536232000209 dimer interface [polypeptide binding]; other site 536232000210 putative tRNA-binding site [nucleotide binding]; other site 536232000211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 536232000212 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 536232000213 active site 536232000214 Domain of unknown function (DUF348); Region: DUF348; pfam03990 536232000215 Domain of unknown function (DUF348); Region: DUF348; pfam03990 536232000216 G5 domain; Region: G5; pfam07501 536232000217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 536232000218 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 536232000219 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 536232000220 putative active site [active] 536232000221 putative metal binding site [ion binding]; other site 536232000222 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 536232000223 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 536232000224 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 536232000225 S-adenosylmethionine binding site [chemical binding]; other site 536232000226 ribonuclease Y; Region: RNase_Y; TIGR03319 536232000227 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 536232000228 HlyD family secretion protein; Region: HlyD_3; pfam13437 536232000229 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232000230 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232000231 Walker A/P-loop; other site 536232000232 ATP binding site [chemical binding]; other site 536232000233 Q-loop/lid; other site 536232000234 ABC transporter signature motif; other site 536232000235 Walker B; other site 536232000236 D-loop; other site 536232000237 H-loop/switch region; other site 536232000238 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536232000239 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 536232000240 FtsX-like permease family; Region: FtsX; pfam02687 536232000241 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 536232000242 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232000243 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 536232000244 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 536232000245 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536232000246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536232000247 metal binding site [ion binding]; metal-binding site 536232000248 active site 536232000249 I-site; other site 536232000250 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 536232000251 MgtC family; Region: MgtC; pfam02308 536232000252 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 536232000253 ATP cone domain; Region: ATP-cone; pfam03477 536232000254 Class III ribonucleotide reductase; Region: RNR_III; cd01675 536232000255 effector binding site; other site 536232000256 active site 536232000257 Zn binding site [ion binding]; other site 536232000258 glycine loop; other site 536232000259 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 536232000260 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 536232000261 Predicted transcriptional regulators [Transcription]; Region: COG1695 536232000262 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 536232000263 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 536232000264 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 536232000265 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 536232000266 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 536232000267 HIGH motif; other site 536232000268 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 536232000269 active site 536232000270 KMSKS motif; other site 536232000271 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 536232000272 tRNA binding surface [nucleotide binding]; other site 536232000273 anticodon binding site; other site 536232000274 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536232000275 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536232000276 DNA binding site [nucleotide binding] 536232000277 domain linker motif; other site 536232000278 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 536232000279 AAA domain; Region: AAA_11; pfam13086 536232000280 Part of AAA domain; Region: AAA_19; pfam13245 536232000281 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 536232000282 AAA domain; Region: AAA_12; pfam13087 536232000283 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 536232000284 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 536232000285 Substrate binding site; other site 536232000286 Cupin domain; Region: Cupin_2; cl17218 536232000287 hypothetical protein; Provisional; Region: PRK04194 536232000288 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 536232000289 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 536232000290 Ligand Binding Site [chemical binding]; other site 536232000291 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 536232000292 AIR carboxylase; Region: AIRC; smart01001 536232000293 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 536232000294 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 536232000295 FeS/SAM binding site; other site 536232000296 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 536232000297 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 536232000298 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 536232000299 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 536232000300 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 536232000301 substrate binding site [chemical binding]; other site 536232000302 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 536232000303 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 536232000304 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 536232000305 substrate binding site [chemical binding]; other site 536232000306 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536232000307 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 536232000308 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 536232000309 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 536232000310 active site 536232000311 ATP binding site [chemical binding]; other site 536232000312 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 536232000313 substrate binding site [chemical binding]; other site 536232000314 YabG peptidase U57; Region: Peptidase_U57; pfam05582 536232000315 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 536232000316 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 536232000317 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 536232000318 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 536232000319 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536232000320 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 536232000321 proposed catalytic triad [active] 536232000322 active site nucleophile [active] 536232000323 cyanophycin synthetase; Provisional; Region: PRK14016 536232000324 ATP-grasp domain; Region: ATP-grasp_4; cl17255 536232000325 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536232000326 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536232000327 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 536232000328 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 536232000329 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 536232000330 Spore germination protein; Region: Spore_permease; cl17796 536232000331 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 536232000332 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 536232000333 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 536232000334 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 536232000335 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 536232000336 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 536232000337 germination protein YpeB; Region: spore_YpeB; TIGR02889 536232000338 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 536232000339 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 536232000340 Ligand Binding Site [chemical binding]; other site 536232000341 Domain of unknown function (DUF814); Region: DUF814; pfam05670 536232000342 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 536232000343 CTP synthetase; Validated; Region: pyrG; PRK05380 536232000344 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 536232000345 Catalytic site [active] 536232000346 active site 536232000347 UTP binding site [chemical binding]; other site 536232000348 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 536232000349 active site 536232000350 putative oxyanion hole; other site 536232000351 catalytic triad [active] 536232000352 transcription termination factor Rho; Provisional; Region: rho; PRK09376 536232000353 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 536232000354 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 536232000355 RNA binding site [nucleotide binding]; other site 536232000356 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 536232000357 Walker A motif; other site 536232000358 ATP binding site [chemical binding]; other site 536232000359 Walker B motif; other site 536232000360 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 536232000361 thymidine kinase; Provisional; Region: PRK04296 536232000362 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 536232000363 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 536232000364 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 536232000365 peptide chain release factor 1; Validated; Region: prfA; PRK00591 536232000366 This domain is found in peptide chain release factors; Region: PCRF; smart00937 536232000367 RF-1 domain; Region: RF-1; pfam00472 536232000368 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 536232000369 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 536232000370 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 536232000371 Low molecular weight phosphatase family; Region: LMWPc; cd00115 536232000372 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 536232000373 active site 536232000374 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 536232000375 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232000376 active site 536232000377 Deoxycytidylate deaminase [Nucleotide transport and metabolism]; Region: ComEB; COG2131 536232000378 active site 536232000379 Zn binding site [ion binding]; other site 536232000380 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 536232000381 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 536232000382 Mg++ binding site [ion binding]; other site 536232000383 putative catalytic motif [active] 536232000384 substrate binding site [chemical binding]; other site 536232000385 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 536232000386 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 536232000387 active site 536232000388 homodimer interface [polypeptide binding]; other site 536232000389 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 536232000390 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 536232000391 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 536232000392 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 536232000393 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 536232000394 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 536232000395 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 536232000396 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536232000397 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 536232000398 beta subunit interaction interface [polypeptide binding]; other site 536232000399 Walker A motif; other site 536232000400 ATP binding site [chemical binding]; other site 536232000401 Walker B motif; other site 536232000402 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536232000403 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 536232000404 core domain interface [polypeptide binding]; other site 536232000405 delta subunit interface [polypeptide binding]; other site 536232000406 epsilon subunit interface [polypeptide binding]; other site 536232000407 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 536232000408 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536232000409 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 536232000410 alpha subunit interaction interface [polypeptide binding]; other site 536232000411 Walker A motif; other site 536232000412 ATP binding site [chemical binding]; other site 536232000413 Walker B motif; other site 536232000414 inhibitor binding site; inhibition site 536232000415 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536232000416 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 536232000417 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 536232000418 gamma subunit interface [polypeptide binding]; other site 536232000419 epsilon subunit interface [polypeptide binding]; other site 536232000420 LBP interface [polypeptide binding]; other site 536232000421 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 536232000422 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 536232000423 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 536232000424 hinge; other site 536232000425 active site 536232000426 stage II sporulation protein D; Region: spore_II_D; TIGR02870 536232000427 Stage II sporulation protein; Region: SpoIID; pfam08486 536232000428 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 536232000429 Peptidase family M23; Region: Peptidase_M23; pfam01551 536232000430 Stage III sporulation protein D; Region: SpoIIID; pfam12116 536232000431 rod shape-determining protein Mbl; Provisional; Region: PRK13928 536232000432 MreB and similar proteins; Region: MreB_like; cd10225 536232000433 nucleotide binding site [chemical binding]; other site 536232000434 Mg binding site [ion binding]; other site 536232000435 putative protofilament interaction site [polypeptide binding]; other site 536232000436 RodZ interaction site [polypeptide binding]; other site 536232000437 Protein of unknown function (DUF1256); Region: DUF1256; pfam06866 536232000438 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 536232000439 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 536232000440 Ligand Binding Site [chemical binding]; other site 536232000441 S-adenosylmethionine synthetase; Validated; Region: PRK05250 536232000442 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 536232000443 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 536232000444 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 536232000445 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 536232000446 AAA domain; Region: AAA_30; pfam13604 536232000447 Family description; Region: UvrD_C_2; pfam13538 536232000448 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 536232000449 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 536232000450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232000451 active site 536232000452 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 536232000453 30S subunit binding site; other site 536232000454 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 536232000455 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 536232000456 ATP binding site [chemical binding]; other site 536232000457 putative Mg++ binding site [ion binding]; other site 536232000458 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 536232000459 SEC-C motif; Region: SEC-C; pfam02810 536232000460 peptide chain release factor 2; Provisional; Region: PRK05589 536232000461 PCRF domain; Region: PCRF; pfam03462 536232000462 RF-1 domain; Region: RF-1; pfam00472 536232000463 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 536232000464 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 536232000465 Peptidase family M28; Region: Peptidase_M28; pfam04389 536232000466 metal binding site [ion binding]; metal-binding site 536232000467 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 536232000468 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 536232000469 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 536232000470 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 536232000471 RNA binding site [nucleotide binding]; other site 536232000472 Predicted membrane protein [Function unknown]; Region: COG3601 536232000473 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 536232000474 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 536232000475 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 536232000476 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536232000477 putative active site [active] 536232000478 putative metal binding site [ion binding]; other site 536232000479 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 536232000480 dimerization interface [polypeptide binding]; other site 536232000481 putative DNA binding site [nucleotide binding]; other site 536232000482 putative Zn2+ binding site [ion binding]; other site 536232000483 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 536232000484 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536232000485 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536232000486 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536232000487 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 536232000488 active site residue [active] 536232000489 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 536232000490 CPxP motif; other site 536232000491 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 536232000492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 536232000493 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 536232000494 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 536232000495 synthetase active site [active] 536232000496 NTP binding site [chemical binding]; other site 536232000497 metal binding site [ion binding]; metal-binding site 536232000498 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 536232000499 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 536232000500 HIGH motif; other site 536232000501 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 536232000502 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536232000503 active site 536232000504 KMSKS motif; other site 536232000505 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 536232000506 tRNA binding surface [nucleotide binding]; other site 536232000507 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 536232000508 active site residue [active] 536232000509 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 536232000510 HSP70 interaction site [polypeptide binding]; other site 536232000511 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 536232000512 putative active site [active] 536232000513 putative triphosphate binding site [ion binding]; other site 536232000514 dimer interface [polypeptide binding]; other site 536232000515 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 536232000516 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 536232000517 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 536232000518 intersubunit interface [polypeptide binding]; other site 536232000519 active site 536232000520 zinc binding site [ion binding]; other site 536232000521 Na+ binding site [ion binding]; other site 536232000522 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 536232000523 Predicted membrane protein [Function unknown]; Region: COG2323 536232000524 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 536232000525 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 536232000526 active site 536232000527 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 536232000528 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 536232000529 FOG: CBS domain [General function prediction only]; Region: COG0517 536232000530 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 536232000531 putative lipid kinase; Reviewed; Region: PRK13059 536232000532 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 536232000533 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 536232000534 hypothetical protein; Provisional; Region: PRK00955 536232000535 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 536232000536 ykoK leader 536232000537 PRC-barrel domain; Region: PRC; pfam05239 536232000538 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 536232000539 MgtE intracellular N domain; Region: MgtE_N; smart00924 536232000540 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 536232000541 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 536232000542 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536232000543 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 536232000544 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 536232000545 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 536232000546 dimer interface [polypeptide binding]; other site 536232000547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232000548 catalytic residue [active] 536232000549 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 536232000550 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 536232000551 trimer interface [polypeptide binding]; other site 536232000552 active site 536232000553 substrate binding site [chemical binding]; other site 536232000554 CoA binding site [chemical binding]; other site 536232000555 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 536232000556 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 536232000557 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 536232000558 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536232000559 putative acyl-acceptor binding pocket; other site 536232000560 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 536232000561 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536232000562 minor groove reading motif; other site 536232000563 helix-hairpin-helix signature motif; other site 536232000564 substrate binding pocket [chemical binding]; other site 536232000565 active site 536232000566 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 536232000567 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 536232000568 Malic enzyme, N-terminal domain; Region: malic; pfam00390 536232000569 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 536232000570 putative NAD(P) binding site [chemical binding]; other site 536232000571 competence damage-inducible protein A; Provisional; Region: PRK00549 536232000572 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 536232000573 putative MPT binding site; other site 536232000574 Competence-damaged protein; Region: CinA; pfam02464 536232000575 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 536232000576 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536232000577 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 536232000578 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 536232000579 putative oligomer interface [polypeptide binding]; other site 536232000580 putative active site [active] 536232000581 metal binding site [ion binding]; metal-binding site 536232000582 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 536232000583 VanW like protein; Region: VanW; pfam04294 536232000584 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 536232000585 VanW like protein; Region: VanW; pfam04294 536232000586 G5 domain; Region: G5; pfam07501 536232000587 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 536232000588 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 536232000589 FeS/SAM binding site; other site 536232000590 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 536232000591 EDD domain protein, DegV family; Region: DegV; TIGR00762 536232000592 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 536232000593 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 536232000594 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 536232000595 ligand binding site [chemical binding]; other site 536232000596 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 536232000597 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536232000598 Walker A/P-loop; other site 536232000599 ATP binding site [chemical binding]; other site 536232000600 Q-loop/lid; other site 536232000601 ABC transporter signature motif; other site 536232000602 Walker B; other site 536232000603 D-loop; other site 536232000604 H-loop/switch region; other site 536232000605 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536232000606 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536232000607 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 536232000608 TM-ABC transporter signature motif; other site 536232000609 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536232000610 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 536232000611 TM-ABC transporter signature motif; other site 536232000612 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 536232000613 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 536232000614 NodB motif; other site 536232000615 active site 536232000616 catalytic site [active] 536232000617 Zn binding site [ion binding]; other site 536232000618 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 536232000619 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 536232000620 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 536232000621 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 536232000622 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 536232000623 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 536232000624 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 536232000625 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 536232000626 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 536232000627 Phosphoglycerate kinase; Region: PGK; pfam00162 536232000628 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 536232000629 substrate binding site [chemical binding]; other site 536232000630 hinge regions; other site 536232000631 ADP binding site [chemical binding]; other site 536232000632 catalytic site [active] 536232000633 triosephosphate isomerase; Provisional; Region: PRK14567 536232000634 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 536232000635 substrate binding site [chemical binding]; other site 536232000636 dimer interface [polypeptide binding]; other site 536232000637 catalytic triad [active] 536232000638 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 536232000639 phosphoglyceromutase; Provisional; Region: PRK05434 536232000640 enolase; Provisional; Region: eno; PRK00077 536232000641 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 536232000642 dimer interface [polypeptide binding]; other site 536232000643 metal binding site [ion binding]; metal-binding site 536232000644 substrate binding pocket [chemical binding]; other site 536232000645 Preprotein translocase SecG subunit; Region: SecG; pfam03840 536232000646 ribonuclease R; Region: RNase_R; TIGR02063 536232000647 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 536232000648 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 536232000649 RNB domain; Region: RNB; pfam00773 536232000650 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 536232000651 RNA binding site [nucleotide binding]; other site 536232000652 stationary phase survival protein SurE; Provisional; Region: PRK13933 536232000653 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 536232000654 SmpB-tmRNA interface; other site 536232000655 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 536232000656 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536232000657 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536232000658 FAD binding domain; Region: FAD_binding_4; pfam01565 536232000659 Berberine and berberine like; Region: BBE; pfam08031 536232000660 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536232000661 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 536232000662 S-adenosylmethionine binding site [chemical binding]; other site 536232000663 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536232000664 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 536232000665 ligand binding site [chemical binding]; other site 536232000666 flexible hinge region; other site 536232000667 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 536232000668 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 536232000669 phosphate binding site [ion binding]; other site 536232000670 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 536232000671 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232000672 catalytic residue [active] 536232000673 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 536232000674 active site 536232000675 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232000676 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 536232000677 active site 536232000678 phosphorylation site [posttranslational modification] 536232000679 intermolecular recognition site; other site 536232000680 dimerization interface [polypeptide binding]; other site 536232000681 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 536232000682 DNA binding site [nucleotide binding] 536232000683 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232000684 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 536232000685 Walker A/P-loop; other site 536232000686 ATP binding site [chemical binding]; other site 536232000687 Q-loop/lid; other site 536232000688 ABC transporter signature motif; other site 536232000689 Walker B; other site 536232000690 D-loop; other site 536232000691 H-loop/switch region; other site 536232000692 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 536232000693 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232000694 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232000695 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 536232000696 phosphorylation site [posttranslational modification] 536232000697 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 536232000698 ATP binding site [chemical binding]; other site 536232000699 Mg2+ binding site [ion binding]; other site 536232000700 G-X-G motif; other site 536232000701 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 536232000702 Lysine riboswitch 536232000703 lysine transporter; Provisional; Region: PRK10836 536232000704 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232000705 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536232000706 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 536232000707 active site 536232000708 catalytic motif [active] 536232000709 Zn binding site [ion binding]; other site 536232000710 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232000711 Coenzyme A binding pocket [chemical binding]; other site 536232000712 RibD C-terminal domain; Region: RibD_C; cl17279 536232000713 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 536232000714 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 536232000715 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 536232000716 active site 536232000717 catalytic site [active] 536232000718 substrate binding site [chemical binding]; other site 536232000719 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 536232000720 Dimer interface [polypeptide binding]; other site 536232000721 Isochorismatase family; Region: Isochorismatase; pfam00857 536232000722 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 536232000723 catalytic triad [active] 536232000724 conserved cis-peptide bond; other site 536232000725 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 536232000726 SpoVA protein; Region: SpoVA; cl04298 536232000727 stage V sporulation protein AD; Provisional; Region: PRK12404 536232000728 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 536232000729 SpoVA protein; Region: SpoVA; cl04298 536232000730 Predicted membrane protein [Function unknown]; Region: COG2323 536232000731 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 536232000732 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 536232000733 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 536232000734 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 536232000735 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 536232000736 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 536232000737 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536232000738 catalytic residues [active] 536232000739 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 536232000740 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 536232000741 active site 536232000742 phosphorylation site [posttranslational modification] 536232000743 intermolecular recognition site; other site 536232000744 dimerization interface [polypeptide binding]; other site 536232000745 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 536232000746 DNA binding site [nucleotide binding] 536232000747 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232000748 HAMP domain; Region: HAMP; pfam00672 536232000749 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 536232000750 dimer interface [polypeptide binding]; other site 536232000751 phosphorylation site [posttranslational modification] 536232000752 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 536232000753 ATP binding site [chemical binding]; other site 536232000754 Mg2+ binding site [ion binding]; other site 536232000755 G-X-G motif; other site 536232000756 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536232000757 FAD binding domain; Region: FAD_binding_4; pfam01565 536232000758 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 536232000759 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 536232000760 NAD binding site [chemical binding]; other site 536232000761 sugar binding site [chemical binding]; other site 536232000762 divalent metal binding site [ion binding]; other site 536232000763 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 536232000764 dimer interface [polypeptide binding]; other site 536232000765 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 536232000766 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232000767 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 536232000768 active site turn [active] 536232000769 phosphorylation site [posttranslational modification] 536232000770 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536232000771 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536232000772 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 536232000773 putative active site [active] 536232000774 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536232000775 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536232000776 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 536232000777 putative active site [active] 536232000778 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 536232000779 HPr interaction site; other site 536232000780 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536232000781 active site 536232000782 phosphorylation site [posttranslational modification] 536232000783 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232000784 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 536232000785 active site 536232000786 phosphorylation site [posttranslational modification] 536232000787 intermolecular recognition site; other site 536232000788 dimerization interface [polypeptide binding]; other site 536232000789 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 536232000790 DNA binding site [nucleotide binding] 536232000791 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232000792 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 536232000793 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 536232000794 ATP binding site [chemical binding]; other site 536232000795 Mg2+ binding site [ion binding]; other site 536232000796 G-X-G motif; other site 536232000797 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232000798 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232000799 Walker A/P-loop; other site 536232000800 ATP binding site [chemical binding]; other site 536232000801 Q-loop/lid; other site 536232000802 ABC transporter signature motif; other site 536232000803 Walker B; other site 536232000804 D-loop; other site 536232000805 H-loop/switch region; other site 536232000806 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 536232000807 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232000808 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 536232000809 active site turn [active] 536232000810 phosphorylation site [posttranslational modification] 536232000811 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 536232000812 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 536232000813 NAD binding site [chemical binding]; other site 536232000814 sugar binding site [chemical binding]; other site 536232000815 divalent metal binding site [ion binding]; other site 536232000816 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 536232000817 dimer interface [polypeptide binding]; other site 536232000818 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 536232000819 HPr interaction site; other site 536232000820 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536232000821 active site 536232000822 phosphorylation site [posttranslational modification] 536232000823 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536232000824 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 536232000825 putative active site [active] 536232000826 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536232000827 DNA-binding site [nucleotide binding]; DNA binding site 536232000828 RNA-binding motif; other site 536232000829 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 536232000830 Predicted transcriptional regulator [Transcription]; Region: COG1959 536232000831 Transcriptional regulator; Region: Rrf2; pfam02082 536232000832 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 536232000833 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 536232000834 catalytic residues [active] 536232000835 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 536232000836 NADH(P)-binding; Region: NAD_binding_10; pfam13460 536232000837 NAD binding site [chemical binding]; other site 536232000838 substrate binding site [chemical binding]; other site 536232000839 putative active site [active] 536232000840 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536232000841 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536232000842 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 536232000843 putative active site [active] 536232000844 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 536232000845 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232000846 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 536232000847 active site turn [active] 536232000848 phosphorylation site [posttranslational modification] 536232000849 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 536232000850 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 536232000851 NAD binding site [chemical binding]; other site 536232000852 sugar binding site [chemical binding]; other site 536232000853 divalent metal binding site [ion binding]; other site 536232000854 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 536232000855 dimer interface [polypeptide binding]; other site 536232000856 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 536232000857 HPr interaction site; other site 536232000858 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536232000859 active site 536232000860 phosphorylation site [posttranslational modification] 536232000861 Dehydratase family; Region: ILVD_EDD; pfam00920 536232000862 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 536232000863 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 536232000864 active site 536232000865 intersubunit interface [polypeptide binding]; other site 536232000866 catalytic residue [active] 536232000867 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536232000868 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 536232000869 substrate binding site [chemical binding]; other site 536232000870 ATP binding site [chemical binding]; other site 536232000871 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 536232000872 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 536232000873 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 536232000874 active site 536232000875 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 536232000876 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232000877 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 536232000878 active site 536232000879 phosphorylation site [posttranslational modification] 536232000880 intermolecular recognition site; other site 536232000881 dimerization interface [polypeptide binding]; other site 536232000882 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 536232000883 DNA binding site [nucleotide binding] 536232000884 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232000885 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 536232000886 dimerization interface [polypeptide binding]; other site 536232000887 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 536232000888 dimer interface [polypeptide binding]; other site 536232000889 phosphorylation site [posttranslational modification] 536232000890 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 536232000891 ATP binding site [chemical binding]; other site 536232000892 Mg2+ binding site [ion binding]; other site 536232000893 G-X-G motif; other site 536232000894 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 536232000895 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 536232000896 Ligand binding site; other site 536232000897 Putative Catalytic site; other site 536232000898 DXD motif; other site 536232000899 Predicted membrane protein [Function unknown]; Region: COG2246 536232000900 GtrA-like protein; Region: GtrA; pfam04138 536232000901 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 536232000902 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 536232000903 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 536232000904 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232000905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232000906 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 536232000907 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 536232000908 intersubunit interface [polypeptide binding]; other site 536232000909 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536232000910 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536232000911 Walker A/P-loop; other site 536232000912 ATP binding site [chemical binding]; other site 536232000913 Q-loop/lid; other site 536232000914 ABC transporter signature motif; other site 536232000915 Walker B; other site 536232000916 D-loop; other site 536232000917 H-loop/switch region; other site 536232000918 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 536232000919 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 536232000920 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 536232000921 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 536232000922 Thioesterase domain; Region: Thioesterase; pfam00975 536232000923 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 536232000924 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 536232000925 active site 536232000926 phosphorylation site [posttranslational modification] 536232000927 intermolecular recognition site; other site 536232000928 dimerization interface [polypeptide binding]; other site 536232000929 LytTr DNA-binding domain; Region: LytTR; smart00850 536232000930 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 536232000931 Condensation domain; Region: Condensation; pfam00668 536232000932 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536232000933 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536232000934 acyl-activating enzyme (AAE) consensus motif; other site 536232000935 AMP binding site [chemical binding]; other site 536232000936 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232000937 Condensation domain; Region: Condensation; pfam00668 536232000938 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 536232000939 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 536232000940 tetramerization interface [polypeptide binding]; other site 536232000941 active site 536232000942 potential frameshift: common BLAST hit: gi|220929793|ref|YP_002506702.1| cyclic peptide transporter 536232000943 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 536232000944 Beta-lactamase; Region: Beta-lactamase; pfam00144 536232000945 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 536232000946 Condensation domain; Region: Condensation; pfam00668 536232000947 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536232000948 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536232000949 acyl-activating enzyme (AAE) consensus motif; other site 536232000950 AMP binding site [chemical binding]; other site 536232000951 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232000952 Condensation domain; Region: Condensation; pfam00668 536232000953 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536232000954 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536232000955 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 536232000956 acyl-activating enzyme (AAE) consensus motif; other site 536232000957 AMP binding site [chemical binding]; other site 536232000958 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232000959 Condensation domain; Region: Condensation; pfam00668 536232000960 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536232000961 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536232000962 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536232000963 acyl-activating enzyme (AAE) consensus motif; other site 536232000964 AMP binding site [chemical binding]; other site 536232000965 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232000966 Condensation domain; Region: Condensation; pfam00668 536232000967 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536232000968 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536232000969 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536232000970 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536232000971 acyl-activating enzyme (AAE) consensus motif; other site 536232000972 AMP binding site [chemical binding]; other site 536232000973 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232000974 Condensation domain; Region: Condensation; pfam00668 536232000975 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 536232000976 Condensation domain; Region: Condensation; pfam00668 536232000977 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536232000978 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 536232000979 acyl-activating enzyme (AAE) consensus motif; other site 536232000980 AMP binding site [chemical binding]; other site 536232000981 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232000982 Condensation domain; Region: Condensation; pfam00668 536232000983 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536232000984 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536232000985 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536232000986 acyl-activating enzyme (AAE) consensus motif; other site 536232000987 AMP binding site [chemical binding]; other site 536232000988 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232000989 Condensation domain; Region: Condensation; pfam00668 536232000990 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 536232000991 Condensation domain; Region: Condensation; pfam00668 536232000992 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536232000993 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536232000994 acyl-activating enzyme (AAE) consensus motif; other site 536232000995 AMP binding site [chemical binding]; other site 536232000996 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232000997 Condensation domain; Region: Condensation; pfam00668 536232000998 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 536232000999 Condensation domain; Region: Condensation; pfam00668 536232001000 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536232001001 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536232001002 acyl-activating enzyme (AAE) consensus motif; other site 536232001003 AMP binding site [chemical binding]; other site 536232001004 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232001005 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 536232001006 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 536232001007 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 536232001008 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536232001009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232001010 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 536232001011 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 536232001012 intersubunit interface [polypeptide binding]; other site 536232001013 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536232001014 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 536232001015 ABC-ATPase subunit interface; other site 536232001016 dimer interface [polypeptide binding]; other site 536232001017 putative PBP binding regions; other site 536232001018 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 536232001019 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 536232001020 ABC-ATPase subunit interface; other site 536232001021 dimer interface [polypeptide binding]; other site 536232001022 putative PBP binding regions; other site 536232001023 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536232001024 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536232001025 Walker A/P-loop; other site 536232001026 ATP binding site [chemical binding]; other site 536232001027 Q-loop/lid; other site 536232001028 ABC transporter signature motif; other site 536232001029 Walker B; other site 536232001030 D-loop; other site 536232001031 H-loop/switch region; other site 536232001032 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232001033 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232001034 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 536232001035 Walker A/P-loop; other site 536232001036 ATP binding site [chemical binding]; other site 536232001037 Q-loop/lid; other site 536232001038 ABC transporter signature motif; other site 536232001039 Walker B; other site 536232001040 D-loop; other site 536232001041 H-loop/switch region; other site 536232001042 xanthine permease; Region: pbuX; TIGR03173 536232001043 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232001044 active site 536232001045 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232001046 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 536232001047 active site 536232001048 phosphorylation site [posttranslational modification] 536232001049 intermolecular recognition site; other site 536232001050 dimerization interface [polypeptide binding]; other site 536232001051 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 536232001052 DNA binding site [nucleotide binding] 536232001053 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232001054 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 536232001055 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 536232001056 ATP binding site [chemical binding]; other site 536232001057 Mg2+ binding site [ion binding]; other site 536232001058 G-X-G motif; other site 536232001059 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 536232001060 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232001061 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232001062 Walker A/P-loop; other site 536232001063 ATP binding site [chemical binding]; other site 536232001064 Q-loop/lid; other site 536232001065 ABC transporter signature motif; other site 536232001066 Walker B; other site 536232001067 D-loop; other site 536232001068 H-loop/switch region; other site 536232001069 FtsX-like permease family; Region: FtsX; pfam02687 536232001070 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 536232001071 active site 536232001072 NTP binding site [chemical binding]; other site 536232001073 metal binding triad [ion binding]; metal-binding site 536232001074 antibiotic binding site [chemical binding]; other site 536232001075 LrgA family; Region: LrgA; pfam03788 536232001076 LrgB-like family; Region: LrgB; pfam04172 536232001077 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 536232001078 Radical SAM superfamily; Region: Radical_SAM; pfam04055 536232001079 FeS/SAM binding site; other site 536232001080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 536232001081 hypothetical protein; Provisional; Region: PRK13663 536232001082 Accessory gene regulator B; Region: AgrB; pfam04647 536232001083 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 536232001084 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 536232001085 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536232001086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536232001087 metal binding site [ion binding]; metal-binding site 536232001088 active site 536232001089 I-site; other site 536232001090 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 536232001091 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232001092 Zn2+ binding site [ion binding]; other site 536232001093 Mg2+ binding site [ion binding]; other site 536232001094 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 536232001095 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536232001096 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 536232001097 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 536232001098 PAS domain; Region: PAS; smart00091 536232001099 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 536232001100 dimer interface [polypeptide binding]; other site 536232001101 phosphorylation site [posttranslational modification] 536232001102 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 536232001103 ATP binding site [chemical binding]; other site 536232001104 Mg2+ binding site [ion binding]; other site 536232001105 G-X-G motif; other site 536232001106 Accessory gene regulator B; Region: AgrB; pfam04647 536232001107 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 536232001108 PAS domain S-box; Region: sensory_box; TIGR00229 536232001109 PAS domain; Region: PAS_8; pfam13188 536232001110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232001111 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 536232001112 dimer interface [polypeptide binding]; other site 536232001113 phosphorylation site [posttranslational modification] 536232001114 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 536232001115 ATP binding site [chemical binding]; other site 536232001116 Mg2+ binding site [ion binding]; other site 536232001117 G-X-G motif; other site 536232001118 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 536232001119 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 536232001120 Ligand Binding Site [chemical binding]; other site 536232001121 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 536232001122 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 536232001123 non-specific DNA binding site [nucleotide binding]; other site 536232001124 salt bridge; other site 536232001125 sequence-specific DNA binding site [nucleotide binding]; other site 536232001126 Cupin domain; Region: Cupin_2; pfam07883 536232001127 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 536232001128 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 536232001129 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 536232001130 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 536232001131 active site 536232001132 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 536232001133 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 536232001134 putative catalytic cysteine [active] 536232001135 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 536232001136 putative active site [active] 536232001137 metal binding site [ion binding]; metal-binding site 536232001138 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 536232001139 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 536232001140 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 536232001141 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 536232001142 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 536232001143 active site 536232001144 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 536232001145 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 536232001146 NodB motif; other site 536232001147 active site 536232001148 catalytic site [active] 536232001149 Zn binding site [ion binding]; other site 536232001150 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232001151 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 536232001152 active site 536232001153 phosphorylation site [posttranslational modification] 536232001154 intermolecular recognition site; other site 536232001155 dimerization interface [polypeptide binding]; other site 536232001156 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 536232001157 DNA binding site [nucleotide binding] 536232001158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232001159 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 536232001160 dimerization interface [polypeptide binding]; other site 536232001161 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 536232001162 dimer interface [polypeptide binding]; other site 536232001163 phosphorylation site [posttranslational modification] 536232001164 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 536232001165 ATP binding site [chemical binding]; other site 536232001166 Mg2+ binding site [ion binding]; other site 536232001167 G-X-G motif; other site 536232001168 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536232001169 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 536232001170 Uncharacterized conserved protein [Function unknown]; Region: COG0398 536232001171 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 536232001172 CHASE4 domain; Region: CHASE4; pfam05228 536232001173 PAS domain; Region: PAS_9; pfam13426 536232001174 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536232001175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536232001176 metal binding site [ion binding]; metal-binding site 536232001177 active site 536232001178 I-site; other site 536232001179 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 536232001180 Putative amidase domain; Region: Amidase_6; pfam12671 536232001181 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 536232001182 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 536232001183 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 536232001184 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 536232001185 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 536232001186 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 536232001187 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 536232001188 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232001189 catalytic residue [active] 536232001190 Predicted membrane protein [Function unknown]; Region: COG2855 536232001191 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 536232001192 active site 536232001193 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232001194 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 536232001195 active site 536232001196 phosphorylation site [posttranslational modification] 536232001197 intermolecular recognition site; other site 536232001198 dimerization interface [polypeptide binding]; other site 536232001199 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 536232001200 DNA binding site [nucleotide binding] 536232001201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232001202 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 536232001203 dimerization interface [polypeptide binding]; other site 536232001204 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 536232001205 dimer interface [polypeptide binding]; other site 536232001206 phosphorylation site [posttranslational modification] 536232001207 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 536232001208 ATP binding site [chemical binding]; other site 536232001209 Mg2+ binding site [ion binding]; other site 536232001210 G-X-G motif; other site 536232001211 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 536232001212 Na binding site [ion binding]; other site 536232001213 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 536232001214 SLBB domain; Region: SLBB; pfam10531 536232001215 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 536232001216 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 536232001217 FMN-binding domain; Region: FMN_bind; cl01081 536232001218 electron transport complex RsxE subunit; Provisional; Region: PRK12405 536232001219 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 536232001220 ferredoxin; Validated; Region: PRK07118 536232001221 CheD chemotactic sensory transduction; Region: CheD; cl00810 536232001222 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536232001223 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001224 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001225 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001226 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 536232001227 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 536232001228 trimer interface [polypeptide binding]; other site 536232001229 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 536232001230 ApbE family; Region: ApbE; pfam02424 536232001231 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001232 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001233 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001234 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001235 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001236 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001237 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001238 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001239 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001240 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 536232001241 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 536232001242 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 536232001243 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 536232001244 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001245 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001246 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001247 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 536232001248 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 536232001249 Acyltransferase family; Region: Acyl_transf_3; pfam01757 536232001250 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 536232001251 Bacterial Ig-like domain; Region: Big_5; pfam13205 536232001252 PBP superfamily domain; Region: PBP_like_2; cl17296 536232001253 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 536232001254 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232001255 dimer interface [polypeptide binding]; other site 536232001256 conserved gate region; other site 536232001257 putative PBP binding loops; other site 536232001258 ABC-ATPase subunit interface; other site 536232001259 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 536232001260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232001261 dimer interface [polypeptide binding]; other site 536232001262 conserved gate region; other site 536232001263 putative PBP binding loops; other site 536232001264 ABC-ATPase subunit interface; other site 536232001265 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 536232001266 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 536232001267 Walker A/P-loop; other site 536232001268 ATP binding site [chemical binding]; other site 536232001269 Q-loop/lid; other site 536232001270 ABC transporter signature motif; other site 536232001271 Walker B; other site 536232001272 D-loop; other site 536232001273 H-loop/switch region; other site 536232001274 Soluble P-type ATPase [General function prediction only]; Region: COG4087 536232001275 amino acid transporter; Region: 2A0306; TIGR00909 536232001276 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 536232001277 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 536232001278 Protein of unknown function DUF45; Region: DUF45; pfam01863 536232001279 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 536232001280 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 536232001281 dimer interface [polypeptide binding]; other site 536232001282 ssDNA binding site [nucleotide binding]; other site 536232001283 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536232001284 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536232001285 metal binding site 2 [ion binding]; metal-binding site 536232001286 putative DNA binding helix; other site 536232001287 metal binding site 1 [ion binding]; metal-binding site 536232001288 dimer interface [polypeptide binding]; other site 536232001289 structural Zn2+ binding site [ion binding]; other site 536232001290 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 536232001291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232001292 Zn2+ binding site [ion binding]; other site 536232001293 Mg2+ binding site [ion binding]; other site 536232001294 Rhomboid family; Region: Rhomboid; pfam01694 536232001295 Cache domain; Region: Cache_1; pfam02743 536232001296 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 536232001297 dimerization interface [polypeptide binding]; other site 536232001298 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232001299 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232001300 dimer interface [polypeptide binding]; other site 536232001301 putative CheW interface [polypeptide binding]; other site 536232001302 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 536232001303 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 536232001304 Walker A motif; other site 536232001305 ATP binding site [chemical binding]; other site 536232001306 Walker B motif; other site 536232001307 arginine finger; other site 536232001308 Peptidase family M41; Region: Peptidase_M41; pfam01434 536232001309 Uncharacterized conserved protein [Function unknown]; Region: COG3339 536232001310 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 536232001311 RNA/DNA hybrid binding site [nucleotide binding]; other site 536232001312 active site 536232001313 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232001314 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 536232001315 non-specific DNA binding site [nucleotide binding]; other site 536232001316 salt bridge; other site 536232001317 sequence-specific DNA binding site [nucleotide binding]; other site 536232001318 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536232001319 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 536232001320 binding surface 536232001321 TPR motif; other site 536232001322 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536232001323 Helix-turn-helix domain; Region: HTH_19; pfam12844 536232001324 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536232001325 DJ-1 family protein; Region: not_thiJ; TIGR01383 536232001326 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 536232001327 conserved cys residue [active] 536232001328 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 536232001329 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 536232001330 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 536232001331 Clp amino terminal domain; Region: Clp_N; pfam02861 536232001332 Clp amino terminal domain; Region: Clp_N; pfam02861 536232001333 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 536232001334 Walker A motif; other site 536232001335 ATP binding site [chemical binding]; other site 536232001336 Walker B motif; other site 536232001337 arginine finger; other site 536232001338 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 536232001339 Walker A motif; other site 536232001340 ATP binding site [chemical binding]; other site 536232001341 Walker B motif; other site 536232001342 arginine finger; other site 536232001343 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536232001344 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 536232001345 catalytic triad [active] 536232001346 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 536232001347 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536232001348 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 536232001349 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 536232001350 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 536232001351 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 536232001352 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 536232001353 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 536232001354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 536232001355 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 536232001356 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536232001357 putative acyl-acceptor binding pocket; other site 536232001358 isopropylmalate/citramalate/homocitrate synthases; Region: LEU1_arch; TIGR02090 536232001359 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 536232001360 active site 536232001361 catalytic residues [active] 536232001362 metal binding site [ion binding]; metal-binding site 536232001363 aconitate hydratase; Validated; Region: PRK07229 536232001364 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 536232001365 substrate binding site [chemical binding]; other site 536232001366 ligand binding site [chemical binding]; other site 536232001367 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 536232001368 substrate binding site [chemical binding]; other site 536232001369 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 536232001370 tartrate dehydrogenase; Region: TTC; TIGR02089 536232001371 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536232001372 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536232001373 Walker A/P-loop; other site 536232001374 ATP binding site [chemical binding]; other site 536232001375 Q-loop/lid; other site 536232001376 ABC transporter signature motif; other site 536232001377 Walker B; other site 536232001378 D-loop; other site 536232001379 H-loop/switch region; other site 536232001380 Lysine riboswitch 536232001381 Permease; Region: Permease; cl00510 536232001382 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 536232001383 Uncharacterized conserved protein [Function unknown]; Region: COG2155 536232001384 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 536232001385 tetramerization interface [polypeptide binding]; other site 536232001386 active site 536232001387 Pantoate-beta-alanine ligase; Region: PanC; cd00560 536232001388 pantoate--beta-alanine ligase; Region: panC; TIGR00018 536232001389 active site 536232001390 ATP-binding site [chemical binding]; other site 536232001391 pantoate-binding site; other site 536232001392 HXXH motif; other site 536232001393 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 536232001394 oligomerization interface [polypeptide binding]; other site 536232001395 active site 536232001396 metal binding site [ion binding]; metal-binding site 536232001397 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 536232001398 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 536232001399 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 536232001400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232001401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232001402 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232001403 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 536232001404 4Fe-4S binding domain; Region: Fer4; pfam00037 536232001405 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 536232001406 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536232001407 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 536232001408 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 536232001409 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 536232001410 Family description; Region: UvrD_C_2; pfam13538 536232001411 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 536232001412 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 536232001413 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232001414 dimer interface [polypeptide binding]; other site 536232001415 putative CheW interface [polypeptide binding]; other site 536232001416 peptidase T; Region: peptidase-T; TIGR01882 536232001417 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 536232001418 metal binding site [ion binding]; metal-binding site 536232001419 dimer interface [polypeptide binding]; other site 536232001420 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 536232001421 active site 536232001422 nucleophile elbow; other site 536232001423 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232001424 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 536232001425 active site 536232001426 metal binding site [ion binding]; metal-binding site 536232001427 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536232001428 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232001429 Coenzyme A binding pocket [chemical binding]; other site 536232001430 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001431 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001432 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232001433 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536232001434 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232001435 dimer interface [polypeptide binding]; other site 536232001436 conserved gate region; other site 536232001437 putative PBP binding loops; other site 536232001438 ABC-ATPase subunit interface; other site 536232001439 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536232001440 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 536232001441 substrate binding pocket [chemical binding]; other site 536232001442 membrane-bound complex binding site; other site 536232001443 hinge residues; other site 536232001444 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 536232001445 S-adenosylmethionine binding site [chemical binding]; other site 536232001446 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 536232001447 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 536232001448 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 536232001449 thiamine phosphate binding site [chemical binding]; other site 536232001450 active site 536232001451 pyrophosphate binding site [ion binding]; other site 536232001452 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 536232001453 substrate binding site [chemical binding]; other site 536232001454 multimerization interface [polypeptide binding]; other site 536232001455 ATP binding site [chemical binding]; other site 536232001456 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 536232001457 dimer interface [polypeptide binding]; other site 536232001458 substrate binding site [chemical binding]; other site 536232001459 ATP binding site [chemical binding]; other site 536232001460 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 536232001461 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 536232001462 ATP-grasp domain; Region: ATP-grasp_4; cl17255 536232001463 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536232001464 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 536232001465 dimerization interface [polypeptide binding]; other site 536232001466 ligand binding site [chemical binding]; other site 536232001467 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536232001468 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 536232001469 TM-ABC transporter signature motif; other site 536232001470 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 536232001471 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 536232001472 TM-ABC transporter signature motif; other site 536232001473 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536232001474 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 536232001475 Walker A/P-loop; other site 536232001476 ATP binding site [chemical binding]; other site 536232001477 Q-loop/lid; other site 536232001478 ABC transporter signature motif; other site 536232001479 Walker B; other site 536232001480 D-loop; other site 536232001481 H-loop/switch region; other site 536232001482 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536232001483 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 536232001484 Walker A/P-loop; other site 536232001485 ATP binding site [chemical binding]; other site 536232001486 Q-loop/lid; other site 536232001487 ABC transporter signature motif; other site 536232001488 Walker B; other site 536232001489 D-loop; other site 536232001490 H-loop/switch region; other site 536232001491 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 536232001492 Uncharacterized conserved protein [Function unknown]; Region: COG2966 536232001493 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 536232001494 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 536232001495 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 536232001496 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232001497 DNA-binding site [nucleotide binding]; DNA binding site 536232001498 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 536232001499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232001500 homodimer interface [polypeptide binding]; other site 536232001501 catalytic residue [active] 536232001502 LemA family; Region: LemA; cl00742 536232001503 Repair protein; Region: Repair_PSII; pfam04536 536232001504 Repair protein; Region: Repair_PSII; pfam04536 536232001505 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 536232001506 nudix motif; other site 536232001507 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 536232001508 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536232001509 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536232001510 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 536232001511 S-adenosylmethionine binding site [chemical binding]; other site 536232001512 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 536232001513 salt bridge; other site 536232001514 non-specific DNA binding site [nucleotide binding]; other site 536232001515 sequence-specific DNA binding site [nucleotide binding]; other site 536232001516 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 536232001517 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 536232001518 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 536232001519 active site 536232001520 metal binding site [ion binding]; metal-binding site 536232001521 DNA binding site [nucleotide binding] 536232001522 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 536232001523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232001524 AAA domain; Region: AAA_23; pfam13476 536232001525 Walker A/P-loop; other site 536232001526 ATP binding site [chemical binding]; other site 536232001527 Q-loop/lid; other site 536232001528 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232001529 ABC transporter signature motif; other site 536232001530 Walker B; other site 536232001531 D-loop; other site 536232001532 H-loop/switch region; other site 536232001533 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 536232001534 ADP-ribose binding site [chemical binding]; other site 536232001535 dimer interface [polypeptide binding]; other site 536232001536 active site 536232001537 nudix motif; other site 536232001538 metal binding site [ion binding]; metal-binding site 536232001539 Uncharacterized conserved protein [Function unknown]; Region: COG1284 536232001540 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 536232001541 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 536232001542 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 536232001543 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 536232001544 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 536232001545 dimerization interface [polypeptide binding]; other site 536232001546 putative DNA binding site [nucleotide binding]; other site 536232001547 putative Zn2+ binding site [ion binding]; other site 536232001548 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 536232001549 Heavy-metal-associated domain; Region: HMA; pfam00403 536232001550 metal-binding site [ion binding] 536232001551 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536232001552 Soluble P-type ATPase [General function prediction only]; Region: COG4087 536232001553 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 536232001554 NlpC/P60 family; Region: NLPC_P60; pfam00877 536232001555 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536232001556 RecT family; Region: RecT; cl04285 536232001557 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 536232001558 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 536232001559 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 536232001560 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 536232001561 putative active site [active] 536232001562 PhoH-like protein; Region: PhoH; pfam02562 536232001563 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 536232001564 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 536232001565 NADPH bind site [chemical binding]; other site 536232001566 putative FMN binding site [chemical binding]; other site 536232001567 thiazole/oxazole-forming peptide maturase, SagC family component; Region: cyclo_dehy_ocin; TIGR03603 536232001568 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 536232001569 YcaO-like family; Region: YcaO; pfam02624 536232001570 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 536232001571 CAAX protease self-immunity; Region: Abi; pfam02517 536232001572 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232001573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232001574 Walker A/P-loop; other site 536232001575 ATP binding site [chemical binding]; other site 536232001576 Q-loop/lid; other site 536232001577 ABC transporter signature motif; other site 536232001578 Walker B; other site 536232001579 D-loop; other site 536232001580 H-loop/switch region; other site 536232001581 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 536232001582 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 536232001583 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 536232001584 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536232001585 ABC-2 type transporter; Region: ABC2_membrane; cl17235 536232001586 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 536232001587 Peptidase family M50; Region: Peptidase_M50; pfam02163 536232001588 active site 536232001589 putative substrate binding region [chemical binding]; other site 536232001590 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 536232001591 Histidine kinase; Region: HisKA_3; pfam07730 536232001592 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 536232001593 Mg2+ binding site [ion binding]; other site 536232001594 G-X-G motif; other site 536232001595 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536232001596 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 536232001597 active site 536232001598 phosphorylation site [posttranslational modification] 536232001599 intermolecular recognition site; other site 536232001600 dimerization interface [polypeptide binding]; other site 536232001601 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 536232001602 DNA binding residues [nucleotide binding] 536232001603 dimerization interface [polypeptide binding]; other site 536232001604 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232001605 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232001606 Walker A/P-loop; other site 536232001607 ATP binding site [chemical binding]; other site 536232001608 Q-loop/lid; other site 536232001609 ABC transporter signature motif; other site 536232001610 Walker B; other site 536232001611 D-loop; other site 536232001612 H-loop/switch region; other site 536232001613 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 536232001614 ABC-2 type transporter; Region: ABC2_membrane; cl17235 536232001615 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 536232001616 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 536232001617 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 536232001618 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 536232001619 transmembrane helices; other site 536232001620 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 536232001621 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 536232001622 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 536232001623 dimer interface [polypeptide binding]; other site 536232001624 catalytic triad [active] 536232001625 peroxidatic and resolving cysteines [active] 536232001626 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 536232001627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536232001628 NAD(P) binding site [chemical binding]; other site 536232001629 active site 536232001630 Response regulator receiver domain; Region: Response_reg; pfam00072 536232001631 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 536232001632 active site 536232001633 phosphorylation site [posttranslational modification] 536232001634 intermolecular recognition site; other site 536232001635 dimerization interface [polypeptide binding]; other site 536232001636 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 536232001637 CHAP domain; Region: CHAP; pfam05257 536232001638 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232001639 Bacterial SH3 domain; Region: SH3_3; cl17532 536232001640 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232001641 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 536232001642 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232001643 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 536232001644 NlpC/P60 family; Region: NLPC_P60; pfam00877 536232001645 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 536232001646 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536232001647 PAS fold; Region: PAS_4; pfam08448 536232001648 Response regulator receiver domain; Region: Response_reg; pfam00072 536232001649 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 536232001650 active site 536232001651 phosphorylation site [posttranslational modification] 536232001652 intermolecular recognition site; other site 536232001653 dimerization interface [polypeptide binding]; other site 536232001654 Hpt domain; Region: Hpt; pfam01627 536232001655 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232001656 Zn2+ binding site [ion binding]; other site 536232001657 Mg2+ binding site [ion binding]; other site 536232001658 Cache domain; Region: Cache_1; pfam02743 536232001659 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 536232001660 dimerization interface [polypeptide binding]; other site 536232001661 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232001662 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232001663 dimer interface [polypeptide binding]; other site 536232001664 putative CheW interface [polypeptide binding]; other site 536232001665 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 536232001666 active site 536232001667 phosphorylation site [posttranslational modification] 536232001668 intermolecular recognition site; other site 536232001669 dimerization interface [polypeptide binding]; other site 536232001670 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 536232001671 seryl-tRNA synthetase; Provisional; Region: PRK05431 536232001672 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 536232001673 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 536232001674 motif 1; other site 536232001675 dimer interface [polypeptide binding]; other site 536232001676 active site 536232001677 motif 2; other site 536232001678 motif 3; other site 536232001679 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 536232001680 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 536232001681 DEAD_2; Region: DEAD_2; pfam06733 536232001682 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 536232001683 Predicted transcriptional regulators [Transcription]; Region: COG1725 536232001684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232001685 DNA-binding site [nucleotide binding]; DNA binding site 536232001686 TrkA-C domain; Region: TrkA_C; pfam02080 536232001687 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 536232001688 putative active site [active] 536232001689 putative ligand binding site [chemical binding]; other site 536232001690 putative NAD(P) binding site [chemical binding]; other site 536232001691 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 536232001692 Hemerythrin; Region: Hemerythrin; cd12107 536232001693 Fe binding site [ion binding]; other site 536232001694 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 536232001695 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 536232001696 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 536232001697 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 536232001698 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 536232001699 FeS/SAM binding site; other site 536232001700 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 536232001701 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 536232001702 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 536232001703 FeS/SAM binding site; other site 536232001704 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 536232001705 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 536232001706 active site 536232001707 catalytic residues [active] 536232001708 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232001709 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232001710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232001711 Walker A/P-loop; other site 536232001712 ATP binding site [chemical binding]; other site 536232001713 Q-loop/lid; other site 536232001714 ABC transporter signature motif; other site 536232001715 Walker B; other site 536232001716 D-loop; other site 536232001717 H-loop/switch region; other site 536232001718 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232001719 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 536232001720 active site 536232001721 phosphorylation site [posttranslational modification] 536232001722 intermolecular recognition site; other site 536232001723 dimerization interface [polypeptide binding]; other site 536232001724 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 536232001725 DNA binding site [nucleotide binding] 536232001726 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232001727 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 536232001728 dimer interface [polypeptide binding]; other site 536232001729 phosphorylation site [posttranslational modification] 536232001730 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 536232001731 ATP binding site [chemical binding]; other site 536232001732 Mg2+ binding site [ion binding]; other site 536232001733 G-X-G motif; other site 536232001734 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232001735 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232001736 Walker A/P-loop; other site 536232001737 ATP binding site [chemical binding]; other site 536232001738 Q-loop/lid; other site 536232001739 ABC transporter signature motif; other site 536232001740 Walker B; other site 536232001741 D-loop; other site 536232001742 H-loop/switch region; other site 536232001743 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 536232001744 FtsX-like permease family; Region: FtsX; pfam02687 536232001745 FtsX-like permease family; Region: FtsX; pfam02687 536232001746 Amino acid permease; Region: AA_permease_2; pfam13520 536232001747 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 536232001748 AsnC family; Region: AsnC_trans_reg; pfam01037 536232001749 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 536232001750 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 536232001751 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 536232001752 Spore germination protein; Region: Spore_permease; cl17796 536232001753 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 536232001754 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 536232001755 trimer interface [polypeptide binding]; other site 536232001756 putative metal binding site [ion binding]; other site 536232001757 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 536232001758 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 536232001759 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 536232001760 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 536232001761 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536232001762 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 536232001763 Soluble P-type ATPase [General function prediction only]; Region: COG4087 536232001764 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 536232001765 yybP-ykoY leader 536232001766 Chromate transporter; Region: Chromate_transp; pfam02417 536232001767 Chromate transporter; Region: Chromate_transp; pfam02417 536232001768 PemK-like protein; Region: PemK; pfam02452 536232001769 Protein of unknown function (DUF327); Region: DUF327; pfam03885 536232001770 NAD synthetase; Reviewed; Region: nadE; PRK02628 536232001771 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 536232001772 multimer interface [polypeptide binding]; other site 536232001773 active site 536232001774 catalytic triad [active] 536232001775 protein interface 1 [polypeptide binding]; other site 536232001776 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 536232001777 homodimer interface [polypeptide binding]; other site 536232001778 NAD binding pocket [chemical binding]; other site 536232001779 ATP binding pocket [chemical binding]; other site 536232001780 Mg binding site [ion binding]; other site 536232001781 active-site loop [active] 536232001782 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 536232001783 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 536232001784 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 536232001785 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 536232001786 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 536232001787 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 536232001788 active site 536232001789 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 536232001790 non-specific DNA binding site [nucleotide binding]; other site 536232001791 salt bridge; other site 536232001792 sequence-specific DNA binding site [nucleotide binding]; other site 536232001793 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536232001794 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232001795 Coenzyme A binding pocket [chemical binding]; other site 536232001796 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 536232001797 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 536232001798 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 536232001799 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 536232001800 Carbon starvation protein CstA; Region: CstA; pfam02554 536232001801 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 536232001802 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 536232001803 Cache domain; Region: Cache_1; pfam02743 536232001804 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232001805 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232001806 dimer interface [polypeptide binding]; other site 536232001807 putative CheW interface [polypeptide binding]; other site 536232001808 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 536232001809 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232001810 ABC transporter; Region: ABC_tran_2; pfam12848 536232001811 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232001812 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 536232001813 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 536232001814 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 536232001815 Predicted transcriptional regulators [Transcription]; Region: COG1725 536232001816 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232001817 DNA-binding site [nucleotide binding]; DNA binding site 536232001818 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 536232001819 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536232001820 Walker A/P-loop; other site 536232001821 ATP binding site [chemical binding]; other site 536232001822 Q-loop/lid; other site 536232001823 ABC transporter signature motif; other site 536232001824 Walker B; other site 536232001825 D-loop; other site 536232001826 H-loop/switch region; other site 536232001827 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 536232001828 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 536232001829 Walker A/P-loop; other site 536232001830 ATP binding site [chemical binding]; other site 536232001831 Q-loop/lid; other site 536232001832 ABC transporter signature motif; other site 536232001833 Walker B; other site 536232001834 D-loop; other site 536232001835 H-loop/switch region; other site 536232001836 TOBE domain; Region: TOBE_2; pfam08402 536232001837 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232001838 dimer interface [polypeptide binding]; other site 536232001839 conserved gate region; other site 536232001840 putative PBP binding loops; other site 536232001841 ABC-ATPase subunit interface; other site 536232001842 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536232001843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232001844 dimer interface [polypeptide binding]; other site 536232001845 conserved gate region; other site 536232001846 putative PBP binding loops; other site 536232001847 ABC-ATPase subunit interface; other site 536232001848 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 536232001849 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 536232001850 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536232001851 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232001852 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232001853 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536232001854 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 536232001855 Recombination-activation protein 1 (RAG1); Region: RAG1; pfam12940 536232001856 YcxB-like protein; Region: YcxB; pfam14317 536232001857 YcxB-like protein; Region: YcxB; pfam14317 536232001858 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 536232001859 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536232001860 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536232001861 BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of...; Region: GH25_BacA-like; cd06418 536232001862 active site 536232001863 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 536232001864 CAAX protease self-immunity; Region: Abi; pfam02517 536232001865 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 536232001866 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 536232001867 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 536232001868 non-specific DNA binding site [nucleotide binding]; other site 536232001869 salt bridge; other site 536232001870 sequence-specific DNA binding site [nucleotide binding]; other site 536232001871 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 536232001872 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 536232001873 Catalytic site [active] 536232001874 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 536232001875 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 536232001876 active site 536232001877 phosphorylation site [posttranslational modification] 536232001878 intermolecular recognition site; other site 536232001879 dimerization interface [polypeptide binding]; other site 536232001880 LytTr DNA-binding domain; Region: LytTR; smart00850 536232001881 Cys-rich peptide, Clo7bot family; Region: Clo7Bot_mod_Cys; TIGR04333 536232001882 Cys-rich peptide, Clo7bot family; Region: Clo7Bot_mod_Cys; TIGR04333 536232001883 Cys-rich peptide, Clo7bot family; Region: Clo7Bot_mod_Cys; TIGR04333 536232001884 radical SAM/SPASM domain Clo7bot peptide maturase; Region: rSAM_Clo7bot; TIGR04334 536232001885 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 536232001886 FeS/SAM binding site; other site 536232001887 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 536232001888 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 536232001889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232001890 Coenzyme A binding pocket [chemical binding]; other site 536232001891 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232001892 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232001893 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232001894 Walker A/P-loop; other site 536232001895 ATP binding site [chemical binding]; other site 536232001896 Q-loop/lid; other site 536232001897 ABC transporter signature motif; other site 536232001898 Walker B; other site 536232001899 D-loop; other site 536232001900 H-loop/switch region; other site 536232001901 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536232001902 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 536232001903 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536232001904 FtsX-like permease family; Region: FtsX; pfam02687 536232001905 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536232001906 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 536232001907 FtsX-like permease family; Region: FtsX; pfam02687 536232001908 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232001909 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232001910 Walker A/P-loop; other site 536232001911 ATP binding site [chemical binding]; other site 536232001912 Q-loop/lid; other site 536232001913 ABC transporter signature motif; other site 536232001914 Walker B; other site 536232001915 D-loop; other site 536232001916 H-loop/switch region; other site 536232001917 EDD domain protein, DegV family; Region: DegV; TIGR00762 536232001918 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 536232001919 hypothetical protein; Provisional; Region: PRK04164 536232001920 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 536232001921 Sulfatase; Region: Sulfatase; pfam00884 536232001922 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 536232001923 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 536232001924 Walker A motif; other site 536232001925 ATP binding site [chemical binding]; other site 536232001926 Walker B motif; other site 536232001927 arginine finger; other site 536232001928 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536232001929 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 536232001930 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 536232001931 Nucleoside recognition; Region: Gate; pfam07670 536232001932 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 536232001933 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 536232001934 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 536232001935 putative dimer interface [polypeptide binding]; other site 536232001936 putative anticodon binding site; other site 536232001937 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 536232001938 homodimer interface [polypeptide binding]; other site 536232001939 motif 1; other site 536232001940 motif 2; other site 536232001941 active site 536232001942 motif 3; other site 536232001943 LytTr DNA-binding domain; Region: LytTR; smart00850 536232001944 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232001945 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232001946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232001947 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 536232001948 CAAX protease self-immunity; Region: Abi; pfam02517 536232001949 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232001950 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 536232001951 non-specific DNA binding site [nucleotide binding]; other site 536232001952 salt bridge; other site 536232001953 sequence-specific DNA binding site [nucleotide binding]; other site 536232001954 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 536232001955 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232001956 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 536232001957 active site 536232001958 phosphorylation site [posttranslational modification] 536232001959 intermolecular recognition site; other site 536232001960 dimerization interface [polypeptide binding]; other site 536232001961 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 536232001962 DNA binding site [nucleotide binding] 536232001963 Topoisomer_IB_N: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA; Region: Topoisomer_IB_N; cl02774 536232001964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232001965 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 536232001966 dimerization interface [polypeptide binding]; other site 536232001967 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 536232001968 dimer interface [polypeptide binding]; other site 536232001969 phosphorylation site [posttranslational modification] 536232001970 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 536232001971 ATP binding site [chemical binding]; other site 536232001972 Mg2+ binding site [ion binding]; other site 536232001973 G-X-G motif; other site 536232001974 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 536232001975 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 536232001976 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232001977 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 536232001978 active site 536232001979 phosphorylation site [posttranslational modification] 536232001980 intermolecular recognition site; other site 536232001981 dimerization interface [polypeptide binding]; other site 536232001982 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 536232001983 DNA binding site [nucleotide binding] 536232001984 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232001985 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 536232001986 dimer interface [polypeptide binding]; other site 536232001987 phosphorylation site [posttranslational modification] 536232001988 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 536232001989 ATP binding site [chemical binding]; other site 536232001990 Mg2+ binding site [ion binding]; other site 536232001991 G-X-G motif; other site 536232001992 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 536232001993 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 536232001994 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 536232001995 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 536232001996 active site 536232001997 phosphorylation site [posttranslational modification] 536232001998 intermolecular recognition site; other site 536232001999 dimerization interface [polypeptide binding]; other site 536232002000 YcbB domain; Region: YcbB; pfam08664 536232002001 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 536232002002 ATP binding site [chemical binding]; other site 536232002003 Mg2+ binding site [ion binding]; other site 536232002004 G-X-G motif; other site 536232002005 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 536232002006 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 536232002007 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536232002008 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 536232002009 S-adenosylmethionine binding site [chemical binding]; other site 536232002010 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 536232002011 dimerization interface [polypeptide binding]; other site 536232002012 putative Zn2+ binding site [ion binding]; other site 536232002013 putative DNA binding site [nucleotide binding]; other site 536232002014 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232002015 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232002016 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 536232002017 Walker A/P-loop; other site 536232002018 ATP binding site [chemical binding]; other site 536232002019 Q-loop/lid; other site 536232002020 ABC transporter signature motif; other site 536232002021 Walker B; other site 536232002022 D-loop; other site 536232002023 H-loop/switch region; other site 536232002024 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 536232002025 Chloramphenicol acetyltransferase; Region: CAT; smart01059 536232002026 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232002027 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232002028 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232002029 Coenzyme A binding pocket [chemical binding]; other site 536232002030 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 536232002031 dimer interface [polypeptide binding]; other site 536232002032 putative tRNA-binding site [nucleotide binding]; other site 536232002033 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536232002034 Helix-turn-helix domain; Region: HTH_18; pfam12833 536232002035 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232002036 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 536232002037 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 536232002038 non-specific DNA binding site [nucleotide binding]; other site 536232002039 salt bridge; other site 536232002040 sequence-specific DNA binding site [nucleotide binding]; other site 536232002041 Cupin domain; Region: Cupin_2; pfam07883 536232002042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 536232002043 Zn2+ binding site [ion binding]; other site 536232002044 Mg2+ binding site [ion binding]; other site 536232002045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232002046 ABC transporter signature motif; other site 536232002047 Walker B; other site 536232002048 D-loop; other site 536232002049 H-loop/switch region; other site 536232002050 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 536232002051 LytTr DNA-binding domain; Region: LytTR; pfam04397 536232002052 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232002053 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536232002054 Walker A/P-loop; other site 536232002055 ATP binding site [chemical binding]; other site 536232002056 Q-loop/lid; other site 536232002057 ABC transporter signature motif; other site 536232002058 Walker B; other site 536232002059 D-loop; other site 536232002060 H-loop/switch region; other site 536232002061 ABC-2 type transporter; Region: ABC2_membrane; cl17235 536232002062 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 536232002063 allantoate amidohydrolase; Reviewed; Region: PRK09290 536232002064 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 536232002065 active site 536232002066 metal binding site [ion binding]; metal-binding site 536232002067 dimer interface [polypeptide binding]; other site 536232002068 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536232002069 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 536232002070 active site 536232002071 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 536232002072 MutS domain III; Region: MutS_III; pfam05192 536232002073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232002074 Walker A/P-loop; other site 536232002075 ATP binding site [chemical binding]; other site 536232002076 Q-loop/lid; other site 536232002077 ABC transporter signature motif; other site 536232002078 Walker B; other site 536232002079 D-loop; other site 536232002080 H-loop/switch region; other site 536232002081 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 536232002082 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 536232002083 Protein of unknown function (DUF454); Region: DUF454; cl01063 536232002084 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 536232002085 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 536232002086 minor groove reading motif; other site 536232002087 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 536232002088 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232002089 DNA-binding site [nucleotide binding]; DNA binding site 536232002090 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 536232002091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232002092 homodimer interface [polypeptide binding]; other site 536232002093 catalytic residue [active] 536232002094 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 536232002095 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 536232002096 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 536232002097 ATP binding site [chemical binding]; other site 536232002098 Mg++ binding site [ion binding]; other site 536232002099 motif III; other site 536232002100 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 536232002101 nucleotide binding region [chemical binding]; other site 536232002102 ATP-binding site [chemical binding]; other site 536232002103 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 536232002104 diiron binding motif [ion binding]; other site 536232002105 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232002106 MarR family; Region: MarR_2; pfam12802 536232002107 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 536232002108 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536232002109 putative substrate translocation pore; other site 536232002110 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 536232002111 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 536232002112 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 536232002113 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536232002114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536232002115 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 536232002116 dimerization interface [polypeptide binding]; other site 536232002117 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 536232002118 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 536232002119 Protein of unknown function N-terminus (DUF3323); Region: DUF3323; pfam11796 536232002120 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 536232002121 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 536232002122 putative active site [active] 536232002123 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 536232002124 active site 536232002125 8-oxo-dGMP binding site [chemical binding]; other site 536232002126 nudix motif; other site 536232002127 metal binding site [ion binding]; metal-binding site 536232002128 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 536232002129 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 536232002130 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 536232002131 transcriptional antiterminator BglG; Provisional; Region: PRK09772 536232002132 CAT RNA binding domain; Region: CAT_RBD; smart01061 536232002133 PRD domain; Region: PRD; pfam00874 536232002134 PRD domain; Region: PRD; pfam00874 536232002135 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 536232002136 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 536232002137 active site turn [active] 536232002138 phosphorylation site [posttranslational modification] 536232002139 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232002140 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 536232002141 HPr interaction site; other site 536232002142 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536232002143 active site 536232002144 phosphorylation site [posttranslational modification] 536232002145 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 536232002146 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 536232002147 active site 536232002148 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 536232002149 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536232002150 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 536232002151 ligand binding site [chemical binding]; other site 536232002152 flexible hinge region; other site 536232002153 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 536232002154 putative switch regulator; other site 536232002155 non-specific DNA interactions [nucleotide binding]; other site 536232002156 DNA binding site [nucleotide binding] 536232002157 sequence specific DNA binding site [nucleotide binding]; other site 536232002158 putative cAMP binding site [chemical binding]; other site 536232002159 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 536232002160 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232002161 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 536232002162 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 536232002163 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 536232002164 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 536232002165 Family of unknown function (DUF438); Region: DUF438; pfam04282 536232002166 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 536232002167 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 536232002168 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232002169 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 536232002170 TM-ABC transporter signature motif; other site 536232002171 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 536232002172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232002173 Walker A/P-loop; other site 536232002174 ATP binding site [chemical binding]; other site 536232002175 Q-loop/lid; other site 536232002176 ABC transporter signature motif; other site 536232002177 Walker B; other site 536232002178 D-loop; other site 536232002179 H-loop/switch region; other site 536232002180 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 536232002181 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 536232002182 zinc binding site [ion binding]; other site 536232002183 putative ligand binding site [chemical binding]; other site 536232002184 RNA polymerase factor sigma-70; Validated; Region: PRK06811 536232002185 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232002186 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 536232002187 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 536232002188 FMN binding site [chemical binding]; other site 536232002189 active site 536232002190 catalytic residues [active] 536232002191 substrate binding site [chemical binding]; other site 536232002192 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 536232002193 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 536232002194 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 536232002195 HsdM N-terminal domain; Region: HsdM_N; pfam12161 536232002196 Methyltransferase domain; Region: Methyltransf_26; pfam13659 536232002197 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 536232002198 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 536232002199 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 536232002200 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 536232002201 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 536232002202 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 536232002203 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 536232002204 ATP binding site [chemical binding]; other site 536232002205 putative Mg++ binding site [ion binding]; other site 536232002206 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 536232002207 nucleotide binding region [chemical binding]; other site 536232002208 ATP-binding site [chemical binding]; other site 536232002209 TfoX C-terminal domain; Region: TfoX_C; pfam04994 536232002210 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 536232002211 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 536232002212 Penicillinase repressor; Region: Pencillinase_R; pfam03965 536232002213 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 536232002214 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 536232002215 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232002216 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232002217 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 536232002218 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 536232002219 intersubunit interface [polypeptide binding]; other site 536232002220 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536232002221 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 536232002222 ABC-ATPase subunit interface; other site 536232002223 dimer interface [polypeptide binding]; other site 536232002224 putative PBP binding regions; other site 536232002225 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536232002226 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 536232002227 ABC-ATPase subunit interface; other site 536232002228 dimer interface [polypeptide binding]; other site 536232002229 putative PBP binding regions; other site 536232002230 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536232002231 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536232002232 Walker A/P-loop; other site 536232002233 ATP binding site [chemical binding]; other site 536232002234 Q-loop/lid; other site 536232002235 ABC transporter signature motif; other site 536232002236 Walker B; other site 536232002237 D-loop; other site 536232002238 H-loop/switch region; other site 536232002239 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232002240 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 536232002241 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 536232002242 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 536232002243 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 536232002244 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 536232002245 Cache domain; Region: Cache_1; pfam02743 536232002246 HAMP domain; Region: HAMP; pfam00672 536232002247 dimerization interface [polypeptide binding]; other site 536232002248 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232002249 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232002250 dimer interface [polypeptide binding]; other site 536232002251 putative CheW interface [polypeptide binding]; other site 536232002252 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 536232002253 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 536232002254 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 536232002255 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 536232002256 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 536232002257 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 536232002258 glycine cleavage system protein H; Provisional; Region: PRK13380 536232002259 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 536232002260 lipoyl attachment site [posttranslational modification]; other site 536232002261 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 536232002262 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 536232002263 tetramer interface [polypeptide binding]; other site 536232002264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232002265 catalytic residue [active] 536232002266 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 536232002267 tetramer interface [polypeptide binding]; other site 536232002268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232002269 catalytic residue [active] 536232002270 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 536232002271 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536232002272 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536232002273 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 536232002274 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 536232002275 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 536232002276 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 536232002277 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536232002278 Transposase, Mutator family; Region: Transposase_mut; pfam00872 536232002279 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232002280 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 536232002281 active site 536232002282 phosphorylation site [posttranslational modification] 536232002283 intermolecular recognition site; other site 536232002284 dimerization interface [polypeptide binding]; other site 536232002285 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 536232002286 DNA binding site [nucleotide binding] 536232002287 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232002288 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 536232002289 dimer interface [polypeptide binding]; other site 536232002290 phosphorylation site [posttranslational modification] 536232002291 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 536232002292 ATP binding site [chemical binding]; other site 536232002293 Mg2+ binding site [ion binding]; other site 536232002294 G-X-G motif; other site 536232002295 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232002296 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232002297 Walker A/P-loop; other site 536232002298 ATP binding site [chemical binding]; other site 536232002299 Q-loop/lid; other site 536232002300 ABC transporter signature motif; other site 536232002301 Walker B; other site 536232002302 D-loop; other site 536232002303 H-loop/switch region; other site 536232002304 FtsX-like permease family; Region: FtsX; pfam02687 536232002305 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536232002306 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 536232002307 FtsX-like permease family; Region: FtsX; pfam02687 536232002308 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232002309 MarR family; Region: MarR; pfam01047 536232002310 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232002311 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536232002312 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536232002313 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 536232002314 DNA binding residues [nucleotide binding] 536232002315 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 536232002316 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536232002317 DNA binding residues [nucleotide binding] 536232002318 dimer interface [polypeptide binding]; other site 536232002319 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 536232002320 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536232002321 Walker A/P-loop; other site 536232002322 ATP binding site [chemical binding]; other site 536232002323 Q-loop/lid; other site 536232002324 ABC transporter signature motif; other site 536232002325 Walker B; other site 536232002326 D-loop; other site 536232002327 H-loop/switch region; other site 536232002328 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 536232002329 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536232002330 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536232002331 EamA-like transporter family; Region: EamA; pfam00892 536232002332 EamA-like transporter family; Region: EamA; pfam00892 536232002333 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232002334 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 536232002335 non-specific DNA binding site [nucleotide binding]; other site 536232002336 salt bridge; other site 536232002337 sequence-specific DNA binding site [nucleotide binding]; other site 536232002338 Cupin domain; Region: Cupin_2; pfam07883 536232002339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232002340 Coenzyme A binding pocket [chemical binding]; other site 536232002341 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232002342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232002343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 536232002344 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 536232002345 non-specific DNA binding site [nucleotide binding]; other site 536232002346 salt bridge; other site 536232002347 sequence-specific DNA binding site [nucleotide binding]; other site 536232002348 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536232002349 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 536232002350 active site 536232002351 metal binding site [ion binding]; metal-binding site 536232002352 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 536232002353 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536232002354 DNA binding residues [nucleotide binding] 536232002355 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 536232002356 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536232002357 DNA binding residues [nucleotide binding] 536232002358 dimer interface [polypeptide binding]; other site 536232002359 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 536232002360 DNA binding residues [nucleotide binding] 536232002361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232002362 Walker A/P-loop; other site 536232002363 ATP binding site [chemical binding]; other site 536232002364 Q-loop/lid; other site 536232002365 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 536232002366 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 536232002367 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232002368 Walker A/P-loop; other site 536232002369 ATP binding site [chemical binding]; other site 536232002370 Q-loop/lid; other site 536232002371 ABC transporter signature motif; other site 536232002372 Walker B; other site 536232002373 D-loop; other site 536232002374 H-loop/switch region; other site 536232002375 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 536232002376 Part of AAA domain; Region: AAA_19; pfam13245 536232002377 Family description; Region: UvrD_C_2; pfam13538 536232002378 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 536232002379 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232002380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232002381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 536232002382 AAA ATPase domain; Region: AAA_15; pfam13175 536232002383 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 536232002384 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 536232002385 dimer interface [polypeptide binding]; other site 536232002386 active site 536232002387 CoA binding pocket [chemical binding]; other site 536232002388 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 536232002389 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232002390 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232002391 dimer interface [polypeptide binding]; other site 536232002392 putative CheW interface [polypeptide binding]; other site 536232002393 Mor transcription activator family; Region: Mor; cl02360 536232002394 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 536232002395 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232002396 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232002397 ABC transporter; Region: ABC_tran_2; pfam12848 536232002398 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232002399 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 536232002400 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 536232002401 conserved cys residue [active] 536232002402 SIR2-like domain; Region: SIR2_2; pfam13289 536232002403 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 536232002404 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 536232002405 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 536232002406 dimer interface [polypeptide binding]; other site 536232002407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232002408 catalytic residue [active] 536232002409 S-ribosylhomocysteinase; Provisional; Region: PRK02260 536232002410 cystathionine beta-lyase; Provisional; Region: PRK07671 536232002411 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 536232002412 homodimer interface [polypeptide binding]; other site 536232002413 substrate-cofactor binding pocket; other site 536232002414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232002415 catalytic residue [active] 536232002416 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536232002417 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 536232002418 S-adenosylmethionine binding site [chemical binding]; other site 536232002419 Glyco_18 domain; Region: Glyco_18; smart00636 536232002420 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 536232002421 active site 536232002422 Chitinase C; Region: ChiC; pfam06483 536232002423 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 536232002424 S-adenosylmethionine binding site [chemical binding]; other site 536232002425 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232002426 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232002427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 536232002428 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 536232002429 metal-binding site [ion binding] 536232002430 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 536232002431 Domain of unknown function (DUF955); Region: DUF955; pfam06114 536232002432 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232002433 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 536232002434 non-specific DNA binding site [nucleotide binding]; other site 536232002435 salt bridge; other site 536232002436 sequence-specific DNA binding site [nucleotide binding]; other site 536232002437 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 536232002438 non-specific DNA binding site [nucleotide binding]; other site 536232002439 salt bridge; other site 536232002440 sequence-specific DNA binding site [nucleotide binding]; other site 536232002441 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 536232002442 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 536232002443 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232002444 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 536232002445 DNA binding residues [nucleotide binding] 536232002446 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 536232002447 four helix bundle protein; Region: TIGR02436 536232002448 YvrJ protein family; Region: YvrJ; pfam12841 536232002449 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536232002450 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536232002451 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 536232002452 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 536232002453 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 536232002454 Low molecular weight phosphatase family; Region: LMWPc; cl00105 536232002455 Clostridium P-47 protein; Region: Clostridium_P47; pfam06597 536232002456 Clostridium P-47 protein; Region: Clostridium_P47; pfam06597 536232002457 clostridium toxin-associated regulator BotR; Region: P21_Cbot; TIGR03209 536232002458 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 536232002459 DNA binding residues [nucleotide binding] 536232002460 Clostridium P-47 protein; Region: Clostridium_P47; pfam06597 536232002461 Clostridial neurotoxin zinc protease; Region: Peptidase_M27; pfam01742 536232002462 Clostridium neurotoxin, N-terminal receptor binding; Region: Toxin_R_bind_N; pfam07953 536232002463 Nontoxic nonhaemagglutinin C-terminal; Region: NTNH_C; pfam08470 536232002464 Clostridial neurotoxin zinc protease; Region: Peptidase_M27; pfam01742 536232002465 Clostridium neurotoxin, Translocation domain; Region: Toxin_trans; pfam07952 536232002466 Clostridium neurotoxin, N-terminal receptor binding; Region: Toxin_R_bind_N; pfam07953 536232002467 Clostridium neurotoxin, C-terminal receptor binding; Region: Toxin_R_bind_C; pfam07951 536232002468 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 536232002469 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 536232002470 active site 536232002471 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536232002472 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 536232002473 Low molecular weight phosphatase family; Region: LMWPc; cl00105 536232002474 active site 536232002475 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 536232002476 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 536232002477 dimerization interface [polypeptide binding]; other site 536232002478 putative DNA binding site [nucleotide binding]; other site 536232002479 putative Zn2+ binding site [ion binding]; other site 536232002480 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 536232002481 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 536232002482 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 536232002483 P loop; other site 536232002484 Nucleotide binding site [chemical binding]; other site 536232002485 DTAP/Switch II; other site 536232002486 Switch I; other site 536232002487 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 536232002488 P loop; other site 536232002489 Nucleotide binding site [chemical binding]; other site 536232002490 DTAP/Switch II; other site 536232002491 Switch I; other site 536232002492 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 536232002493 Low molecular weight phosphatase family; Region: LMWPc; cl00105 536232002494 active site 536232002495 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 536232002496 arsenical-resistance protein; Region: acr3; TIGR00832 536232002497 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 536232002498 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536232002499 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 536232002500 S-adenosylmethionine binding site [chemical binding]; other site 536232002501 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 536232002502 catalytic core [active] 536232002503 Short C-terminal domain; Region: SHOCT; pfam09851 536232002504 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232002505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232002506 Walker A/P-loop; other site 536232002507 ATP binding site [chemical binding]; other site 536232002508 Q-loop/lid; other site 536232002509 ABC transporter signature motif; other site 536232002510 Walker B; other site 536232002511 D-loop; other site 536232002512 H-loop/switch region; other site 536232002513 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 536232002514 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 536232002515 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 536232002516 dimerization interface [polypeptide binding]; other site 536232002517 active site 536232002518 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 536232002519 S-adenosylmethionine binding site [chemical binding]; other site 536232002520 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 536232002521 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 536232002522 dimer interface [polypeptide binding]; other site 536232002523 substrate binding site [chemical binding]; other site 536232002524 ATP binding site [chemical binding]; other site 536232002525 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 536232002526 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232002527 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536232002528 Walker A/P-loop; other site 536232002529 ATP binding site [chemical binding]; other site 536232002530 Q-loop/lid; other site 536232002531 ABC transporter signature motif; other site 536232002532 Walker B; other site 536232002533 D-loop; other site 536232002534 H-loop/switch region; other site 536232002535 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232002536 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 536232002537 active site 536232002538 phosphorylation site [posttranslational modification] 536232002539 intermolecular recognition site; other site 536232002540 dimerization interface [polypeptide binding]; other site 536232002541 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 536232002542 DNA binding site [nucleotide binding] 536232002543 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232002544 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232002545 Walker A/P-loop; other site 536232002546 ATP binding site [chemical binding]; other site 536232002547 Q-loop/lid; other site 536232002548 ABC transporter signature motif; other site 536232002549 Walker B; other site 536232002550 D-loop; other site 536232002551 H-loop/switch region; other site 536232002552 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 536232002553 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232002554 Helix-turn-helix domain; Region: HTH_18; pfam12833 536232002555 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232002556 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 536232002557 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232002558 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 536232002559 dimer interface [polypeptide binding]; other site 536232002560 phosphorylation site [posttranslational modification] 536232002561 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 536232002562 ATP binding site [chemical binding]; other site 536232002563 Mg2+ binding site [ion binding]; other site 536232002564 G-X-G motif; other site 536232002565 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 536232002566 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232002567 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232002568 Walker A/P-loop; other site 536232002569 ATP binding site [chemical binding]; other site 536232002570 Q-loop/lid; other site 536232002571 ABC transporter signature motif; other site 536232002572 Walker B; other site 536232002573 D-loop; other site 536232002574 H-loop/switch region; other site 536232002575 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 536232002576 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536232002577 FtsX-like permease family; Region: FtsX; pfam02687 536232002578 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536232002579 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 536232002580 FtsX-like permease family; Region: FtsX; pfam02687 536232002581 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232002582 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 536232002583 active site 536232002584 phosphorylation site [posttranslational modification] 536232002585 intermolecular recognition site; other site 536232002586 dimerization interface [polypeptide binding]; other site 536232002587 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 536232002588 DNA binding site [nucleotide binding] 536232002589 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232002590 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 536232002591 dimer interface [polypeptide binding]; other site 536232002592 phosphorylation site [posttranslational modification] 536232002593 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 536232002594 ATP binding site [chemical binding]; other site 536232002595 Mg2+ binding site [ion binding]; other site 536232002596 G-X-G motif; other site 536232002597 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 536232002598 Small acid-soluble spore protein H family; Region: SspH; cl06949 536232002599 dihydrodipicolinate reductase; Provisional; Region: PRK00048 536232002600 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 536232002601 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 536232002602 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 536232002603 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 536232002604 active site residue [active] 536232002605 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 536232002606 active site residue [active] 536232002607 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 536232002608 Beta-lactamase; Region: Beta-lactamase; pfam00144 536232002609 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232002610 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 536232002611 non-specific DNA binding site [nucleotide binding]; other site 536232002612 salt bridge; other site 536232002613 sequence-specific DNA binding site [nucleotide binding]; other site 536232002614 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 536232002615 DNA binding site [nucleotide binding] 536232002616 Int/Topo IB signature motif; other site 536232002617 active site 536232002618 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536232002619 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 536232002620 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 536232002621 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 536232002622 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 536232002623 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 536232002624 active site 536232002625 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 536232002626 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 536232002627 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232002628 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232002629 dimer interface [polypeptide binding]; other site 536232002630 putative CheW interface [polypeptide binding]; other site 536232002631 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 536232002632 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 536232002633 FeoA domain; Region: FeoA; pfam04023 536232002634 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 536232002635 GTP/Mg2+ binding site [chemical binding]; other site 536232002636 G5 box; other site 536232002637 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 536232002638 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 536232002639 G1 box; other site 536232002640 G1 box; other site 536232002641 GTP/Mg2+ binding site [chemical binding]; other site 536232002642 Switch I region; other site 536232002643 G2 box; other site 536232002644 G3 box; other site 536232002645 Switch II region; other site 536232002646 G4 box; other site 536232002647 G5 box; other site 536232002648 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 536232002649 Nucleoside recognition; Region: Gate; pfam07670 536232002650 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 536232002651 yybP-ykoY leader 536232002652 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 536232002653 catalytic core [active] 536232002654 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 536232002655 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 536232002656 VanW like protein; Region: VanW; pfam04294 536232002657 G5 domain; Region: G5; pfam07501 536232002658 cobalamin synthase; Reviewed; Region: cobS; PRK00235 536232002659 AIR synthase related protein, N-terminal domain; Region: AIRS; pfam00586 536232002660 Coat F domain; Region: Coat_F; pfam07875 536232002661 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 536232002662 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 536232002663 NodB motif; other site 536232002664 putative active site [active] 536232002665 putative catalytic site [active] 536232002666 putative Zn binding site [ion binding]; other site 536232002667 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 536232002668 active site 536232002669 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 536232002670 dihydropteroate synthase; Region: DHPS; TIGR01496 536232002671 substrate binding pocket [chemical binding]; other site 536232002672 dimer interface [polypeptide binding]; other site 536232002673 inhibitor binding site; inhibition site 536232002674 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 536232002675 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 536232002676 catalytic center binding site [active] 536232002677 ATP binding site [chemical binding]; other site 536232002678 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 536232002679 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 536232002680 putative dimer interface [polypeptide binding]; other site 536232002681 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 536232002682 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536232002683 DNA binding residues [nucleotide binding] 536232002684 dimer interface [polypeptide binding]; other site 536232002685 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 536232002686 S-adenosylmethionine binding site [chemical binding]; other site 536232002687 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 536232002688 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 536232002689 inhibitor-cofactor binding pocket; inhibition site 536232002690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232002691 catalytic residue [active] 536232002692 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 536232002693 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 536232002694 inhibitor-cofactor binding pocket; inhibition site 536232002695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232002696 catalytic residue [active] 536232002697 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 536232002698 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232002699 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 536232002700 DNA binding residues [nucleotide binding] 536232002701 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 536232002702 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 536232002703 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 536232002704 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 536232002705 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 536232002706 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232002707 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536232002708 Walker A/P-loop; other site 536232002709 ATP binding site [chemical binding]; other site 536232002710 Q-loop/lid; other site 536232002711 ABC transporter signature motif; other site 536232002712 Walker B; other site 536232002713 D-loop; other site 536232002714 H-loop/switch region; other site 536232002715 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232002716 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 536232002717 non-specific DNA binding site [nucleotide binding]; other site 536232002718 salt bridge; other site 536232002719 sequence-specific DNA binding site [nucleotide binding]; other site 536232002720 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536232002721 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 536232002722 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 536232002723 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 536232002724 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 536232002725 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 536232002726 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536232002727 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232002728 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536232002729 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 536232002730 dimerization interface [polypeptide binding]; other site 536232002731 putative DNA binding site [nucleotide binding]; other site 536232002732 putative Zn2+ binding site [ion binding]; other site 536232002733 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536232002734 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 536232002735 DNA binding residues [nucleotide binding] 536232002736 dimer interface [polypeptide binding]; other site 536232002737 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232002738 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536232002739 Coenzyme A binding pocket [chemical binding]; other site 536232002740 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 536232002741 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232002742 Coenzyme A binding pocket [chemical binding]; other site 536232002743 Pirin-related protein [General function prediction only]; Region: COG1741 536232002744 Pirin; Region: Pirin; pfam02678 536232002745 Predicted transcriptional regulators [Transcription]; Region: COG1733 536232002746 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 536232002747 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 536232002748 dimer interface [polypeptide binding]; other site 536232002749 FMN binding site [chemical binding]; other site 536232002750 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 536232002751 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 536232002752 Cupin; Region: Cupin_1; smart00835 536232002753 Cupin; Region: Cupin_1; smart00835 536232002754 TIGR00730 family protein; Region: TIGR00730 536232002755 Protein of unknown function, DUF606; Region: DUF606; pfam04657 536232002756 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536232002757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536232002758 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 536232002759 dimerization interface [polypeptide binding]; other site 536232002760 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536232002761 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232002762 Coenzyme A binding pocket [chemical binding]; other site 536232002763 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 536232002764 Uncharacterized conserved protein [Function unknown]; Region: COG2966 536232002765 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 536232002766 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 536232002767 active site 536232002768 catalytic residues [active] 536232002769 metal binding site [ion binding]; metal-binding site 536232002770 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 536232002771 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232002772 DNA-binding site [nucleotide binding]; DNA binding site 536232002773 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 536232002774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232002775 homodimer interface [polypeptide binding]; other site 536232002776 catalytic residue [active] 536232002777 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 536232002778 putative FMN binding site [chemical binding]; other site 536232002779 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 536232002780 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 536232002781 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 536232002782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232002783 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232002784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232002785 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 536232002786 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 536232002787 active site turn [active] 536232002788 phosphorylation site [posttranslational modification] 536232002789 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232002790 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 536232002791 HPr interaction site; other site 536232002792 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536232002793 active site 536232002794 phosphorylation site [posttranslational modification] 536232002795 beta-galactosidase; Region: BGL; TIGR03356 536232002796 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 536232002797 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 536232002798 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 536232002799 Mg++ binding site [ion binding]; other site 536232002800 putative catalytic motif [active] 536232002801 putative substrate binding site [chemical binding]; other site 536232002802 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232002803 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 536232002804 non-specific DNA binding site [nucleotide binding]; other site 536232002805 sequence-specific DNA binding site [nucleotide binding]; other site 536232002806 salt bridge; other site 536232002807 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 536232002808 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 536232002809 trimer interface [polypeptide binding]; other site 536232002810 active site 536232002811 substrate binding site [chemical binding]; other site 536232002812 CoA binding site [chemical binding]; other site 536232002813 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232002814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232002815 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 536232002816 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 536232002817 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232002818 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 536232002819 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 536232002820 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 536232002821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 536232002822 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536232002823 YmaF family; Region: YmaF; pfam12788 536232002824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536232002825 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 536232002826 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536232002827 Amino acid permease; Region: AA_permease_2; pfam13520 536232002828 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232002829 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232002830 Walker A/P-loop; other site 536232002831 ATP binding site [chemical binding]; other site 536232002832 Q-loop/lid; other site 536232002833 ABC transporter signature motif; other site 536232002834 Walker B; other site 536232002835 D-loop; other site 536232002836 H-loop/switch region; other site 536232002837 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 536232002838 FtsX-like permease family; Region: FtsX; pfam02687 536232002839 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232002840 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 536232002841 active site 536232002842 phosphorylation site [posttranslational modification] 536232002843 intermolecular recognition site; other site 536232002844 dimerization interface [polypeptide binding]; other site 536232002845 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 536232002846 DNA binding site [nucleotide binding] 536232002847 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232002848 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 536232002849 dimerization interface [polypeptide binding]; other site 536232002850 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 536232002851 dimer interface [polypeptide binding]; other site 536232002852 phosphorylation site [posttranslational modification] 536232002853 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 536232002854 ATP binding site [chemical binding]; other site 536232002855 Mg2+ binding site [ion binding]; other site 536232002856 G-X-G motif; other site 536232002857 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 536232002858 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 536232002859 homodimer interface [polypeptide binding]; other site 536232002860 substrate-cofactor binding pocket; other site 536232002861 catalytic residue [active] 536232002862 BioY family; Region: BioY; pfam02632 536232002863 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 536232002864 putative acetyltransferase YhhY; Provisional; Region: PRK10140 536232002865 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232002866 Coenzyme A binding pocket [chemical binding]; other site 536232002867 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 536232002868 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 536232002869 Catalytic site [active] 536232002870 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 536232002871 homotrimer interface [polypeptide binding]; other site 536232002872 Walker A motif; other site 536232002873 GTP binding site [chemical binding]; other site 536232002874 Walker B motif; other site 536232002875 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 536232002876 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536232002877 DNA binding residues [nucleotide binding] 536232002878 dimer interface [polypeptide binding]; other site 536232002879 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 536232002880 cobyric acid synthase; Provisional; Region: PRK00784 536232002881 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232002882 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232002883 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 536232002884 catalytic triad [active] 536232002885 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 536232002886 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 536232002887 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 536232002888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232002889 homodimer interface [polypeptide binding]; other site 536232002890 catalytic residue [active] 536232002891 cobalt transport protein CbiM; Validated; Region: PRK08319 536232002892 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 536232002893 cobalt transport protein CbiN; Provisional; Region: PRK02898 536232002894 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 536232002895 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 536232002896 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 536232002897 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 536232002898 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 536232002899 domain interfaces; other site 536232002900 active site 536232002901 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 536232002902 active site 536232002903 SAM binding site [chemical binding]; other site 536232002904 homodimer interface [polypeptide binding]; other site 536232002905 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 536232002906 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 536232002907 active site 536232002908 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 536232002909 dimer interface [polypeptide binding]; other site 536232002910 active site 536232002911 Schiff base residues; other site 536232002912 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 536232002913 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232002914 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 536232002915 catalytic triad [active] 536232002916 precorrin-8X methylmutase; Validated; Region: cbiC; PRK05575 536232002917 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 536232002918 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 536232002919 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536232002920 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232002921 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536232002922 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232002923 Zn2+ binding site [ion binding]; other site 536232002924 Mg2+ binding site [ion binding]; other site 536232002925 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232002926 Predicted ATPase [General function prediction only]; Region: COG3910 536232002927 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 536232002928 Walker A/P-loop; other site 536232002929 ATP binding site [chemical binding]; other site 536232002930 Q-loop/lid; other site 536232002931 ABC transporter signature motif; other site 536232002932 Walker B; other site 536232002933 D-loop; other site 536232002934 H-loop/switch region; other site 536232002935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232002936 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536232002937 Coenzyme A binding pocket [chemical binding]; other site 536232002938 Fic family protein [Function unknown]; Region: COG3177 536232002939 Fic/DOC family; Region: Fic; pfam02661 536232002940 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 536232002941 FMN binding site [chemical binding]; other site 536232002942 dimer interface [polypeptide binding]; other site 536232002943 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 536232002944 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 536232002945 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 536232002946 active site 536232002947 putative homodimer interface [polypeptide binding]; other site 536232002948 SAM binding site [chemical binding]; other site 536232002949 SdpI/YhfL protein family; Region: SdpI; pfam13630 536232002950 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 536232002951 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 536232002952 S-adenosylmethionine binding site [chemical binding]; other site 536232002953 hypothetical protein; Provisional; Region: PRK06771 536232002954 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536232002955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232002956 Coenzyme A binding pocket [chemical binding]; other site 536232002957 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 536232002958 active site 536232002959 SAM binding site [chemical binding]; other site 536232002960 homodimer interface [polypeptide binding]; other site 536232002961 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 536232002962 active site 536232002963 SAM binding site [chemical binding]; other site 536232002964 homodimer interface [polypeptide binding]; other site 536232002965 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 536232002966 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 536232002967 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 536232002968 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 536232002969 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 536232002970 active site 536232002971 SAM binding site [chemical binding]; other site 536232002972 homodimer interface [polypeptide binding]; other site 536232002973 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 536232002974 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 536232002975 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 536232002976 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 536232002977 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 536232002978 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 536232002979 active site 536232002980 C-terminal domain interface [polypeptide binding]; other site 536232002981 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 536232002982 active site 536232002983 N-terminal domain interface [polypeptide binding]; other site 536232002984 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 536232002985 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 536232002986 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 536232002987 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 536232002988 homodimer interface [polypeptide binding]; other site 536232002989 Walker A motif; other site 536232002990 ATP binding site [chemical binding]; other site 536232002991 hydroxycobalamin binding site [chemical binding]; other site 536232002992 Walker B motif; other site 536232002993 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536232002994 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 536232002995 ligand binding site [chemical binding]; other site 536232002996 flexible hinge region; other site 536232002997 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 536232002998 putative switch regulator; other site 536232002999 non-specific DNA interactions [nucleotide binding]; other site 536232003000 DNA binding site [nucleotide binding] 536232003001 sequence specific DNA binding site [nucleotide binding]; other site 536232003002 putative cAMP binding site [chemical binding]; other site 536232003003 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 536232003004 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 536232003005 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 536232003006 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 536232003007 FAD binding pocket [chemical binding]; other site 536232003008 FAD binding motif [chemical binding]; other site 536232003009 phosphate binding motif [ion binding]; other site 536232003010 beta-alpha-beta structure motif; other site 536232003011 NAD binding pocket [chemical binding]; other site 536232003012 Iron coordination center [ion binding]; other site 536232003013 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 536232003014 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536232003015 4Fe-4S binding domain; Region: Fer4; pfam00037 536232003016 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 536232003017 putative MPT binding site; other site 536232003018 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232003019 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 536232003020 Walker A/P-loop; other site 536232003021 ATP binding site [chemical binding]; other site 536232003022 Q-loop/lid; other site 536232003023 ABC transporter signature motif; other site 536232003024 Walker B; other site 536232003025 D-loop; other site 536232003026 H-loop/switch region; other site 536232003027 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 536232003028 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232003029 active site 536232003030 phosphorylation site [posttranslational modification] 536232003031 intermolecular recognition site; other site 536232003032 dimerization interface [polypeptide binding]; other site 536232003033 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 536232003034 DNA binding site [nucleotide binding] 536232003035 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232003036 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 536232003037 dimer interface [polypeptide binding]; other site 536232003038 phosphorylation site [posttranslational modification] 536232003039 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 536232003040 ATP binding site [chemical binding]; other site 536232003041 G-X-G motif; other site 536232003042 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536232003043 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536232003044 Walker A/P-loop; other site 536232003045 ATP binding site [chemical binding]; other site 536232003046 Q-loop/lid; other site 536232003047 ABC transporter signature motif; other site 536232003048 Walker B; other site 536232003049 D-loop; other site 536232003050 H-loop/switch region; other site 536232003051 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536232003052 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 536232003053 ABC-ATPase subunit interface; other site 536232003054 dimer interface [polypeptide binding]; other site 536232003055 putative PBP binding regions; other site 536232003056 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 536232003057 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 536232003058 putative ligand binding residues [chemical binding]; other site 536232003059 dUMP phosphatase; Provisional; Region: PRK09449 536232003060 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 536232003061 motif II; other site 536232003062 Protein of unknown function, DUF606; Region: DUF606; pfam04657 536232003063 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536232003064 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 536232003065 putative switch regulator; other site 536232003066 DNA binding site [nucleotide binding] 536232003067 sequence specific DNA binding site [nucleotide binding]; other site 536232003068 putative cAMP binding site [chemical binding]; other site 536232003069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536232003070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536232003071 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 536232003072 dimerization interface [polypeptide binding]; other site 536232003073 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 536232003074 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 536232003075 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232003076 catalytic residue [active] 536232003077 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 536232003078 Integrase core domain; Region: rve; pfam00665 536232003079 dihydroxyacetone kinase; Provisional; Region: PRK14479 536232003080 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 536232003081 DAK2 domain; Region: Dak2; pfam02734 536232003082 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 536232003083 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 536232003084 dimer interface [polypeptide binding]; other site 536232003085 active site 536232003086 metal binding site [ion binding]; metal-binding site 536232003087 Sensory domain found in PocR; Region: PocR; pfam10114 536232003088 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 536232003089 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232003090 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232003091 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232003092 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536232003093 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232003094 Coenzyme A binding pocket [chemical binding]; other site 536232003095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232003096 Coenzyme A binding pocket [chemical binding]; other site 536232003097 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 536232003098 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 536232003099 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 536232003100 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536232003101 active site 536232003102 catalytic tetrad [active] 536232003103 TfoX N-terminal domain; Region: TfoX_N; pfam04993 536232003104 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536232003105 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536232003106 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 536232003107 Coenzyme A binding pocket [chemical binding]; other site 536232003108 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 536232003109 NlpC/P60 family; Region: NLPC_P60; pfam00877 536232003110 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 536232003111 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 536232003112 active site 536232003113 purine riboside binding site [chemical binding]; other site 536232003114 Predicted membrane protein [Function unknown]; Region: COG1511 536232003115 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 536232003116 Predicted membrane protein [Function unknown]; Region: COG1511 536232003117 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 536232003118 Predicted membrane protein [Function unknown]; Region: COG1511 536232003119 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 536232003120 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 536232003121 Domain of unknown function (DUF4184); Region: DUF4184; pfam13803 536232003122 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 536232003123 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 536232003124 ATP binding site [chemical binding]; other site 536232003125 putative Mg++ binding site [ion binding]; other site 536232003126 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 536232003127 nucleotide binding region [chemical binding]; other site 536232003128 ATP-binding site [chemical binding]; other site 536232003129 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 536232003130 HRDC domain; Region: HRDC; pfam00570 536232003131 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 536232003132 Rubrerythrin [Energy production and conversion]; Region: COG1592 536232003133 diiron binding motif [ion binding]; other site 536232003134 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 536232003135 active site 536232003136 metal binding site [ion binding]; metal-binding site 536232003137 homotetramer interface [polypeptide binding]; other site 536232003138 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 536232003139 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 536232003140 active site 536232003141 phosphorylation site [posttranslational modification] 536232003142 intermolecular recognition site; other site 536232003143 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 536232003144 TPR repeat; Region: TPR_11; pfam13414 536232003145 TPR motif; other site 536232003146 binding surface 536232003147 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 536232003148 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 536232003149 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 536232003150 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 536232003151 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 536232003152 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 536232003153 FeS/SAM binding site; other site 536232003154 Ycf46; Provisional; Region: ycf46; CHL00195 536232003155 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 536232003156 Walker A motif; other site 536232003157 ATP binding site [chemical binding]; other site 536232003158 Walker B motif; other site 536232003159 arginine finger; other site 536232003160 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 536232003161 L-lactate permease; Region: Lactate_perm; cl00701 536232003162 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 536232003163 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 536232003164 Ligand binding site [chemical binding]; other site 536232003165 Electron transfer flavoprotein domain; Region: ETF; pfam01012 536232003166 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 536232003167 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 536232003168 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 536232003169 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536232003170 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536232003171 FAD binding domain; Region: FAD_binding_4; pfam01565 536232003172 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232003173 MarR family; Region: MarR; pfam01047 536232003174 Putative cyclase; Region: Cyclase; pfam04199 536232003175 aspartate aminotransferase; Provisional; Region: PRK06836 536232003176 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 536232003177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232003178 homodimer interface [polypeptide binding]; other site 536232003179 catalytic residue [active] 536232003180 Putative cyclase; Region: Cyclase; pfam04199 536232003181 Putative cyclase; Region: Cyclase; cl00814 536232003182 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 536232003183 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 536232003184 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536232003185 DNA binding residues [nucleotide binding] 536232003186 drug binding residues [chemical binding]; other site 536232003187 dimer interface [polypeptide binding]; other site 536232003188 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 536232003189 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 536232003190 B3/4 domain; Region: B3_4; pfam03483 536232003191 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 536232003192 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 536232003193 Dimer interface [polypeptide binding]; other site 536232003194 anticodon binding site; other site 536232003195 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 536232003196 homodimer interface [polypeptide binding]; other site 536232003197 motif 1; other site 536232003198 motif 2; other site 536232003199 active site 536232003200 motif 3; other site 536232003201 flavodoxin; Provisional; Region: PRK06242 536232003202 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 536232003203 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232003204 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232003205 WHG domain; Region: WHG; pfam13305 536232003206 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 536232003207 dUMP phosphatase; Provisional; Region: PRK09449 536232003208 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 536232003209 motif II; other site 536232003210 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 536232003211 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 536232003212 ligand binding site [chemical binding]; other site 536232003213 flexible hinge region; other site 536232003214 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 536232003215 putative switch regulator; other site 536232003216 DNA binding site [nucleotide binding] 536232003217 sequence specific DNA binding site [nucleotide binding]; other site 536232003218 putative cAMP binding site [chemical binding]; other site 536232003219 DJ-1 family protein; Region: not_thiJ; TIGR01383 536232003220 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 536232003221 conserved cys residue [active] 536232003222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536232003223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536232003224 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 536232003225 dimerization interface [polypeptide binding]; other site 536232003226 YoaP-like; Region: YoaP; pfam14268 536232003227 FeoA domain; Region: FeoA; pfam04023 536232003228 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 536232003229 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 536232003230 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 536232003231 G1 box; other site 536232003232 GTP/Mg2+ binding site [chemical binding]; other site 536232003233 Switch I region; other site 536232003234 G2 box; other site 536232003235 G3 box; other site 536232003236 Switch II region; other site 536232003237 G4 box; other site 536232003238 G5 box; other site 536232003239 Nucleoside recognition; Region: Gate; pfam07670 536232003240 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 536232003241 Nucleoside recognition; Region: Gate; pfam07670 536232003242 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536232003243 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232003244 Coenzyme A binding pocket [chemical binding]; other site 536232003245 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 536232003246 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 536232003247 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 536232003248 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232003249 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 536232003250 active site 536232003251 phosphorylation site [posttranslational modification] 536232003252 intermolecular recognition site; other site 536232003253 dimerization interface [polypeptide binding]; other site 536232003254 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 536232003255 DNA binding site [nucleotide binding] 536232003256 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 536232003257 dimer interface [polypeptide binding]; other site 536232003258 phosphorylation site [posttranslational modification] 536232003259 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 536232003260 ATP binding site [chemical binding]; other site 536232003261 Mg2+ binding site [ion binding]; other site 536232003262 G-X-G motif; other site 536232003263 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 536232003264 Cytochrome P450; Region: p450; cl12078 536232003265 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 536232003266 metal-binding site [ion binding] 536232003267 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 536232003268 Family description; Region: DsbD_2; pfam13386 536232003269 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 536232003270 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 536232003271 Predicted membrane protein [Function unknown]; Region: COG3462 536232003272 Short C-terminal domain; Region: SHOCT; pfam09851 536232003273 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232003274 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 536232003275 active site 536232003276 phosphorylation site [posttranslational modification] 536232003277 intermolecular recognition site; other site 536232003278 dimerization interface [polypeptide binding]; other site 536232003279 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 536232003280 DNA binding site [nucleotide binding] 536232003281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232003282 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 536232003283 dimerization interface [polypeptide binding]; other site 536232003284 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 536232003285 dimer interface [polypeptide binding]; other site 536232003286 phosphorylation site [posttranslational modification] 536232003287 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 536232003288 ATP binding site [chemical binding]; other site 536232003289 Mg2+ binding site [ion binding]; other site 536232003290 G-X-G motif; other site 536232003291 A new structural DNA glycosylase; Region: AlkD_like; cd06561 536232003292 active site 536232003293 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232003294 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232003295 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232003296 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536232003297 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 536232003298 ABC-ATPase subunit interface; other site 536232003299 dimer interface [polypeptide binding]; other site 536232003300 putative PBP binding regions; other site 536232003301 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 536232003302 ABC-ATPase subunit interface; other site 536232003303 dimer interface [polypeptide binding]; other site 536232003304 putative PBP binding regions; other site 536232003305 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 536232003306 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536232003307 Walker A/P-loop; other site 536232003308 ATP binding site [chemical binding]; other site 536232003309 Q-loop/lid; other site 536232003310 ABC transporter signature motif; other site 536232003311 Walker B; other site 536232003312 D-loop; other site 536232003313 H-loop/switch region; other site 536232003314 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 536232003315 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 536232003316 putative ligand binding residues [chemical binding]; other site 536232003317 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232003318 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232003319 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232003320 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232003321 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232003322 Walker A/P-loop; other site 536232003323 ATP binding site [chemical binding]; other site 536232003324 Q-loop/lid; other site 536232003325 ABC transporter signature motif; other site 536232003326 Walker B; other site 536232003327 D-loop; other site 536232003328 H-loop/switch region; other site 536232003329 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232003330 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232003331 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 536232003332 Walker A/P-loop; other site 536232003333 ATP binding site [chemical binding]; other site 536232003334 Q-loop/lid; other site 536232003335 ABC transporter signature motif; other site 536232003336 Walker B; other site 536232003337 D-loop; other site 536232003338 H-loop/switch region; other site 536232003339 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 536232003340 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 536232003341 ATP binding site [chemical binding]; other site 536232003342 Mg2+ binding site [ion binding]; other site 536232003343 G-X-G motif; other site 536232003344 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 536232003345 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 536232003346 active site 536232003347 phosphorylation site [posttranslational modification] 536232003348 intermolecular recognition site; other site 536232003349 dimerization interface [polypeptide binding]; other site 536232003350 LytTr DNA-binding domain; Region: LytTR; smart00850 536232003351 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 536232003352 conserved repeat domain; Region: B_ant_repeat; TIGR01451 536232003353 Domain of unknown function DUF11; Region: DUF11; cl17728 536232003354 Domain of unknown function DUF11; Region: DUF11; cl17728 536232003355 Domain of unknown function DUF11; Region: DUF11; pfam01345 536232003356 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 536232003357 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 536232003358 putative active site [active] 536232003359 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 536232003360 Interdomain contacts; other site 536232003361 Cytokine receptor motif; other site 536232003362 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 536232003363 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 536232003364 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 536232003365 catalytic residues [active] 536232003366 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 536232003367 Predicted membrane protein [Function unknown]; Region: COG4129 536232003368 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 536232003369 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 536232003370 Predicted Ser/Thr protein kinase [Signal transduction mechanisms]; Region: COG2112 536232003371 Predicted transcriptional regulators [Transcription]; Region: COG1695 536232003372 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 536232003373 putative DNA binding site [nucleotide binding]; other site 536232003374 putative Zn2+ binding site [ion binding]; other site 536232003375 CAAX protease self-immunity; Region: Abi; pfam02517 536232003376 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 536232003377 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 536232003378 Peptidase family M28; Region: Peptidase_M28; pfam04389 536232003379 metal binding site [ion binding]; metal-binding site 536232003380 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232003381 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 536232003382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232003383 Walker A/P-loop; other site 536232003384 ATP binding site [chemical binding]; other site 536232003385 ABC transporter signature motif; other site 536232003386 Walker B; other site 536232003387 D-loop; other site 536232003388 H-loop/switch region; other site 536232003389 ABC transporter; Region: ABC_tran_2; pfam12848 536232003390 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232003391 Nucleoside recognition; Region: Gate; pfam07670 536232003392 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 536232003393 ArsC family; Region: ArsC; pfam03960 536232003394 catalytic residue [active] 536232003395 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 536232003396 FeS/SAM binding site; other site 536232003397 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 536232003398 Predicted dehydrogenase [General function prediction only]; Region: COG0579 536232003399 hydroxyglutarate oxidase; Provisional; Region: PRK11728 536232003400 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 536232003401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536232003402 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 536232003403 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cd00368 536232003404 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 536232003405 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 536232003406 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 536232003407 putative substrate translocation pore; other site 536232003408 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 536232003409 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 536232003410 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 536232003411 active site 536232003412 HIGH motif; other site 536232003413 KMSK motif region; other site 536232003414 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 536232003415 tRNA binding surface [nucleotide binding]; other site 536232003416 anticodon binding site; other site 536232003417 transaminase; Validated; Region: PRK07324 536232003418 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 536232003419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232003420 homodimer interface [polypeptide binding]; other site 536232003421 catalytic residue [active] 536232003422 FOG: CBS domain [General function prediction only]; Region: COG0517 536232003423 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 536232003424 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 536232003425 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 536232003426 G1 box; other site 536232003427 GTP/Mg2+ binding site [chemical binding]; other site 536232003428 Switch I region; other site 536232003429 G2 box; other site 536232003430 G3 box; other site 536232003431 Switch II region; other site 536232003432 G4 box; other site 536232003433 G5 box; other site 536232003434 Nucleoside recognition; Region: Gate; pfam07670 536232003435 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 536232003436 Nucleoside recognition; Region: Gate; pfam07670 536232003437 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 536232003438 PilZ domain; Region: PilZ; pfam07238 536232003439 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 536232003440 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 536232003441 motif II; other site 536232003442 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 536232003443 active site 536232003444 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 536232003445 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 536232003446 aromatic chitin/cellulose binding site residues [chemical binding]; other site 536232003447 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 536232003448 aromatic chitin/cellulose binding site residues [chemical binding]; other site 536232003449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232003450 Coenzyme A binding pocket [chemical binding]; other site 536232003451 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 536232003452 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 536232003453 Walker A/P-loop; other site 536232003454 ATP binding site [chemical binding]; other site 536232003455 Q-loop/lid; other site 536232003456 ABC transporter signature motif; other site 536232003457 Walker B; other site 536232003458 D-loop; other site 536232003459 H-loop/switch region; other site 536232003460 NIL domain; Region: NIL; pfam09383 536232003461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232003462 dimer interface [polypeptide binding]; other site 536232003463 conserved gate region; other site 536232003464 ABC-ATPase subunit interface; other site 536232003465 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 536232003466 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 536232003467 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 536232003468 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 536232003469 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 536232003470 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 536232003471 metal binding site [ion binding]; metal-binding site 536232003472 putative dimer interface [polypeptide binding]; other site 536232003473 RNase_H superfamily; Region: RNase_H_2; pfam13482 536232003474 Transcriptional regulators [Transcription]; Region: FadR; COG2186 536232003475 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232003476 DNA-binding site [nucleotide binding]; DNA binding site 536232003477 FCD domain; Region: FCD; pfam07729 536232003478 Uncharacterized conserved protein [Function unknown]; Region: COG1284 536232003479 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 536232003480 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 536232003481 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 536232003482 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 536232003483 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 536232003484 active site 536232003485 HIGH motif; other site 536232003486 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 536232003487 active site 536232003488 KMSKS motif; other site 536232003489 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 536232003490 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 536232003491 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 536232003492 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 536232003493 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536232003494 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232003495 Beta-Casp domain; Region: Beta-Casp; smart01027 536232003496 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 536232003497 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232003498 Zn2+ binding site [ion binding]; other site 536232003499 Mg2+ binding site [ion binding]; other site 536232003500 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 536232003501 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 536232003502 NAD(P) binding site [chemical binding]; other site 536232003503 catalytic residues [active] 536232003504 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536232003505 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 536232003506 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536232003507 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 536232003508 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232003509 MarR family; Region: MarR_2; pfam12802 536232003510 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 536232003511 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 536232003512 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536232003513 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 536232003514 hypothetical protein; Provisional; Region: PRK11622 536232003515 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 536232003516 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232003517 dimer interface [polypeptide binding]; other site 536232003518 conserved gate region; other site 536232003519 putative PBP binding loops; other site 536232003520 ABC-ATPase subunit interface; other site 536232003521 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536232003522 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232003523 dimer interface [polypeptide binding]; other site 536232003524 conserved gate region; other site 536232003525 putative PBP binding loops; other site 536232003526 ABC-ATPase subunit interface; other site 536232003527 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 536232003528 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 536232003529 Walker A/P-loop; other site 536232003530 ATP binding site [chemical binding]; other site 536232003531 Q-loop/lid; other site 536232003532 ABC transporter signature motif; other site 536232003533 Walker B; other site 536232003534 D-loop; other site 536232003535 H-loop/switch region; other site 536232003536 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 536232003537 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536232003538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232003539 Coenzyme A binding pocket [chemical binding]; other site 536232003540 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 536232003541 catalytic residues [active] 536232003542 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 536232003543 maltose O-acetyltransferase; Provisional; Region: PRK10092 536232003544 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 536232003545 active site 536232003546 substrate binding site [chemical binding]; other site 536232003547 trimer interface [polypeptide binding]; other site 536232003548 CoA binding site [chemical binding]; other site 536232003549 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 536232003550 Biotin operon repressor [Transcription]; Region: BirA; COG1654 536232003551 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 536232003552 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 536232003553 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 536232003554 metal-binding site [ion binding] 536232003555 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 536232003556 FOG: CBS domain [General function prediction only]; Region: COG0517 536232003557 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232003558 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 536232003559 dimer interface [polypeptide binding]; other site 536232003560 phosphorylation site [posttranslational modification] 536232003561 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 536232003562 ATP binding site [chemical binding]; other site 536232003563 Mg2+ binding site [ion binding]; other site 536232003564 G-X-G motif; other site 536232003565 Patatin-like phospholipase; Region: Patatin; pfam01734 536232003566 nucleophile elbow; other site 536232003567 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 536232003568 MgtE intracellular N domain; Region: MgtE_N; smart00924 536232003569 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 536232003570 Divalent cation transporter; Region: MgtE; pfam01769 536232003571 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 536232003572 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232003573 catalytic residue [active] 536232003574 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 536232003575 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 536232003576 putative ligand binding site [chemical binding]; other site 536232003577 NAD binding site [chemical binding]; other site 536232003578 dimerization interface [polypeptide binding]; other site 536232003579 catalytic site [active] 536232003580 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 536232003581 Uncharacterized conserved protein [Function unknown]; Region: COG4198 536232003582 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 536232003583 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232003584 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 536232003585 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 536232003586 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 536232003587 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 536232003588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 536232003589 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232003590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 536232003591 BCCT family transporter; Region: BCCT; pfam02028 536232003592 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 536232003593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232003594 DNA-binding site [nucleotide binding]; DNA binding site 536232003595 TrkA-C domain; Region: TrkA_C; pfam02080 536232003596 Flavin Reductases; Region: FlaRed; cl00801 536232003597 Isochorismatase family; Region: Isochorismatase; pfam00857 536232003598 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 536232003599 catalytic triad [active] 536232003600 conserved cis-peptide bond; other site 536232003601 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 536232003602 active site residue [active] 536232003603 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 536232003604 TPR repeat; Region: TPR_11; pfam13414 536232003605 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 536232003606 binding surface 536232003607 TPR motif; other site 536232003608 TPR repeat; Region: TPR_11; pfam13414 536232003609 TPR repeat; Region: TPR_11; pfam13414 536232003610 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 536232003611 binding surface 536232003612 TPR motif; other site 536232003613 TPR repeat; Region: TPR_11; pfam13414 536232003614 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232003615 active site 536232003616 Protein of unknown function (DUF3867); Region: DUF3867; pfam12983 536232003617 Rhodanese Homology Domain; Region: RHOD; smart00450 536232003618 active site residue [active] 536232003619 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 536232003620 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 536232003621 active site residue [active] 536232003622 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 536232003623 active site residue [active] 536232003624 Domain of unknown function DUF20; Region: UPF0118; pfam01594 536232003625 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 536232003626 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 536232003627 putative metal binding site [ion binding]; other site 536232003628 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 536232003629 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 536232003630 active site 536232003631 metal-binding site [ion binding] 536232003632 nucleotide-binding site [chemical binding]; other site 536232003633 nucleotide-binding site [chemical binding]; other site 536232003634 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 536232003635 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 536232003636 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 536232003637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232003638 dimer interface [polypeptide binding]; other site 536232003639 conserved gate region; other site 536232003640 putative PBP binding loops; other site 536232003641 ABC-ATPase subunit interface; other site 536232003642 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232003643 dimer interface [polypeptide binding]; other site 536232003644 conserved gate region; other site 536232003645 putative PBP binding loops; other site 536232003646 ABC-ATPase subunit interface; other site 536232003647 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 536232003648 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232003649 Walker A/P-loop; other site 536232003650 ATP binding site [chemical binding]; other site 536232003651 Q-loop/lid; other site 536232003652 ABC transporter signature motif; other site 536232003653 Walker B; other site 536232003654 D-loop; other site 536232003655 H-loop/switch region; other site 536232003656 TOBE domain; Region: TOBE_2; pfam08402 536232003657 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 536232003658 Double zinc ribbon; Region: DZR; pfam12773 536232003659 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 536232003660 Double zinc ribbon; Region: DZR; pfam12773 536232003661 YARHG domain; Region: YARHG; pfam13308 536232003662 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 536232003663 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 536232003664 RNA binding site [nucleotide binding]; other site 536232003665 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 536232003666 RNA binding site [nucleotide binding]; other site 536232003667 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 536232003668 RNA binding site [nucleotide binding]; other site 536232003669 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 536232003670 RNA binding site [nucleotide binding]; other site 536232003671 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 536232003672 active site 536232003673 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 536232003674 hexamer interface [polypeptide binding]; other site 536232003675 RNA binding site [nucleotide binding]; other site 536232003676 Histidine-zinc binding site [chemical binding]; other site 536232003677 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 536232003678 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 536232003679 zinc binding site [ion binding]; other site 536232003680 putative ligand binding site [chemical binding]; other site 536232003681 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536232003682 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 536232003683 TM-ABC transporter signature motif; other site 536232003684 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 536232003685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232003686 Walker A/P-loop; other site 536232003687 ATP binding site [chemical binding]; other site 536232003688 Q-loop/lid; other site 536232003689 ABC transporter signature motif; other site 536232003690 Walker B; other site 536232003691 D-loop; other site 536232003692 H-loop/switch region; other site 536232003693 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 536232003694 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 536232003695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232003696 homodimer interface [polypeptide binding]; other site 536232003697 catalytic residue [active] 536232003698 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 536232003699 EamA-like transporter family; Region: EamA; pfam00892 536232003700 EamA-like transporter family; Region: EamA; pfam00892 536232003701 putative kinase; Provisional; Region: PRK09954 536232003702 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 536232003703 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 536232003704 substrate binding site [chemical binding]; other site 536232003705 ATP binding site [chemical binding]; other site 536232003706 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 536232003707 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 536232003708 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 536232003709 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 536232003710 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 536232003711 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 536232003712 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 536232003713 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 536232003714 homodimer interface [polypeptide binding]; other site 536232003715 NADP binding site [chemical binding]; other site 536232003716 substrate binding site [chemical binding]; other site 536232003717 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 536232003718 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 536232003719 active site 536232003720 motif I; other site 536232003721 motif II; other site 536232003722 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 536232003723 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232003724 Coenzyme A binding pocket [chemical binding]; other site 536232003725 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 536232003726 ZIP Zinc transporter; Region: Zip; pfam02535 536232003727 Predicted transcriptional regulator [Transcription]; Region: COG1959 536232003728 Transcriptional regulator; Region: Rrf2; cl17282 536232003729 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 536232003730 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 536232003731 dimer interface [polypeptide binding]; other site 536232003732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232003733 catalytic residue [active] 536232003734 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536232003735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232003736 dimer interface [polypeptide binding]; other site 536232003737 conserved gate region; other site 536232003738 putative PBP binding loops; other site 536232003739 ABC-ATPase subunit interface; other site 536232003740 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536232003741 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 536232003742 substrate binding pocket [chemical binding]; other site 536232003743 membrane-bound complex binding site; other site 536232003744 hinge residues; other site 536232003745 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 536232003746 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 536232003747 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232003748 catalytic residue [active] 536232003749 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 536232003750 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 536232003751 Ligand Binding Site [chemical binding]; other site 536232003752 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 536232003753 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 536232003754 Ligand Binding Site [chemical binding]; other site 536232003755 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 536232003756 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 536232003757 active site 536232003758 phosphorylation site [posttranslational modification] 536232003759 intermolecular recognition site; other site 536232003760 LytTr DNA-binding domain; Region: LytTR; pfam04397 536232003761 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 536232003762 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 536232003763 ATP binding site [chemical binding]; other site 536232003764 Mg2+ binding site [ion binding]; other site 536232003765 G-X-G motif; other site 536232003766 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232003767 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 536232003768 Walker A/P-loop; other site 536232003769 ATP binding site [chemical binding]; other site 536232003770 Q-loop/lid; other site 536232003771 ABC transporter signature motif; other site 536232003772 Walker B; other site 536232003773 D-loop; other site 536232003774 H-loop/switch region; other site 536232003775 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 536232003776 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 536232003777 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 536232003778 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 536232003779 active site 536232003780 catalytic site [active] 536232003781 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 536232003782 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 536232003783 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 536232003784 dimer interface [polypeptide binding]; other site 536232003785 PYR/PP interface [polypeptide binding]; other site 536232003786 TPP binding site [chemical binding]; other site 536232003787 substrate binding site [chemical binding]; other site 536232003788 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 536232003789 Domain of unknown function; Region: EKR; pfam10371 536232003790 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 536232003791 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 536232003792 TPP-binding site [chemical binding]; other site 536232003793 dimer interface [polypeptide binding]; other site 536232003794 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 536232003795 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 536232003796 Uncharacterized conserved protein [Function unknown]; Region: COG0397 536232003797 hypothetical protein; Validated; Region: PRK00029 536232003798 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 536232003799 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536232003800 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536232003801 Helix-turn-helix domain; Region: HTH_18; pfam12833 536232003802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232003803 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 536232003804 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 536232003805 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 536232003806 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 536232003807 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536232003808 nucleotide binding site [chemical binding]; other site 536232003809 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 536232003810 beta-galactosidase; Region: BGL; TIGR03356 536232003811 Glycosyl hydrolase family 14; Region: Glyco_hydro_14; pfam01373 536232003812 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 536232003813 starch-binding site 2 [chemical binding]; other site 536232003814 starch-binding site 1 [chemical binding]; other site 536232003815 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 536232003816 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 536232003817 active site 536232003818 HIGH motif; other site 536232003819 dimer interface [polypeptide binding]; other site 536232003820 KMSKS motif; other site 536232003821 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 536232003822 RNA binding surface [nucleotide binding]; other site 536232003823 Predicted transcriptional regulators [Transcription]; Region: COG1725 536232003824 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232003825 DNA-binding site [nucleotide binding]; DNA binding site 536232003826 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232003827 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536232003828 Walker A/P-loop; other site 536232003829 ATP binding site [chemical binding]; other site 536232003830 Q-loop/lid; other site 536232003831 ABC transporter signature motif; other site 536232003832 Walker B; other site 536232003833 D-loop; other site 536232003834 H-loop/switch region; other site 536232003835 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536232003836 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 536232003837 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536232003838 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232003839 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 536232003840 active site 536232003841 PAS domain S-box; Region: sensory_box; TIGR00229 536232003842 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 536232003843 putative active site [active] 536232003844 heme pocket [chemical binding]; other site 536232003845 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536232003846 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536232003847 metal binding site [ion binding]; metal-binding site 536232003848 active site 536232003849 I-site; other site 536232003850 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 536232003851 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 536232003852 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 536232003853 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 536232003854 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 536232003855 Uncharacterized conserved protein [Function unknown]; Region: COG5663 536232003856 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 536232003857 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 536232003858 active site 536232003859 dimer interface [polypeptide binding]; other site 536232003860 Yip1 domain; Region: Yip1; pfam04893 536232003861 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 536232003862 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536232003863 FtsX-like permease family; Region: FtsX; pfam02687 536232003864 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 536232003865 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232003866 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232003867 Walker A/P-loop; other site 536232003868 ATP binding site [chemical binding]; other site 536232003869 Q-loop/lid; other site 536232003870 ABC transporter signature motif; other site 536232003871 Walker B; other site 536232003872 D-loop; other site 536232003873 H-loop/switch region; other site 536232003874 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 536232003875 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232003876 dimer interface [polypeptide binding]; other site 536232003877 conserved gate region; other site 536232003878 putative PBP binding loops; other site 536232003879 ABC-ATPase subunit interface; other site 536232003880 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 536232003881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232003882 dimer interface [polypeptide binding]; other site 536232003883 conserved gate region; other site 536232003884 putative PBP binding loops; other site 536232003885 ABC-ATPase subunit interface; other site 536232003886 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536232003887 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 536232003888 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 536232003889 CotJB protein; Region: CotJB; pfam12652 536232003890 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 536232003891 dimanganese center [ion binding]; other site 536232003892 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 536232003893 Tubby C 2; Region: Tub_2; cl02043 536232003894 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 536232003895 trimer interface [polypeptide binding]; other site 536232003896 active site 536232003897 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 536232003898 small acid-soluble spore protein, H-type; Region: SASP_H; TIGR02861 536232003899 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 536232003900 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 536232003901 non-specific DNA binding site [nucleotide binding]; other site 536232003902 salt bridge; other site 536232003903 sequence-specific DNA binding site [nucleotide binding]; other site 536232003904 Cupin domain; Region: Cupin_2; pfam07883 536232003905 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 536232003906 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 536232003907 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232003908 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232003909 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 536232003910 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232003911 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 536232003912 Walker A/P-loop; other site 536232003913 ATP binding site [chemical binding]; other site 536232003914 Q-loop/lid; other site 536232003915 ABC transporter signature motif; other site 536232003916 Walker B; other site 536232003917 D-loop; other site 536232003918 H-loop/switch region; other site 536232003919 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536232003920 amino acid carrier protein; Region: agcS; TIGR00835 536232003921 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 536232003922 non-specific DNA binding site [nucleotide binding]; other site 536232003923 salt bridge; other site 536232003924 sequence-specific DNA binding site [nucleotide binding]; other site 536232003925 Helix-turn-helix domain; Region: HTH_17; pfam12728 536232003926 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 536232003927 catalytic residues [active] 536232003928 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 536232003929 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 536232003930 tetrameric interface [polypeptide binding]; other site 536232003931 activator binding site; other site 536232003932 NADP binding site [chemical binding]; other site 536232003933 substrate binding site [chemical binding]; other site 536232003934 catalytic residues [active] 536232003935 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 536232003936 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536232003937 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 536232003938 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 536232003939 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 536232003940 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 536232003941 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536232003942 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536232003943 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 536232003944 catalytic residues [active] 536232003945 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 536232003946 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 536232003947 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 536232003948 dimer interface [polypeptide binding]; other site 536232003949 active site 536232003950 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 536232003951 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 536232003952 active site 536232003953 DNA binding site [nucleotide binding] 536232003954 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 536232003955 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 536232003956 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 536232003957 Phosphotransferase enzyme family; Region: APH; pfam01636 536232003958 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 536232003959 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 536232003960 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536232003961 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 536232003962 intersubunit interface [polypeptide binding]; other site 536232003963 active site 536232003964 Zn2+ binding site [ion binding]; other site 536232003965 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536232003966 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 536232003967 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536232003968 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 536232003969 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 536232003970 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 536232003971 Predicted membrane protein [Function unknown]; Region: COG2323 536232003972 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 536232003973 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 536232003974 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 536232003975 A short protein domain of unknown function; Region: IDEAL; smart00914 536232003976 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 536232003977 PQ loop repeat; Region: PQ-loop; cl17546 536232003978 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 536232003979 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 536232003980 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 536232003981 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 536232003982 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 536232003983 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 536232003984 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 536232003985 catalytic loop [active] 536232003986 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 536232003987 iron binding site [ion binding]; other site 536232003988 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 536232003989 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 536232003990 nucleoside/Zn binding site; other site 536232003991 dimer interface [polypeptide binding]; other site 536232003992 catalytic motif [active] 536232003993 DNA topoisomerase III; Provisional; Region: PRK07726 536232003994 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 536232003995 active site 536232003996 putative interdomain interaction site [polypeptide binding]; other site 536232003997 putative metal-binding site [ion binding]; other site 536232003998 putative nucleotide binding site [chemical binding]; other site 536232003999 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 536232004000 domain I; other site 536232004001 DNA binding groove [nucleotide binding] 536232004002 phosphate binding site [ion binding]; other site 536232004003 domain II; other site 536232004004 domain III; other site 536232004005 nucleotide binding site [chemical binding]; other site 536232004006 catalytic site [active] 536232004007 domain IV; other site 536232004008 Predicted membrane protein [Function unknown]; Region: COG1971 536232004009 Domain of unknown function DUF; Region: DUF204; pfam02659 536232004010 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 536232004011 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 536232004012 active site 536232004013 intersubunit interactions; other site 536232004014 catalytic residue [active] 536232004015 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 536232004016 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232004017 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 536232004018 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536232004019 amino acid carrier protein; Region: agcS; TIGR00835 536232004020 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536232004021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536232004022 metal binding site [ion binding]; metal-binding site 536232004023 active site 536232004024 I-site; other site 536232004025 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 536232004026 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 536232004027 NodB motif; other site 536232004028 putative active site [active] 536232004029 putative catalytic site [active] 536232004030 putative Zn binding site [ion binding]; other site 536232004031 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 536232004032 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 536232004033 DXD motif; other site 536232004034 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 536232004035 Probable zinc-binding domain; Region: zf-trcl; pfam13451 536232004036 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 536232004037 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 536232004038 putative homodimer interface [polypeptide binding]; other site 536232004039 putative homotetramer interface [polypeptide binding]; other site 536232004040 putative allosteric switch controlling residues; other site 536232004041 putative metal binding site [ion binding]; other site 536232004042 putative homodimer-homodimer interface [polypeptide binding]; other site 536232004043 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 536232004044 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 536232004045 metal-binding site [ion binding] 536232004046 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 536232004047 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 536232004048 metal-binding site [ion binding] 536232004049 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536232004050 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 536232004051 motif II; other site 536232004052 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 536232004053 metal-binding site [ion binding] 536232004054 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 536232004055 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536232004056 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 536232004057 Soluble P-type ATPase [General function prediction only]; Region: COG4087 536232004058 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 536232004059 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232004060 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232004061 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 536232004062 Walker A/P-loop; other site 536232004063 ATP binding site [chemical binding]; other site 536232004064 Q-loop/lid; other site 536232004065 ABC transporter signature motif; other site 536232004066 Walker B; other site 536232004067 D-loop; other site 536232004068 H-loop/switch region; other site 536232004069 CAAX protease self-immunity; Region: Abi; pfam02517 536232004070 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 536232004071 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232004072 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 536232004073 active site 536232004074 phosphorylation site [posttranslational modification] 536232004075 intermolecular recognition site; other site 536232004076 dimerization interface [polypeptide binding]; other site 536232004077 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 536232004078 DNA binding site [nucleotide binding] 536232004079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232004080 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 536232004081 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 536232004082 ATP binding site [chemical binding]; other site 536232004083 Mg2+ binding site [ion binding]; other site 536232004084 G-X-G motif; other site 536232004085 EDD domain protein, DegV family; Region: DegV; TIGR00762 536232004086 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 536232004087 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 536232004088 Haemolysin XhlA; Region: XhlA; pfam10779 536232004089 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232004090 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 536232004091 active site 536232004092 metal binding site [ion binding]; metal-binding site 536232004093 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 536232004094 nucleotide binding site/active site [active] 536232004095 HIT family signature motif; other site 536232004096 catalytic residue [active] 536232004097 Membrane protein of unknown function; Region: DUF360; pfam04020 536232004098 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 536232004099 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 536232004100 YibE/F-like protein; Region: YibE_F; pfam07907 536232004101 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 536232004102 TrkA-N domain; Region: TrkA_N; pfam02254 536232004103 TrkA-C domain; Region: TrkA_C; pfam02080 536232004104 TrkA-N domain; Region: TrkA_N; pfam02254 536232004105 TrkA-C domain; Region: TrkA_C; pfam02080 536232004106 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 536232004107 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 536232004108 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 536232004109 Part of AAA domain; Region: AAA_19; pfam13245 536232004110 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 536232004111 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 536232004112 active site 536232004113 catalytic site [active] 536232004114 substrate binding site [chemical binding]; other site 536232004115 Family description; Region: UvrD_C_2; pfam13538 536232004116 Predicted membrane protein [General function prediction only]; Region: COG4194 536232004117 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 536232004118 Predicted transcriptional regulators [Transcription]; Region: COG1725 536232004119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232004120 DNA-binding site [nucleotide binding]; DNA binding site 536232004121 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536232004122 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536232004123 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 536232004124 ydaO/yuaA leader 536232004125 Rubrerythrin [Energy production and conversion]; Region: COG1592 536232004126 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 536232004127 binuclear metal center [ion binding]; other site 536232004128 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 536232004129 iron binding site [ion binding]; other site 536232004130 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232004131 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232004132 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232004133 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232004134 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 536232004135 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 536232004136 active site turn [active] 536232004137 phosphorylation site [posttranslational modification] 536232004138 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 536232004139 HPr interaction site; other site 536232004140 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536232004141 active site 536232004142 phosphorylation site [posttranslational modification] 536232004143 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 536232004144 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 536232004145 catalytic residue [active] 536232004146 putative FPP diphosphate binding site; other site 536232004147 putative FPP binding hydrophobic cleft; other site 536232004148 dimer interface [polypeptide binding]; other site 536232004149 putative IPP diphosphate binding site; other site 536232004150 Rrf2 family protein; Region: rrf2_super; TIGR00738 536232004151 Transcriptional regulator; Region: Rrf2; pfam02082 536232004152 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 536232004153 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 536232004154 ACS interaction site; other site 536232004155 CODH interaction site; other site 536232004156 metal cluster binding site [ion binding]; other site 536232004157 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 536232004158 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536232004159 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 536232004160 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536232004161 EamA-like transporter family; Region: EamA; pfam00892 536232004162 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536232004163 EamA-like transporter family; Region: EamA; pfam00892 536232004164 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232004165 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 536232004166 Walker A/P-loop; other site 536232004167 ATP binding site [chemical binding]; other site 536232004168 Q-loop/lid; other site 536232004169 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 536232004170 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536232004171 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 536232004172 ligand binding site [chemical binding]; other site 536232004173 flexible hinge region; other site 536232004174 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 536232004175 putative switch regulator; other site 536232004176 non-specific DNA interactions [nucleotide binding]; other site 536232004177 DNA binding site [nucleotide binding] 536232004178 sequence specific DNA binding site [nucleotide binding]; other site 536232004179 putative cAMP binding site [chemical binding]; other site 536232004180 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 536232004181 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536232004182 putative substrate translocation pore; other site 536232004183 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 536232004184 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 536232004185 putative binding site residues; other site 536232004186 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 536232004187 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 536232004188 ABC-ATPase subunit interface; other site 536232004189 dimer interface [polypeptide binding]; other site 536232004190 putative PBP binding regions; other site 536232004191 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536232004192 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536232004193 Walker A/P-loop; other site 536232004194 ATP binding site [chemical binding]; other site 536232004195 Q-loop/lid; other site 536232004196 ABC transporter signature motif; other site 536232004197 Walker B; other site 536232004198 D-loop; other site 536232004199 H-loop/switch region; other site 536232004200 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536232004201 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 536232004202 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536232004203 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536232004204 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 536232004205 putative active site [active] 536232004206 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 536232004207 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 536232004208 putative active site [active] 536232004209 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 536232004210 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 536232004211 active site turn [active] 536232004212 phosphorylation site [posttranslational modification] 536232004213 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232004214 Uncharacterized conserved protein [Function unknown]; Region: COG3589 536232004215 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 536232004216 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 536232004217 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 536232004218 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232004219 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 536232004220 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232004221 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 536232004222 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 536232004223 HAMP domain; Region: HAMP; pfam00672 536232004224 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232004225 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232004226 dimer interface [polypeptide binding]; other site 536232004227 putative CheW interface [polypeptide binding]; other site 536232004228 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536232004229 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 536232004230 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 536232004231 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232004232 dimer interface [polypeptide binding]; other site 536232004233 conserved gate region; other site 536232004234 putative PBP binding loops; other site 536232004235 ABC-ATPase subunit interface; other site 536232004236 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 536232004237 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232004238 dimer interface [polypeptide binding]; other site 536232004239 conserved gate region; other site 536232004240 putative PBP binding loops; other site 536232004241 ABC-ATPase subunit interface; other site 536232004242 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536232004243 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 536232004244 Walker A/P-loop; other site 536232004245 ATP binding site [chemical binding]; other site 536232004246 Q-loop/lid; other site 536232004247 ABC transporter signature motif; other site 536232004248 Walker B; other site 536232004249 D-loop; other site 536232004250 H-loop/switch region; other site 536232004251 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 536232004252 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536232004253 Walker A/P-loop; other site 536232004254 ATP binding site [chemical binding]; other site 536232004255 Q-loop/lid; other site 536232004256 ABC transporter signature motif; other site 536232004257 Walker B; other site 536232004258 D-loop; other site 536232004259 H-loop/switch region; other site 536232004260 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 536232004261 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 536232004262 ABC-ATPase subunit interface; other site 536232004263 dimer interface [polypeptide binding]; other site 536232004264 putative PBP binding regions; other site 536232004265 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 536232004266 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 536232004267 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 536232004268 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 536232004269 metal binding site [ion binding]; metal-binding site 536232004270 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 536232004271 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 536232004272 nucleotide binding region [chemical binding]; other site 536232004273 ATP-binding site [chemical binding]; other site 536232004274 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 536232004275 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536232004276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536232004277 metal binding site [ion binding]; metal-binding site 536232004278 active site 536232004279 I-site; other site 536232004280 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 536232004281 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 536232004282 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 536232004283 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232004284 dimer interface [polypeptide binding]; other site 536232004285 conserved gate region; other site 536232004286 putative PBP binding loops; other site 536232004287 ABC-ATPase subunit interface; other site 536232004288 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232004289 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232004290 Walker A/P-loop; other site 536232004291 ATP binding site [chemical binding]; other site 536232004292 Q-loop/lid; other site 536232004293 ABC transporter signature motif; other site 536232004294 Walker B; other site 536232004295 D-loop; other site 536232004296 H-loop/switch region; other site 536232004297 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536232004298 metal binding site 2 [ion binding]; metal-binding site 536232004299 putative DNA binding helix; other site 536232004300 metal binding site 1 [ion binding]; metal-binding site 536232004301 dimer interface [polypeptide binding]; other site 536232004302 structural Zn2+ binding site [ion binding]; other site 536232004303 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 536232004304 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 536232004305 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536232004306 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 536232004307 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536232004308 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 536232004309 putative active site [active] 536232004310 Zn binding site [ion binding]; other site 536232004311 ribonuclease Z; Region: RNase_Z; TIGR02651 536232004312 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 536232004313 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 536232004314 pentamer interface [polypeptide binding]; other site 536232004315 dodecaamer interface [polypeptide binding]; other site 536232004316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 536232004317 Histidine kinase; Region: HisKA_3; pfam07730 536232004318 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 536232004319 ATP binding site [chemical binding]; other site 536232004320 Mg2+ binding site [ion binding]; other site 536232004321 G-X-G motif; other site 536232004322 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536232004323 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 536232004324 active site 536232004325 phosphorylation site [posttranslational modification] 536232004326 intermolecular recognition site; other site 536232004327 dimerization interface [polypeptide binding]; other site 536232004328 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 536232004329 DNA binding residues [nucleotide binding] 536232004330 dimerization interface [polypeptide binding]; other site 536232004331 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232004332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232004333 Walker A/P-loop; other site 536232004334 ATP binding site [chemical binding]; other site 536232004335 Q-loop/lid; other site 536232004336 ABC transporter signature motif; other site 536232004337 Walker B; other site 536232004338 D-loop; other site 536232004339 H-loop/switch region; other site 536232004340 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536232004341 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 536232004342 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 536232004343 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 536232004344 FMN binding site [chemical binding]; other site 536232004345 dimer interface [polypeptide binding]; other site 536232004346 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536232004347 DNA-binding site [nucleotide binding]; DNA binding site 536232004348 RNA-binding motif; other site 536232004349 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 536232004350 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 536232004351 metal binding site [ion binding]; metal-binding site 536232004352 dimer interface [polypeptide binding]; other site 536232004353 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536232004354 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 536232004355 dimer interface [polypeptide binding]; other site 536232004356 pyridoxal binding site [chemical binding]; other site 536232004357 ATP binding site [chemical binding]; other site 536232004358 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 536232004359 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232004360 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232004361 Walker A/P-loop; other site 536232004362 ATP binding site [chemical binding]; other site 536232004363 Q-loop/lid; other site 536232004364 ABC transporter signature motif; other site 536232004365 Walker B; other site 536232004366 D-loop; other site 536232004367 H-loop/switch region; other site 536232004368 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 536232004369 FtsX-like permease family; Region: FtsX; pfam02687 536232004370 FtsX-like permease family; Region: FtsX; pfam02687 536232004371 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232004372 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 536232004373 active site 536232004374 phosphorylation site [posttranslational modification] 536232004375 intermolecular recognition site; other site 536232004376 dimerization interface [polypeptide binding]; other site 536232004377 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 536232004378 DNA binding site [nucleotide binding] 536232004379 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232004380 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 536232004381 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 536232004382 ATP binding site [chemical binding]; other site 536232004383 Mg2+ binding site [ion binding]; other site 536232004384 G-X-G motif; other site 536232004385 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232004386 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232004387 Walker A/P-loop; other site 536232004388 ATP binding site [chemical binding]; other site 536232004389 Q-loop/lid; other site 536232004390 ABC transporter signature motif; other site 536232004391 Walker B; other site 536232004392 D-loop; other site 536232004393 H-loop/switch region; other site 536232004394 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 536232004395 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 536232004396 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 536232004397 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 536232004398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232004399 homodimer interface [polypeptide binding]; other site 536232004400 catalytic residue [active] 536232004401 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 536232004402 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536232004403 substrate binding pocket [chemical binding]; other site 536232004404 membrane-bound complex binding site; other site 536232004405 hinge residues; other site 536232004406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232004407 dimer interface [polypeptide binding]; other site 536232004408 conserved gate region; other site 536232004409 putative PBP binding loops; other site 536232004410 ABC-ATPase subunit interface; other site 536232004411 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536232004412 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536232004413 Walker A/P-loop; other site 536232004414 ATP binding site [chemical binding]; other site 536232004415 Q-loop/lid; other site 536232004416 ABC transporter signature motif; other site 536232004417 Walker B; other site 536232004418 D-loop; other site 536232004419 H-loop/switch region; other site 536232004420 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 536232004421 non-specific DNA binding site [nucleotide binding]; other site 536232004422 salt bridge; other site 536232004423 sequence-specific DNA binding site [nucleotide binding]; other site 536232004424 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 536232004425 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536232004426 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 536232004427 putative active site [active] 536232004428 putative CoA binding site [chemical binding]; other site 536232004429 nudix motif; other site 536232004430 metal binding site [ion binding]; metal-binding site 536232004431 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 536232004432 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 536232004433 dimer interface [polypeptide binding]; other site 536232004434 active site 536232004435 metal binding site [ion binding]; metal-binding site 536232004436 Predicted membrane protein [Function unknown]; Region: COG1288 536232004437 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 536232004438 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 536232004439 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 536232004440 active site 536232004441 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 536232004442 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536232004443 substrate binding pocket [chemical binding]; other site 536232004444 membrane-bound complex binding site; other site 536232004445 hinge residues; other site 536232004446 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536232004447 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232004448 dimer interface [polypeptide binding]; other site 536232004449 conserved gate region; other site 536232004450 putative PBP binding loops; other site 536232004451 ABC-ATPase subunit interface; other site 536232004452 Protein of unknown function (DUF523); Region: DUF523; cl00733 536232004453 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 536232004454 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 536232004455 ATP binding site [chemical binding]; other site 536232004456 Family description; Region: UvrD_C_2; pfam13538 536232004457 cell division protein FtsA; Region: ftsA; TIGR01174 536232004458 Cell division protein FtsA; Region: FtsA; smart00842 536232004459 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 536232004460 Cell division protein FtsA; Region: FtsA; pfam14450 536232004461 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 536232004462 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 536232004463 metal binding site [ion binding]; metal-binding site 536232004464 dimer interface [polypeptide binding]; other site 536232004465 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232004466 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 536232004467 active site 536232004468 metal binding site [ion binding]; metal-binding site 536232004469 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 536232004470 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 536232004471 RNA binding surface [nucleotide binding]; other site 536232004472 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 536232004473 active site 536232004474 stage V sporulation protein B; Region: spore_V_B; TIGR02900 536232004475 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 536232004476 stage V sporulation protein B; Region: spore_V_B; TIGR02900 536232004477 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 536232004478 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 536232004479 diiron binding motif [ion binding]; other site 536232004480 Iron-containing alcohol dehydrogenase; Region: Fe-ADH8; cd08186 536232004481 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 536232004482 putative active site [active] 536232004483 metal binding site [ion binding]; metal-binding site 536232004484 AAA domain; Region: AAA_32; pfam13654 536232004485 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 536232004486 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 536232004487 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 536232004488 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 536232004489 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 536232004490 active site 536232004491 Zn binding site [ion binding]; other site 536232004492 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 536232004493 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 536232004494 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 536232004495 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 536232004496 active site 536232004497 Zn binding site [ion binding]; other site 536232004498 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 536232004499 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 536232004500 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 536232004501 active site 536232004502 Zn binding site [ion binding]; other site 536232004503 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 536232004504 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 536232004505 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 536232004506 active site 536232004507 Zn binding site [ion binding]; other site 536232004508 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 536232004509 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 536232004510 active site 536232004511 Zn binding site [ion binding]; other site 536232004512 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 536232004513 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 536232004514 dimerization interface [polypeptide binding]; other site 536232004515 active site 536232004516 L-aspartate oxidase; Provisional; Region: PRK06175 536232004517 FAD binding domain; Region: FAD_binding_2; pfam00890 536232004518 Quinolinate synthetase A protein; Region: NadA; pfam02445 536232004519 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 536232004520 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 536232004521 Int/Topo IB signature motif; other site 536232004522 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 536232004523 non-specific DNA binding site [nucleotide binding]; other site 536232004524 salt bridge; other site 536232004525 sequence-specific DNA binding site [nucleotide binding]; other site 536232004526 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 536232004527 non-specific DNA binding site [nucleotide binding]; other site 536232004528 salt bridge; other site 536232004529 sequence-specific DNA binding site [nucleotide binding]; other site 536232004530 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232004531 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 536232004532 non-specific DNA binding site [nucleotide binding]; other site 536232004533 salt bridge; other site 536232004534 sequence-specific DNA binding site [nucleotide binding]; other site 536232004535 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 536232004536 ORF6C domain; Region: ORF6C; pfam10552 536232004537 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 536232004538 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 536232004539 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 536232004540 ERF superfamily; Region: ERF; pfam04404 536232004541 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 536232004542 hypothetical protein; Provisional; Region: PRK06921 536232004543 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 536232004544 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 536232004545 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 536232004546 active site 536232004547 DNA binding site [nucleotide binding] 536232004548 Int/Topo IB signature motif; other site 536232004549 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 536232004550 Phage terminase, small subunit; Region: Terminase_4; pfam05119 536232004551 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 536232004552 Phage portal protein; Region: Phage_portal; pfam04860 536232004553 Phage-related protein [Function unknown]; Region: COG4695; cl01923 536232004554 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 536232004555 oligomer interface [polypeptide binding]; other site 536232004556 active site residues [active] 536232004557 Cytochrome b562; Region: Cytochrom_B562; cl01546 536232004558 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 536232004559 Phage capsid family; Region: Phage_capsid; pfam05065 536232004560 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 536232004561 oligomerization interface [polypeptide binding]; other site 536232004562 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 536232004563 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 536232004564 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 536232004565 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 536232004566 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 536232004567 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 536232004568 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 536232004569 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 536232004570 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232004571 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 536232004572 active site 536232004573 metal binding site [ion binding]; metal-binding site 536232004574 Haemolysin-III related; Region: HlyIII; cl03831 536232004575 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 536232004576 GTP-binding protein YchF; Reviewed; Region: PRK09601 536232004577 YchF GTPase; Region: YchF; cd01900 536232004578 G1 box; other site 536232004579 GTP/Mg2+ binding site [chemical binding]; other site 536232004580 Switch I region; other site 536232004581 G2 box; other site 536232004582 Switch II region; other site 536232004583 G3 box; other site 536232004584 G4 box; other site 536232004585 G5 box; other site 536232004586 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 536232004587 cell division protein MraZ; Reviewed; Region: PRK00326 536232004588 MraZ protein; Region: MraZ; pfam02381 536232004589 MraZ protein; Region: MraZ; pfam02381 536232004590 MraW methylase family; Region: Methyltransf_5; pfam01795 536232004591 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 536232004592 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 536232004593 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 536232004594 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 536232004595 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 536232004596 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 536232004597 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 536232004598 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536232004599 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536232004600 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536232004601 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 536232004602 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536232004603 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536232004604 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536232004605 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 536232004606 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 536232004607 Mg++ binding site [ion binding]; other site 536232004608 putative catalytic motif [active] 536232004609 putative substrate binding site [chemical binding]; other site 536232004610 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 536232004611 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 536232004612 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 536232004613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 536232004614 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 536232004615 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 536232004616 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 536232004617 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 536232004618 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536232004619 catalytic residue [active] 536232004620 Protein of unknown function (DUF552); Region: DUF552; cl00775 536232004621 YGGT family; Region: YGGT; pfam02325 536232004622 photosystem II S4 domain protein; Region: PS_II_S4; TIGR03069 536232004623 DivIVA protein; Region: DivIVA; pfam05103 536232004624 DivIVA domain; Region: DivI1A_domain; TIGR03544 536232004625 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 536232004626 active site 536232004627 dimer interface [polypeptide binding]; other site 536232004628 metal binding site [ion binding]; metal-binding site 536232004629 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 536232004630 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 536232004631 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13398 536232004632 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 536232004633 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 536232004634 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 536232004635 hinge; other site 536232004636 active site 536232004637 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 536232004638 lipoprotein signal peptidase; Provisional; Region: PRK14791 536232004639 lipoprotein signal peptidase; Provisional; Region: PRK14787 536232004640 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 536232004641 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 536232004642 RNA binding surface [nucleotide binding]; other site 536232004643 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 536232004644 active site 536232004645 PyrR binding site 536232004646 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 536232004647 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232004648 active site 536232004649 uracil transporter; Provisional; Region: PRK10720 536232004650 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 536232004651 active site 536232004652 putative catalytic site [active] 536232004653 phosphate binding site A [ion binding]; other site 536232004654 DNA binding site [nucleotide binding] 536232004655 metal binding site A [ion binding]; metal-binding site 536232004656 putative AP binding site [nucleotide binding]; other site 536232004657 putative metal binding site B [ion binding]; other site 536232004658 phosphate binding site B [ion binding]; other site 536232004659 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 536232004660 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 536232004661 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536232004662 Carbonic anhydrase; Region: Pro_CA; smart00947 536232004663 active site clefts [active] 536232004664 zinc binding site [ion binding]; other site 536232004665 dimer interface [polypeptide binding]; other site 536232004666 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 536232004667 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 536232004668 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232004669 dimer interface [polypeptide binding]; other site 536232004670 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 536232004671 conserved gate region; other site 536232004672 putative PBP binding loops; other site 536232004673 ABC-ATPase subunit interface; other site 536232004674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232004675 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 536232004676 Walker A/P-loop; other site 536232004677 ATP binding site [chemical binding]; other site 536232004678 Q-loop/lid; other site 536232004679 ABC transporter signature motif; other site 536232004680 Walker B; other site 536232004681 D-loop; other site 536232004682 H-loop/switch region; other site 536232004683 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 536232004684 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 536232004685 active site 536232004686 nucleophile elbow; other site 536232004687 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 536232004688 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 536232004689 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 536232004690 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 536232004691 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 536232004692 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232004693 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 536232004694 Uroporphyrinogen decarboxylase (URO-D); Region: URO-D; pfam01208 536232004695 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 536232004696 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 536232004697 B12 binding site [chemical binding]; other site 536232004698 cobalt ligand [ion binding]; other site 536232004699 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 536232004700 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 536232004701 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 536232004702 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 536232004703 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 536232004704 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 536232004705 Walker A/P-loop; other site 536232004706 ATP binding site [chemical binding]; other site 536232004707 Q-loop/lid; other site 536232004708 ABC transporter signature motif; other site 536232004709 Walker B; other site 536232004710 D-loop; other site 536232004711 H-loop/switch region; other site 536232004712 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 536232004713 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232004714 dimer interface [polypeptide binding]; other site 536232004715 conserved gate region; other site 536232004716 ABC-ATPase subunit interface; other site 536232004717 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 536232004718 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 536232004719 MORN repeat; Region: MORN; cl14787 536232004720 MORN repeat; Region: MORN; cl14787 536232004721 MORN repeat; Region: MORN; cl14787 536232004722 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 536232004723 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 536232004724 active site 536232004725 FMN binding site [chemical binding]; other site 536232004726 substrate binding site [chemical binding]; other site 536232004727 putative catalytic residue [active] 536232004728 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 536232004729 dimer interface [polypeptide binding]; other site 536232004730 active site 536232004731 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 536232004732 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 536232004733 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 536232004734 [2Fe-2S] cluster binding site [ion binding]; other site 536232004735 DNA topoisomerase III; Provisional; Region: PRK07726 536232004736 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 536232004737 active site 536232004738 putative interdomain interaction site [polypeptide binding]; other site 536232004739 putative metal-binding site [ion binding]; other site 536232004740 putative nucleotide binding site [chemical binding]; other site 536232004741 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 536232004742 domain I; other site 536232004743 DNA binding groove [nucleotide binding] 536232004744 phosphate binding site [ion binding]; other site 536232004745 domain II; other site 536232004746 domain III; other site 536232004747 nucleotide binding site [chemical binding]; other site 536232004748 catalytic site [active] 536232004749 domain IV; other site 536232004750 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 536232004751 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 536232004752 Walker A/P-loop; other site 536232004753 ATP binding site [chemical binding]; other site 536232004754 Q-loop/lid; other site 536232004755 ABC transporter signature motif; other site 536232004756 Walker B; other site 536232004757 D-loop; other site 536232004758 H-loop/switch region; other site 536232004759 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 536232004760 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 536232004761 active site 536232004762 catalytic tetrad [active] 536232004763 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 536232004764 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 536232004765 putative deacylase active site [active] 536232004766 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232004767 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232004768 Walker A/P-loop; other site 536232004769 ATP binding site [chemical binding]; other site 536232004770 Q-loop/lid; other site 536232004771 ABC transporter signature motif; other site 536232004772 Walker B; other site 536232004773 D-loop; other site 536232004774 H-loop/switch region; other site 536232004775 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536232004776 FtsX-like permease family; Region: FtsX; pfam02687 536232004777 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232004778 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232004779 Protein of unknown function (DUF523); Region: DUF523; pfam04463 536232004780 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 536232004781 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 536232004782 Walker A/P-loop; other site 536232004783 ATP binding site [chemical binding]; other site 536232004784 Q-loop/lid; other site 536232004785 ABC transporter signature motif; other site 536232004786 Walker B; other site 536232004787 D-loop; other site 536232004788 H-loop/switch region; other site 536232004789 TOBE domain; Region: TOBE; pfam03459 536232004790 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536232004791 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232004792 dimer interface [polypeptide binding]; other site 536232004793 conserved gate region; other site 536232004794 putative PBP binding loops; other site 536232004795 ABC-ATPase subunit interface; other site 536232004796 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 536232004797 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232004798 dimer interface [polypeptide binding]; other site 536232004799 conserved gate region; other site 536232004800 putative PBP binding loops; other site 536232004801 ABC-ATPase subunit interface; other site 536232004802 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 536232004803 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 536232004804 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 536232004805 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 536232004806 NAD binding site [chemical binding]; other site 536232004807 dimer interface [polypeptide binding]; other site 536232004808 substrate binding site [chemical binding]; other site 536232004809 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536232004810 Transcriptional regulators [Transcription]; Region: FadR; COG2186 536232004811 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232004812 DNA-binding site [nucleotide binding]; DNA binding site 536232004813 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 536232004814 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 536232004815 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 536232004816 gating phenylalanine in ion channel; other site 536232004817 PAS domain S-box; Region: sensory_box; TIGR00229 536232004818 PAS domain; Region: PAS; smart00091 536232004819 putative active site [active] 536232004820 heme pocket [chemical binding]; other site 536232004821 PAS domain S-box; Region: sensory_box; TIGR00229 536232004822 PAS domain; Region: PAS_8; pfam13188 536232004823 putative active site [active] 536232004824 heme pocket [chemical binding]; other site 536232004825 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536232004826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536232004827 metal binding site [ion binding]; metal-binding site 536232004828 active site 536232004829 I-site; other site 536232004830 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 536232004831 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232004832 Zn2+ binding site [ion binding]; other site 536232004833 Mg2+ binding site [ion binding]; other site 536232004834 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 536232004835 dimerization interface [polypeptide binding]; other site 536232004836 Cache domain; Region: Cache_1; pfam02743 536232004837 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 536232004838 dimerization interface [polypeptide binding]; other site 536232004839 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232004840 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232004841 dimer interface [polypeptide binding]; other site 536232004842 putative CheW interface [polypeptide binding]; other site 536232004843 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232004844 MarR family; Region: MarR_2; pfam12802 536232004845 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 536232004846 Predicted transcriptional regulators [Transcription]; Region: COG1733 536232004847 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 536232004848 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536232004849 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 536232004850 active site 536232004851 metal binding site [ion binding]; metal-binding site 536232004852 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 536232004853 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 536232004854 DNA binding site [nucleotide binding] 536232004855 active site 536232004856 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 536232004857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232004858 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232004859 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232004860 hypothetical protein; Provisional; Region: PRK02399 536232004861 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 536232004862 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 536232004863 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232004864 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 536232004865 non-specific DNA binding site [nucleotide binding]; other site 536232004866 salt bridge; other site 536232004867 sequence-specific DNA binding site [nucleotide binding]; other site 536232004868 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 536232004869 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 536232004870 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 536232004871 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 536232004872 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 536232004873 putative substrate translocation pore; other site 536232004874 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 536232004875 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 536232004876 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 536232004877 HDOD domain; Region: HDOD; pfam08668 536232004878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232004879 Zn2+ binding site [ion binding]; other site 536232004880 Mg2+ binding site [ion binding]; other site 536232004881 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536232004882 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 536232004883 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 536232004884 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536232004885 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 536232004886 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 536232004887 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 536232004888 yybP-ykoY leader 536232004889 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 536232004890 active site 536232004891 Protein of unknown function, DUF606; Region: DUF606; pfam04657 536232004892 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 536232004893 dimerization interface [polypeptide binding]; other site 536232004894 DNA binding residues [nucleotide binding] 536232004895 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 536232004896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 536232004897 Predicted transcriptional regulator [Transcription]; Region: COG2378 536232004898 HTH domain; Region: HTH_11; pfam08279 536232004899 WYL domain; Region: WYL; pfam13280 536232004900 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 536232004901 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 536232004902 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 536232004903 active site 536232004904 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 536232004905 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 536232004906 FeS/SAM binding site; other site 536232004907 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 536232004908 active site 536232004909 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 536232004910 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 536232004911 Ligand Binding Site [chemical binding]; other site 536232004912 CAAX protease self-immunity; Region: Abi; pfam02517 536232004913 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232004914 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232004915 dimer interface [polypeptide binding]; other site 536232004916 putative CheW interface [polypeptide binding]; other site 536232004917 Protein of unknown function (DUF975); Region: DUF975; cl10504 536232004918 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 536232004919 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 536232004920 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 536232004921 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 536232004922 intersubunit interface [polypeptide binding]; other site 536232004923 active site 536232004924 catalytic residue [active] 536232004925 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536232004926 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 536232004927 substrate binding site [chemical binding]; other site 536232004928 dimer interface [polypeptide binding]; other site 536232004929 ATP binding site [chemical binding]; other site 536232004930 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 536232004931 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 536232004932 dimer interface [polypeptide binding]; other site 536232004933 motif 1; other site 536232004934 active site 536232004935 motif 2; other site 536232004936 motif 3; other site 536232004937 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 536232004938 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 536232004939 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 536232004940 histidinol dehydrogenase; Region: hisD; TIGR00069 536232004941 NAD binding site [chemical binding]; other site 536232004942 dimerization interface [polypeptide binding]; other site 536232004943 product binding site; other site 536232004944 substrate binding site [chemical binding]; other site 536232004945 zinc binding site [ion binding]; other site 536232004946 catalytic residues [active] 536232004947 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 536232004948 putative active site pocket [active] 536232004949 4-fold oligomerization interface [polypeptide binding]; other site 536232004950 metal binding residues [ion binding]; metal-binding site 536232004951 3-fold/trimer interface [polypeptide binding]; other site 536232004952 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 536232004953 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 536232004954 putative active site [active] 536232004955 oxyanion strand; other site 536232004956 catalytic triad [active] 536232004957 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 536232004958 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 536232004959 catalytic residues [active] 536232004960 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 536232004961 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 536232004962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232004963 homodimer interface [polypeptide binding]; other site 536232004964 catalytic residue [active] 536232004965 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 536232004966 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 536232004967 substrate binding site [chemical binding]; other site 536232004968 glutamase interaction surface [polypeptide binding]; other site 536232004969 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 536232004970 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 536232004971 metal binding site [ion binding]; metal-binding site 536232004972 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 536232004973 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 536232004974 CPxP motif; other site 536232004975 putative inner membrane protein; Provisional; Region: PRK11099 536232004976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536232004977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536232004978 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 536232004979 dimerization interface [polypeptide binding]; other site 536232004980 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536232004981 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 536232004982 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 536232004983 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536232004984 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536232004985 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536232004986 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 536232004987 active site residue [active] 536232004988 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 536232004989 Sulphur transport; Region: Sulf_transp; pfam04143 536232004990 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 536232004991 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 536232004992 Walker A/P-loop; other site 536232004993 ATP binding site [chemical binding]; other site 536232004994 Q-loop/lid; other site 536232004995 ABC transporter signature motif; other site 536232004996 Walker B; other site 536232004997 D-loop; other site 536232004998 H-loop/switch region; other site 536232004999 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 536232005000 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232005001 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 536232005002 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232005003 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 536232005004 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232005005 active site 536232005006 phosphorylation site [posttranslational modification] 536232005007 intermolecular recognition site; other site 536232005008 dimerization interface [polypeptide binding]; other site 536232005009 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 536232005010 DNA binding site [nucleotide binding] 536232005011 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232005012 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 536232005013 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 536232005014 dimer interface [polypeptide binding]; other site 536232005015 phosphorylation site [posttranslational modification] 536232005016 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 536232005017 ATP binding site [chemical binding]; other site 536232005018 Mg2+ binding site [ion binding]; other site 536232005019 G-X-G motif; other site 536232005020 arginine deiminase; Provisional; Region: PRK01388 536232005021 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 536232005022 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 536232005023 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 536232005024 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 536232005025 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 536232005026 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; cl17736 536232005027 phosphorylation site [posttranslational modification] 536232005028 intermolecular recognition site; other site 536232005029 HD domain; Region: HD_3; pfam13023 536232005030 YmaF family; Region: YmaF; pfam12788 536232005031 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 536232005032 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 536232005033 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 536232005034 ATP binding site [chemical binding]; other site 536232005035 putative Mg++ binding site [ion binding]; other site 536232005036 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 536232005037 nucleotide binding region [chemical binding]; other site 536232005038 ATP-binding site [chemical binding]; other site 536232005039 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 536232005040 synthetase active site [active] 536232005041 NTP binding site [chemical binding]; other site 536232005042 metal binding site [ion binding]; metal-binding site 536232005043 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 536232005044 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232005045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232005046 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232005047 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232005048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232005049 Walker A/P-loop; other site 536232005050 ATP binding site [chemical binding]; other site 536232005051 Q-loop/lid; other site 536232005052 ABC transporter signature motif; other site 536232005053 Walker B; other site 536232005054 D-loop; other site 536232005055 H-loop/switch region; other site 536232005056 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232005057 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232005058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232005059 Walker A/P-loop; other site 536232005060 ATP binding site [chemical binding]; other site 536232005061 Q-loop/lid; other site 536232005062 ABC transporter signature motif; other site 536232005063 Walker B; other site 536232005064 D-loop; other site 536232005065 H-loop/switch region; other site 536232005066 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536232005067 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536232005068 DNA binding site [nucleotide binding] 536232005069 domain linker motif; other site 536232005070 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 536232005071 putative dimerization interface [polypeptide binding]; other site 536232005072 putative ligand binding site [chemical binding]; other site 536232005073 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 536232005074 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536232005075 nucleotide binding site [chemical binding]; other site 536232005076 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 536232005077 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 536232005078 Ca binding site [ion binding]; other site 536232005079 active site 536232005080 catalytic site [active] 536232005081 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 536232005082 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232005083 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 536232005084 active site turn [active] 536232005085 phosphorylation site [posttranslational modification] 536232005086 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 536232005087 putative catalytic site [active] 536232005088 putative metal binding site [ion binding]; other site 536232005089 putative phosphate binding site [ion binding]; other site 536232005090 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 536232005091 Domain of unknown function DUF; Region: DUF204; pfam02659 536232005092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 536232005093 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 536232005094 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 536232005095 dimerization interface [polypeptide binding]; other site 536232005096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232005097 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 536232005098 dimer interface [polypeptide binding]; other site 536232005099 phosphorylation site [posttranslational modification] 536232005100 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 536232005101 ATP binding site [chemical binding]; other site 536232005102 Mg2+ binding site [ion binding]; other site 536232005103 G-X-G motif; other site 536232005104 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232005105 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 536232005106 active site 536232005107 phosphorylation site [posttranslational modification] 536232005108 intermolecular recognition site; other site 536232005109 dimerization interface [polypeptide binding]; other site 536232005110 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 536232005111 DNA binding site [nucleotide binding] 536232005112 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 536232005113 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 536232005114 putative substrate translocation pore; other site 536232005115 Protein of unknown function (DUF441); Region: DUF441; cl01041 536232005116 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 536232005117 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 536232005118 active site 536232005119 motif I; other site 536232005120 motif II; other site 536232005121 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 536232005122 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536232005123 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 536232005124 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536232005125 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 536232005126 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 536232005127 DNA binding residues [nucleotide binding] 536232005128 YvrJ protein family; Region: YvrJ; pfam12841 536232005129 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 536232005130 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 536232005131 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 536232005132 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 536232005133 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 536232005134 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 536232005135 FAD binding site [chemical binding]; other site 536232005136 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 536232005137 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 536232005138 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 536232005139 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 536232005140 substrate binding pocket [chemical binding]; other site 536232005141 dimer interface [polypeptide binding]; other site 536232005142 inhibitor binding site; inhibition site 536232005143 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 536232005144 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 536232005145 B12 binding site [chemical binding]; other site 536232005146 hypothetical protein; Provisional; Region: PRK12705 536232005147 RNA polymerase factor sigma-70; Validated; Region: PRK06811 536232005148 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 536232005149 DNA binding residues [nucleotide binding] 536232005150 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 536232005151 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 536232005152 GAF domain; Region: GAF; pfam01590 536232005153 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 536232005154 Walker A motif; other site 536232005155 ATP binding site [chemical binding]; other site 536232005156 Walker B motif; other site 536232005157 arginine finger; other site 536232005158 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536232005159 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 536232005160 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 536232005161 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 536232005162 tetramer interface [polypeptide binding]; other site 536232005163 TPP-binding site [chemical binding]; other site 536232005164 heterodimer interface [polypeptide binding]; other site 536232005165 phosphorylation loop region [posttranslational modification] 536232005166 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 536232005167 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 536232005168 alpha subunit interface [polypeptide binding]; other site 536232005169 TPP binding site [chemical binding]; other site 536232005170 heterodimer interface [polypeptide binding]; other site 536232005171 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 536232005172 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 536232005173 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 536232005174 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 536232005175 E3 interaction surface; other site 536232005176 lipoyl attachment site [posttranslational modification]; other site 536232005177 e3 binding domain; Region: E3_binding; pfam02817 536232005178 e3 binding domain; Region: E3_binding; pfam02817 536232005179 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 536232005180 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 536232005181 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536232005182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536232005183 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536232005184 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 536232005185 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 536232005186 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 536232005187 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 536232005188 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 536232005189 Walker A/P-loop; other site 536232005190 ATP binding site [chemical binding]; other site 536232005191 Q-loop/lid; other site 536232005192 ABC transporter signature motif; other site 536232005193 Walker B; other site 536232005194 D-loop; other site 536232005195 H-loop/switch region; other site 536232005196 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 536232005197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232005198 dimer interface [polypeptide binding]; other site 536232005199 conserved gate region; other site 536232005200 putative PBP binding loops; other site 536232005201 ABC-ATPase subunit interface; other site 536232005202 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 536232005203 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 536232005204 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 536232005205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232005206 catalytic residue [active] 536232005207 homoserine kinase; Provisional; Region: PRK01212 536232005208 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 536232005209 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 536232005210 aspartate kinase; Reviewed; Region: PRK09034 536232005211 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 536232005212 nucleotide binding site [chemical binding]; other site 536232005213 substrate binding site [chemical binding]; other site 536232005214 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 536232005215 allosteric regulatory residue; other site 536232005216 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 536232005217 homoserine dehydrogenase; Provisional; Region: PRK06349 536232005218 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 536232005219 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 536232005220 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 536232005221 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 536232005222 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 536232005223 putative active site [active] 536232005224 heme pocket [chemical binding]; other site 536232005225 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 536232005226 Walker A motif; other site 536232005227 ATP binding site [chemical binding]; other site 536232005228 Walker B motif; other site 536232005229 arginine finger; other site 536232005230 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536232005231 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 536232005232 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 536232005233 putative active site [active] 536232005234 metal binding site [ion binding]; metal-binding site 536232005235 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 536232005236 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 536232005237 FAD binding pocket [chemical binding]; other site 536232005238 FAD binding motif [chemical binding]; other site 536232005239 phosphate binding motif [ion binding]; other site 536232005240 beta-alpha-beta structure motif; other site 536232005241 NAD binding pocket [chemical binding]; other site 536232005242 Iron coordination center [ion binding]; other site 536232005243 putative oxidoreductase; Provisional; Region: PRK12831 536232005244 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536232005245 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 536232005246 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 536232005247 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 536232005248 Walker A motif; other site 536232005249 ATP binding site [chemical binding]; other site 536232005250 Walker B motif; other site 536232005251 arginine finger; other site 536232005252 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536232005253 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 536232005254 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 536232005255 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 536232005256 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 536232005257 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 536232005258 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 536232005259 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232005260 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 536232005261 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536232005262 Hemerythrin-like domain; Region: Hr-like; cd12108 536232005263 Fe binding site [ion binding]; other site 536232005264 alanine racemase; Reviewed; Region: alr; PRK00053 536232005265 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 536232005266 active site 536232005267 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536232005268 dimer interface [polypeptide binding]; other site 536232005269 substrate binding site [chemical binding]; other site 536232005270 catalytic residues [active] 536232005271 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232005272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232005273 dimer interface [polypeptide binding]; other site 536232005274 putative CheW interface [polypeptide binding]; other site 536232005275 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 536232005276 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 536232005277 Protein of unknown function (DUF975); Region: DUF975; cl10504 536232005278 short chain dehydrogenase; Provisional; Region: PRK06701 536232005279 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 536232005280 NAD binding site [chemical binding]; other site 536232005281 metal binding site [ion binding]; metal-binding site 536232005282 active site 536232005283 Cache domain; Region: Cache_1; pfam02743 536232005284 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232005285 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232005286 dimer interface [polypeptide binding]; other site 536232005287 putative CheW interface [polypeptide binding]; other site 536232005288 KWG Leptospira; Region: KWG; pfam07656 536232005289 KWG Leptospira; Region: KWG; pfam07656 536232005290 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 536232005291 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 536232005292 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 536232005293 ATP binding site [chemical binding]; other site 536232005294 putative Mg++ binding site [ion binding]; other site 536232005295 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 536232005296 nucleotide binding region [chemical binding]; other site 536232005297 ATP-binding site [chemical binding]; other site 536232005298 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 536232005299 homodimer interaction site [polypeptide binding]; other site 536232005300 cofactor binding site; other site 536232005301 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 536232005302 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 536232005303 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 536232005304 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536232005305 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_21; cd08520 536232005306 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 536232005307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232005308 putative PBP binding loops; other site 536232005309 dimer interface [polypeptide binding]; other site 536232005310 ABC-ATPase subunit interface; other site 536232005311 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 536232005312 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232005313 dimer interface [polypeptide binding]; other site 536232005314 conserved gate region; other site 536232005315 putative PBP binding loops; other site 536232005316 ABC-ATPase subunit interface; other site 536232005317 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 536232005318 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536232005319 Walker A/P-loop; other site 536232005320 ATP binding site [chemical binding]; other site 536232005321 Q-loop/lid; other site 536232005322 ABC transporter signature motif; other site 536232005323 Walker B; other site 536232005324 D-loop; other site 536232005325 H-loop/switch region; other site 536232005326 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 536232005327 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536232005328 Walker A/P-loop; other site 536232005329 ATP binding site [chemical binding]; other site 536232005330 Q-loop/lid; other site 536232005331 ABC transporter signature motif; other site 536232005332 Walker B; other site 536232005333 D-loop; other site 536232005334 H-loop/switch region; other site 536232005335 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 536232005336 active site 536232005337 catalytic site [active] 536232005338 substrate binding site [chemical binding]; other site 536232005339 Predicted secreted protein [Function unknown]; Region: COG4086 536232005340 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 536232005341 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536232005342 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 536232005343 S-adenosylmethionine binding site [chemical binding]; other site 536232005344 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 536232005345 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 536232005346 putative dimer interface [polypeptide binding]; other site 536232005347 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 536232005348 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536232005349 putative substrate translocation pore; other site 536232005350 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232005351 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232005352 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536232005353 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 536232005354 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 536232005355 putative substrate binding site [chemical binding]; other site 536232005356 putative ATP binding site [chemical binding]; other site 536232005357 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536232005358 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 536232005359 putative substrate translocation pore; other site 536232005360 Putative amidase domain; Region: Amidase_6; pfam12671 536232005361 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 536232005362 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536232005363 substrate binding site [chemical binding]; other site 536232005364 ATP binding site [chemical binding]; other site 536232005365 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536232005366 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 536232005367 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 536232005368 Cache domain; Region: Cache_1; pfam02743 536232005369 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 536232005370 HAMP domain; Region: HAMP; pfam00672 536232005371 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232005372 dimer interface [polypeptide binding]; other site 536232005373 putative CheW interface [polypeptide binding]; other site 536232005374 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 536232005375 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232005376 Pecanex protein (C-terminus); Region: Pecanex_C; pfam05041 536232005377 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232005378 ABC transporter; Region: ABC_tran_2; pfam12848 536232005379 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232005380 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 536232005381 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536232005382 4Fe-4S binding domain; Region: Fer4_6; pfam12837 536232005383 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 536232005384 Response regulator receiver domain; Region: Response_reg; pfam00072 536232005385 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 536232005386 active site 536232005387 phosphorylation site [posttranslational modification] 536232005388 intermolecular recognition site; other site 536232005389 dimerization interface [polypeptide binding]; other site 536232005390 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 536232005391 DEAD-like helicases superfamily; Region: DEXDc; smart00487 536232005392 ATP binding site [chemical binding]; other site 536232005393 putative Mg++ binding site [ion binding]; other site 536232005394 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 536232005395 nucleotide binding region [chemical binding]; other site 536232005396 ATP-binding site [chemical binding]; other site 536232005397 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 536232005398 S1 domain; Region: S1_2; pfam13509 536232005399 S1 domain; Region: S1_2; pfam13509 536232005400 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 536232005401 RNA binding site [nucleotide binding]; other site 536232005402 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 536232005403 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 536232005404 ATP binding site [chemical binding]; other site 536232005405 Mg++ binding site [ion binding]; other site 536232005406 motif III; other site 536232005407 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 536232005408 nucleotide binding region [chemical binding]; other site 536232005409 ATP-binding site [chemical binding]; other site 536232005410 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 536232005411 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 536232005412 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232005413 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232005414 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232005415 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 536232005416 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232005417 Leucine rich repeat; Region: LRR_8; pfam13855 536232005418 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232005419 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232005420 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232005421 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 536232005422 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 536232005423 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 536232005424 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 536232005425 Ferritin-like domain; Region: Ferritin; pfam00210 536232005426 ferroxidase diiron center [ion binding]; other site 536232005427 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 536232005428 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 536232005429 active site 536232005430 phosphorylation site [posttranslational modification] 536232005431 intermolecular recognition site; other site 536232005432 dimerization interface [polypeptide binding]; other site 536232005433 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 536232005434 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 536232005435 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 536232005436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 536232005437 Nucleoside recognition; Region: Gate; pfam07670 536232005438 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 536232005439 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 536232005440 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 536232005441 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 536232005442 active site 536232005443 DNA binding site [nucleotide binding] 536232005444 Int/Topo IB signature motif; other site 536232005445 LexA repressor; Validated; Region: PRK00215 536232005446 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 536232005447 putative Zn2+ binding site [ion binding]; other site 536232005448 putative DNA binding site [nucleotide binding]; other site 536232005449 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 536232005450 Catalytic site [active] 536232005451 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 536232005452 Aluminium resistance protein; Region: Alum_res; pfam06838 536232005453 bacterial Hfq-like; Region: Hfq; cd01716 536232005454 hexamer interface [polypeptide binding]; other site 536232005455 Sm1 motif; other site 536232005456 RNA binding site [nucleotide binding]; other site 536232005457 Sm2 motif; other site 536232005458 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 536232005459 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 536232005460 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 536232005461 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 536232005462 ATP binding site [chemical binding]; other site 536232005463 Mg2+ binding site [ion binding]; other site 536232005464 G-X-G motif; other site 536232005465 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 536232005466 ATP binding site [chemical binding]; other site 536232005467 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 536232005468 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 536232005469 MutS domain I; Region: MutS_I; pfam01624 536232005470 MutS domain II; Region: MutS_II; pfam05188 536232005471 MutS domain III; Region: MutS_III; pfam05192 536232005472 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 536232005473 Walker A/P-loop; other site 536232005474 ATP binding site [chemical binding]; other site 536232005475 Q-loop/lid; other site 536232005476 ABC transporter signature motif; other site 536232005477 Walker B; other site 536232005478 D-loop; other site 536232005479 H-loop/switch region; other site 536232005480 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 536232005481 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 536232005482 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 536232005483 FeS/SAM binding site; other site 536232005484 TRAM domain; Region: TRAM; pfam01938 536232005485 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 536232005486 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 536232005487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232005488 homodimer interface [polypeptide binding]; other site 536232005489 catalytic residue [active] 536232005490 aspartate aminotransferase; Provisional; Region: PRK07568 536232005491 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 536232005492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232005493 homodimer interface [polypeptide binding]; other site 536232005494 catalytic residue [active] 536232005495 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536232005496 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 536232005497 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 536232005498 LytB protein; Region: LYTB; cl00507 536232005499 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 536232005500 RNA binding site [nucleotide binding]; other site 536232005501 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 536232005502 RNA binding site [nucleotide binding]; other site 536232005503 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 536232005504 RNA binding site [nucleotide binding]; other site 536232005505 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 536232005506 RNA binding site [nucleotide binding]; other site 536232005507 domain interface; other site 536232005508 cytidylate kinase; Provisional; Region: cmk; PRK00023 536232005509 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 536232005510 CMP-binding site; other site 536232005511 The sites determining sugar specificity; other site 536232005512 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 536232005513 homotrimer interaction site [polypeptide binding]; other site 536232005514 active site 536232005515 flavoprotein, HI0933 family; Region: TIGR00275 536232005516 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536232005517 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 536232005518 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 536232005519 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 536232005520 NAD(P) binding site [chemical binding]; other site 536232005521 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536232005522 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536232005523 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 536232005524 putative active site [active] 536232005525 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 536232005526 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 536232005527 RNA binding surface [nucleotide binding]; other site 536232005528 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 536232005529 active site 536232005530 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 536232005531 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 536232005532 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 536232005533 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 536232005534 DXD motif; other site 536232005535 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 536232005536 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 536232005537 dimerization interface [polypeptide binding]; other site 536232005538 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232005539 dimer interface [polypeptide binding]; other site 536232005540 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 536232005541 putative CheW interface [polypeptide binding]; other site 536232005542 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 536232005543 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 536232005544 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 536232005545 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536232005546 catalytic residues [active] 536232005547 Predicted amidohydrolase [General function prediction only]; Region: COG0388 536232005548 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 536232005549 putative active site [active] 536232005550 catalytic triad [active] 536232005551 dimer interface [polypeptide binding]; other site 536232005552 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 536232005553 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 536232005554 TrkA-C domain; Region: TrkA_C; pfam02080 536232005555 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 536232005556 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536232005557 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232005558 Coenzyme A binding pocket [chemical binding]; other site 536232005559 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 536232005560 active site residue [active] 536232005561 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 536232005562 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 536232005563 dimer interface [polypeptide binding]; other site 536232005564 [2Fe-2S] cluster binding site [ion binding]; other site 536232005565 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 536232005566 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 536232005567 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 536232005568 Putative Fe-S cluster; Region: FeS; cl17515 536232005569 PAS domain; Region: PAS_9; pfam13426 536232005570 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 536232005571 putative active site [active] 536232005572 heme pocket [chemical binding]; other site 536232005573 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 536232005574 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 536232005575 4Fe-4S binding domain; Region: Fer4; pfam00037 536232005576 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 536232005577 Putative Fe-S cluster; Region: FeS; cl17515 536232005578 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 536232005579 putative active site [active] 536232005580 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 536232005581 dimerization interface [polypeptide binding]; other site 536232005582 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 536232005583 ATP binding site [chemical binding]; other site 536232005584 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 536232005585 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 536232005586 HupF/HypC family; Region: HupF_HypC; pfam01455 536232005587 Acylphosphatase; Region: Acylphosphatase; pfam00708 536232005588 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 536232005589 HypF finger; Region: zf-HYPF; pfam07503 536232005590 HypF finger; Region: zf-HYPF; pfam07503 536232005591 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 536232005592 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 536232005593 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 536232005594 nickel binding site [ion binding]; other site 536232005595 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 536232005596 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 536232005597 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 536232005598 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 536232005599 TraX protein; Region: TraX; pfam05857 536232005600 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 536232005601 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536232005602 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 536232005603 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 536232005604 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536232005605 ATP-grasp domain; Region: ATP-grasp_4; cl17255 536232005606 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 536232005607 IMP binding site; other site 536232005608 dimer interface [polypeptide binding]; other site 536232005609 interdomain contacts; other site 536232005610 partial ornithine binding site; other site 536232005611 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 536232005612 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 536232005613 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 536232005614 catalytic site [active] 536232005615 subunit interface [polypeptide binding]; other site 536232005616 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 536232005617 ABC-2 type transporter; Region: ABC2_membrane; cl17235 536232005618 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 536232005619 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232005620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232005621 Walker A/P-loop; other site 536232005622 ATP binding site [chemical binding]; other site 536232005623 Q-loop/lid; other site 536232005624 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232005625 ABC transporter signature motif; other site 536232005626 ABC transporter; Region: ABC_tran_2; pfam12848 536232005627 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232005628 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 536232005629 catalytic loop [active] 536232005630 iron binding site [ion binding]; other site 536232005631 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 536232005632 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 536232005633 4Fe-4S binding domain; Region: Fer4; pfam00037 536232005634 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 536232005635 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 536232005636 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 536232005637 dimer interface [polypeptide binding]; other site 536232005638 [2Fe-2S] cluster binding site [ion binding]; other site 536232005639 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 536232005640 SLBB domain; Region: SLBB; pfam10531 536232005641 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 536232005642 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 536232005643 4Fe-4S binding domain; Region: Fer4; pfam00037 536232005644 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 536232005645 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 536232005646 putative dimer interface [polypeptide binding]; other site 536232005647 [2Fe-2S] cluster binding site [ion binding]; other site 536232005648 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 536232005649 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 536232005650 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 536232005651 Domain of unknown function DUF20; Region: UPF0118; pfam01594 536232005652 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 536232005653 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536232005654 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 536232005655 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 536232005656 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 536232005657 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 536232005658 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 536232005659 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 536232005660 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536232005661 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 536232005662 EcsC protein family; Region: EcsC; pfam12787 536232005663 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 536232005664 putative catalytic site [active] 536232005665 putative metal binding site [ion binding]; other site 536232005666 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 536232005667 putative catalytic site [active] 536232005668 putative phosphate binding site [ion binding]; other site 536232005669 putative phosphate binding site [ion binding]; other site 536232005670 putative metal binding site [ion binding]; other site 536232005671 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 536232005672 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 536232005673 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 536232005674 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 536232005675 purine nucleoside phosphorylase; Provisional; Region: PRK08202 536232005676 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 536232005677 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 536232005678 Int/Topo IB signature motif; other site 536232005679 active site 536232005680 stage II sporulation protein M; Region: spo_II_M; TIGR02831 536232005681 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 536232005682 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 536232005683 dimer interface [polypeptide binding]; other site 536232005684 ADP-ribose binding site [chemical binding]; other site 536232005685 active site 536232005686 nudix motif; other site 536232005687 metal binding site [ion binding]; metal-binding site 536232005688 inner membrane transporter YjeM; Provisional; Region: PRK15238 536232005689 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 536232005690 NlpC/P60 family; Region: NLPC_P60; pfam00877 536232005691 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 536232005692 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232005693 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 536232005694 active site 536232005695 metal binding site [ion binding]; metal-binding site 536232005696 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232005697 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 536232005698 Phage tail protein; Region: Sipho_tail; cl17486 536232005699 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 536232005700 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 536232005701 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 536232005702 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 536232005703 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 536232005704 oligomerization interface [polypeptide binding]; other site 536232005705 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 536232005706 Phage capsid family; Region: Phage_capsid; pfam05065 536232005707 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 536232005708 oligomer interface [polypeptide binding]; other site 536232005709 active site residues [active] 536232005710 Phage portal protein; Region: Phage_portal; pfam04860 536232005711 Phage-related protein [Function unknown]; Region: COG4695 536232005712 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 536232005713 Phage terminase, small subunit; Region: Terminase_4; cl01525 536232005714 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 536232005715 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 536232005716 GIY-YIG motif/motif A; other site 536232005717 putative active site [active] 536232005718 catalytic site [active] 536232005719 putative metal binding site [ion binding]; other site 536232005720 SprT-like family; Region: SprT-like; pfam10263 536232005721 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232005722 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 536232005723 sequence-specific DNA binding site [nucleotide binding]; other site 536232005724 salt bridge; other site 536232005725 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 536232005726 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 536232005727 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 536232005728 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 536232005729 active site 536232005730 Int/Topo IB signature motif; other site 536232005731 catalytic residues [active] 536232005732 DNA binding site [nucleotide binding] 536232005733 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 536232005734 active site 536232005735 metal binding site [ion binding]; metal-binding site 536232005736 Helix-turn-helix domain; Region: HTH_36; pfam13730 536232005737 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 536232005738 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 536232005739 active site 536232005740 Int/Topo IB signature motif; other site 536232005741 DNA binding site [nucleotide binding] 536232005742 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 536232005743 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 536232005744 active site 536232005745 phosphorylation site [posttranslational modification] 536232005746 intermolecular recognition site; other site 536232005747 dimerization interface [polypeptide binding]; other site 536232005748 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 536232005749 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 536232005750 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 536232005751 Homoserine O-succinyltransferase; Region: HTS; pfam04204 536232005752 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 536232005753 conserved cys residue [active] 536232005754 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 536232005755 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 536232005756 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 536232005757 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 536232005758 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 536232005759 homodimer interface [polypeptide binding]; other site 536232005760 substrate-cofactor binding pocket; other site 536232005761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232005762 catalytic residue [active] 536232005763 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 536232005764 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 536232005765 Walker A/P-loop; other site 536232005766 ATP binding site [chemical binding]; other site 536232005767 Q-loop/lid; other site 536232005768 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 536232005769 ABC transporter signature motif; other site 536232005770 Walker B; other site 536232005771 D-loop; other site 536232005772 H-loop/switch region; other site 536232005773 arginine repressor; Provisional; Region: argR; PRK00441 536232005774 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 536232005775 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 536232005776 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 536232005777 ATP-NAD kinase; Region: NAD_kinase; pfam01513 536232005778 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 536232005779 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 536232005780 RNA binding surface [nucleotide binding]; other site 536232005781 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 536232005782 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 536232005783 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 536232005784 TPP-binding site; other site 536232005785 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 536232005786 PYR/PP interface [polypeptide binding]; other site 536232005787 dimer interface [polypeptide binding]; other site 536232005788 TPP binding site [chemical binding]; other site 536232005789 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 536232005790 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 536232005791 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 536232005792 substrate binding pocket [chemical binding]; other site 536232005793 chain length determination region; other site 536232005794 substrate-Mg2+ binding site; other site 536232005795 catalytic residues [active] 536232005796 aspartate-rich region 1; other site 536232005797 active site lid residues [active] 536232005798 aspartate-rich region 2; other site 536232005799 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 536232005800 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 536232005801 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 536232005802 generic binding surface I; other site 536232005803 generic binding surface II; other site 536232005804 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 536232005805 Asp23 family; Region: Asp23; pfam03780 536232005806 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 536232005807 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 536232005808 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 536232005809 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 536232005810 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 536232005811 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 536232005812 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 536232005813 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 536232005814 elongation factor P; Validated; Region: PRK00529 536232005815 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 536232005816 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 536232005817 RNA binding site [nucleotide binding]; other site 536232005818 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 536232005819 RNA binding site [nucleotide binding]; other site 536232005820 Dehydroquinase class II; Region: DHquinase_II; pfam01220 536232005821 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 536232005822 trimer interface [polypeptide binding]; other site 536232005823 active site 536232005824 dimer interface [polypeptide binding]; other site 536232005825 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 536232005826 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 536232005827 ADP binding site [chemical binding]; other site 536232005828 magnesium binding site [ion binding]; other site 536232005829 putative shikimate binding site; other site 536232005830 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 536232005831 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 536232005832 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 536232005833 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 536232005834 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 536232005835 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 536232005836 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 536232005837 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536232005838 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536232005839 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 536232005840 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 536232005841 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 536232005842 Walker A motif; other site 536232005843 ATP binding site [chemical binding]; other site 536232005844 Walker B motif; other site 536232005845 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 536232005846 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 536232005847 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 536232005848 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 536232005849 Domain of unknown function (DUF814); Region: DUF814; pfam05670 536232005850 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 536232005851 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 536232005852 dimerization interface 3.5A [polypeptide binding]; other site 536232005853 active site 536232005854 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 536232005855 nucleotide binding site/active site [active] 536232005856 HIT family signature motif; other site 536232005857 catalytic residue [active] 536232005858 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 536232005859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232005860 catalytic residue [active] 536232005861 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 536232005862 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 536232005863 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 536232005864 dimerization interface [polypeptide binding]; other site 536232005865 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232005866 dimer interface [polypeptide binding]; other site 536232005867 putative CheW interface [polypeptide binding]; other site 536232005868 clostripain; Region: clostrip; TIGR02806 536232005869 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 536232005870 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232005871 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 536232005872 active site 536232005873 phosphorylation site [posttranslational modification] 536232005874 intermolecular recognition site; other site 536232005875 dimerization interface [polypeptide binding]; other site 536232005876 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 536232005877 DNA binding site [nucleotide binding] 536232005878 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232005879 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 536232005880 dimer interface [polypeptide binding]; other site 536232005881 phosphorylation site [posttranslational modification] 536232005882 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 536232005883 ATP binding site [chemical binding]; other site 536232005884 Mg2+ binding site [ion binding]; other site 536232005885 G-X-G motif; other site 536232005886 methionine sulfoxide reductase A; Provisional; Region: PRK14054 536232005887 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232005888 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 536232005889 dimerization interface [polypeptide binding]; other site 536232005890 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 536232005891 dimer interface [polypeptide binding]; other site 536232005892 phosphorylation site [posttranslational modification] 536232005893 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 536232005894 ATP binding site [chemical binding]; other site 536232005895 Mg2+ binding site [ion binding]; other site 536232005896 G-X-G motif; other site 536232005897 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232005898 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 536232005899 active site 536232005900 phosphorylation site [posttranslational modification] 536232005901 intermolecular recognition site; other site 536232005902 dimerization interface [polypeptide binding]; other site 536232005903 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 536232005904 DNA binding site [nucleotide binding] 536232005905 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 536232005906 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232005907 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 536232005908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232005909 Walker A/P-loop; other site 536232005910 ATP binding site [chemical binding]; other site 536232005911 Q-loop/lid; other site 536232005912 ABC transporter signature motif; other site 536232005913 Walker B; other site 536232005914 D-loop; other site 536232005915 H-loop/switch region; other site 536232005916 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232005917 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232005918 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 536232005919 Walker A/P-loop; other site 536232005920 ATP binding site [chemical binding]; other site 536232005921 Q-loop/lid; other site 536232005922 ABC transporter signature motif; other site 536232005923 Walker B; other site 536232005924 D-loop; other site 536232005925 H-loop/switch region; other site 536232005926 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232005927 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232005928 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 536232005929 Walker A/P-loop; other site 536232005930 ATP binding site [chemical binding]; other site 536232005931 Q-loop/lid; other site 536232005932 ABC transporter signature motif; other site 536232005933 Walker B; other site 536232005934 D-loop; other site 536232005935 H-loop/switch region; other site 536232005936 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232005937 MarR family; Region: MarR; pfam01047 536232005938 hypothetical protein; Provisional; Region: PRK08328 536232005939 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 536232005940 ATP binding site [chemical binding]; other site 536232005941 substrate interface [chemical binding]; other site 536232005942 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 536232005943 MoaE interaction surface [polypeptide binding]; other site 536232005944 MoeB interaction surface [polypeptide binding]; other site 536232005945 thiocarboxylated glycine; other site 536232005946 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 536232005947 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 536232005948 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 536232005949 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 536232005950 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 536232005951 putative active site [active] 536232005952 heme pocket [chemical binding]; other site 536232005953 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 536232005954 Walker A motif; other site 536232005955 ATP binding site [chemical binding]; other site 536232005956 Walker B motif; other site 536232005957 arginine finger; other site 536232005958 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536232005959 MOSC domain; Region: MOSC; pfam03473 536232005960 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 536232005961 trimer interface [polypeptide binding]; other site 536232005962 dimer interface [polypeptide binding]; other site 536232005963 putative active site [active] 536232005964 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 536232005965 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 536232005966 FeS/SAM binding site; other site 536232005967 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 536232005968 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 536232005969 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 536232005970 dimer interface [polypeptide binding]; other site 536232005971 putative functional site; other site 536232005972 putative MPT binding site; other site 536232005973 PBP superfamily domain; Region: PBP_like; pfam12727 536232005974 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 536232005975 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 536232005976 dimer interface [polypeptide binding]; other site 536232005977 putative functional site; other site 536232005978 putative MPT binding site; other site 536232005979 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 536232005980 MPT binding site; other site 536232005981 trimer interface [polypeptide binding]; other site 536232005982 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 536232005983 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 536232005984 Walker A/P-loop; other site 536232005985 ATP binding site [chemical binding]; other site 536232005986 Q-loop/lid; other site 536232005987 ABC transporter signature motif; other site 536232005988 Walker B; other site 536232005989 D-loop; other site 536232005990 H-loop/switch region; other site 536232005991 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232005992 dimer interface [polypeptide binding]; other site 536232005993 conserved gate region; other site 536232005994 putative PBP binding loops; other site 536232005995 ABC-ATPase subunit interface; other site 536232005996 PBP superfamily domain; Region: PBP_like_2; pfam12849 536232005997 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 536232005998 putative efflux protein, MATE family; Region: matE; TIGR00797 536232005999 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 536232006000 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232006001 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232006002 Walker A/P-loop; other site 536232006003 ATP binding site [chemical binding]; other site 536232006004 Q-loop/lid; other site 536232006005 ABC transporter signature motif; other site 536232006006 Walker B; other site 536232006007 D-loop; other site 536232006008 H-loop/switch region; other site 536232006009 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536232006010 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 536232006011 FtsX-like permease family; Region: FtsX; pfam02687 536232006012 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232006013 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232006014 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 536232006015 Walker A/P-loop; other site 536232006016 ATP binding site [chemical binding]; other site 536232006017 Q-loop/lid; other site 536232006018 ABC transporter signature motif; other site 536232006019 Walker B; other site 536232006020 D-loop; other site 536232006021 H-loop/switch region; other site 536232006022 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232006023 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232006024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232006025 Walker A/P-loop; other site 536232006026 ATP binding site [chemical binding]; other site 536232006027 Q-loop/lid; other site 536232006028 ABC transporter signature motif; other site 536232006029 Walker B; other site 536232006030 D-loop; other site 536232006031 H-loop/switch region; other site 536232006032 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 536232006033 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536232006034 DNA binding residues [nucleotide binding] 536232006035 dimer interface [polypeptide binding]; other site 536232006036 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 536232006037 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232006038 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536232006039 Peptidase_G2, IMC autoproteolytic cleavage domain; Region: Peptidase_G2; pfam11962 536232006040 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232006041 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232006042 M6 family metalloprotease domain; Region: M6dom_TIGR03296 536232006043 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 536232006044 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 536232006045 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 536232006046 Walker A motif; other site 536232006047 ATP binding site [chemical binding]; other site 536232006048 Walker B motif; other site 536232006049 arginine finger; other site 536232006050 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 536232006051 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 536232006052 homotrimer interaction site [polypeptide binding]; other site 536232006053 putative active site [active] 536232006054 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 536232006055 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536232006056 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 536232006057 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 536232006058 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232006059 homodimer interface [polypeptide binding]; other site 536232006060 catalytic residue [active] 536232006061 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 536232006062 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 536232006063 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232006064 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232006065 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232006066 M6 family metalloprotease domain; Region: M6dom_TIGR03296 536232006067 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 536232006068 dimerization interface [polypeptide binding]; other site 536232006069 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232006070 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 536232006071 dimer interface [polypeptide binding]; other site 536232006072 phosphorylation site [posttranslational modification] 536232006073 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 536232006074 ATP binding site [chemical binding]; other site 536232006075 Mg2+ binding site [ion binding]; other site 536232006076 G-X-G motif; other site 536232006077 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232006078 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 536232006079 active site 536232006080 phosphorylation site [posttranslational modification] 536232006081 intermolecular recognition site; other site 536232006082 dimerization interface [polypeptide binding]; other site 536232006083 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 536232006084 DNA binding site [nucleotide binding] 536232006085 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 536232006086 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 536232006087 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 536232006088 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 536232006089 Walker A/P-loop; other site 536232006090 ATP binding site [chemical binding]; other site 536232006091 Q-loop/lid; other site 536232006092 ABC transporter signature motif; other site 536232006093 Walker B; other site 536232006094 D-loop; other site 536232006095 H-loop/switch region; other site 536232006096 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 536232006097 Walker A/P-loop; other site 536232006098 ATP binding site [chemical binding]; other site 536232006099 Q-loop/lid; other site 536232006100 ABC transporter signature motif; other site 536232006101 Walker B; other site 536232006102 D-loop; other site 536232006103 H-loop/switch region; other site 536232006104 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 536232006105 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 536232006106 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 536232006107 dimer interface [polypeptide binding]; other site 536232006108 active site 536232006109 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536232006110 substrate binding site [chemical binding]; other site 536232006111 catalytic residue [active] 536232006112 Spore germination protein; Region: Spore_permease; cl17796 536232006113 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 536232006114 Spore germination protein; Region: Spore_permease; cl17796 536232006115 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 536232006116 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 536232006117 Spore germination protein; Region: Spore_permease; cl17796 536232006118 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 536232006119 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 536232006120 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 536232006121 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 536232006122 FeS/SAM binding site; other site 536232006123 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 536232006124 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 536232006125 binding surface 536232006126 TPR repeat; Region: TPR_11; pfam13414 536232006127 TPR motif; other site 536232006128 TPR repeat; Region: TPR_11; pfam13414 536232006129 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 536232006130 binding surface 536232006131 TPR motif; other site 536232006132 TPR repeat; Region: TPR_11; pfam13414 536232006133 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 536232006134 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 536232006135 TrkA-C domain; Region: TrkA_C; pfam02080 536232006136 heat shock protein 90; Provisional; Region: PRK05218 536232006137 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 536232006138 ATP binding site [chemical binding]; other site 536232006139 Mg2+ binding site [ion binding]; other site 536232006140 G-X-G motif; other site 536232006141 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232006142 Walker A/P-loop; other site 536232006143 ATP binding site [chemical binding]; other site 536232006144 Q-loop/lid; other site 536232006145 ABC transporter signature motif; other site 536232006146 Walker B; other site 536232006147 D-loop; other site 536232006148 H-loop/switch region; other site 536232006149 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 536232006150 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 536232006151 active site turn [active] 536232006152 phosphorylation site [posttranslational modification] 536232006153 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232006154 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 536232006155 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 536232006156 Ca binding site [ion binding]; other site 536232006157 active site 536232006158 catalytic site [active] 536232006159 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 536232006160 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232006161 DNA-binding site [nucleotide binding]; DNA binding site 536232006162 UTRA domain; Region: UTRA; pfam07702 536232006163 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 536232006164 active site 536232006165 phosphorylation site [posttranslational modification] 536232006166 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 536232006167 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 536232006168 active site 536232006169 P-loop; other site 536232006170 phosphorylation site [posttranslational modification] 536232006171 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 536232006172 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 536232006173 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 536232006174 putative substrate binding site [chemical binding]; other site 536232006175 putative ATP binding site [chemical binding]; other site 536232006176 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 536232006177 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 536232006178 intersubunit interface [polypeptide binding]; other site 536232006179 active site 536232006180 zinc binding site [ion binding]; other site 536232006181 Na+ binding site [ion binding]; other site 536232006182 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536232006183 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536232006184 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 536232006185 putative active site [active] 536232006186 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 536232006187 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 536232006188 homotrimer interaction site [polypeptide binding]; other site 536232006189 putative active site [active] 536232006190 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 536232006191 Radical SAM superfamily; Region: Radical_SAM; pfam04055 536232006192 FeS/SAM binding site; other site 536232006193 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 536232006194 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 536232006195 dimer interface [polypeptide binding]; other site 536232006196 active site 536232006197 metal binding site [ion binding]; metal-binding site 536232006198 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 536232006199 dimerization interface [polypeptide binding]; other site 536232006200 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232006201 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232006202 dimer interface [polypeptide binding]; other site 536232006203 putative CheW interface [polypeptide binding]; other site 536232006204 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 536232006205 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 536232006206 dimer interface [polypeptide binding]; other site 536232006207 active site 536232006208 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536232006209 substrate binding site [chemical binding]; other site 536232006210 catalytic residue [active] 536232006211 ATP cone domain; Region: ATP-cone; pfam03477 536232006212 putative oxidoreductase; Provisional; Region: PRK11579 536232006213 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536232006214 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536232006215 adenine phosphoribosyltransferase; Provisional; Region: PRK07322 536232006216 active site 536232006217 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 536232006218 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536232006219 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536232006220 metal binding site [ion binding]; metal-binding site 536232006221 active site 536232006222 I-site; other site 536232006223 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 536232006224 GAF domain; Region: GAF_3; pfam13492 536232006225 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 536232006226 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 536232006227 Walker A motif; other site 536232006228 ATP binding site [chemical binding]; other site 536232006229 Walker B motif; other site 536232006230 arginine finger; other site 536232006231 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 536232006232 DEAD-like helicases superfamily; Region: DEXDc; smart00487 536232006233 ATP binding site [chemical binding]; other site 536232006234 Mg++ binding site [ion binding]; other site 536232006235 motif III; other site 536232006236 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 536232006237 nucleotide binding region [chemical binding]; other site 536232006238 ATP-binding site [chemical binding]; other site 536232006239 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 536232006240 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 536232006241 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 536232006242 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232006243 DNA-binding site [nucleotide binding]; DNA binding site 536232006244 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 536232006245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232006246 homodimer interface [polypeptide binding]; other site 536232006247 catalytic residue [active] 536232006248 EamA-like transporter family; Region: EamA; pfam00892 536232006249 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536232006250 EamA-like transporter family; Region: EamA; cl17759 536232006251 aspartate aminotransferase; Provisional; Region: PRK06348 536232006252 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 536232006253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232006254 homodimer interface [polypeptide binding]; other site 536232006255 catalytic residue [active] 536232006256 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536232006257 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536232006258 Walker A/P-loop; other site 536232006259 ATP binding site [chemical binding]; other site 536232006260 Q-loop/lid; other site 536232006261 ABC transporter signature motif; other site 536232006262 Walker B; other site 536232006263 D-loop; other site 536232006264 H-loop/switch region; other site 536232006265 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536232006266 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 536232006267 substrate binding pocket [chemical binding]; other site 536232006268 membrane-bound complex binding site; other site 536232006269 hinge residues; other site 536232006270 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 536232006271 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 536232006272 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232006273 catalytic residue [active] 536232006274 Chloramphenicol acetyltransferase; Region: CAT; cl02008 536232006275 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 536232006276 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 536232006277 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 536232006278 AAA domain; Region: AAA_12; pfam13087 536232006279 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 536232006280 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 536232006281 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 536232006282 putative substrate translocation pore; other site 536232006283 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 536232006284 POT family; Region: PTR2; cl17359 536232006285 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 536232006286 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 536232006287 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 536232006288 active site 536232006289 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 536232006290 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 536232006291 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 536232006292 Na2 binding site [ion binding]; other site 536232006293 putative substrate binding site 1 [chemical binding]; other site 536232006294 Na binding site 1 [ion binding]; other site 536232006295 putative substrate binding site 2 [chemical binding]; other site 536232006296 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 536232006297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232006298 DNA-binding site [nucleotide binding]; DNA binding site 536232006299 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 536232006300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232006301 homodimer interface [polypeptide binding]; other site 536232006302 catalytic residue [active] 536232006303 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 536232006304 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 536232006305 homotrimer interaction site [polypeptide binding]; other site 536232006306 putative active site [active] 536232006307 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 536232006308 nucleophilic elbow; other site 536232006309 catalytic triad; other site 536232006310 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 536232006311 metal ion-dependent adhesion site (MIDAS); other site 536232006312 shikimate kinase II; Reviewed; Region: aroL; cl17327 536232006313 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 536232006314 myosin-cross-reactive antigen; Provisional; Region: PRK13977 536232006315 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 536232006316 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232006317 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232006318 putative CheW interface [polypeptide binding]; other site 536232006319 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 536232006320 active site 536232006321 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 536232006322 active site 536232006323 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 536232006324 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 536232006325 putative trimer interface [polypeptide binding]; other site 536232006326 putative CoA binding site [chemical binding]; other site 536232006327 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 536232006328 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 536232006329 inhibitor-cofactor binding pocket; inhibition site 536232006330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232006331 catalytic residue [active] 536232006332 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 536232006333 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 536232006334 active site 536232006335 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 536232006336 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 536232006337 substrate binding site; other site 536232006338 metal-binding site 536232006339 Oligomer interface; other site 536232006340 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 536232006341 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 536232006342 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 536232006343 NAD binding site [chemical binding]; other site 536232006344 substrate binding site [chemical binding]; other site 536232006345 homodimer interface [polypeptide binding]; other site 536232006346 active site 536232006347 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 536232006348 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 536232006349 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 536232006350 PGAP1-like protein; Region: PGAP1; pfam07819 536232006351 VanZ like family; Region: VanZ; pfam04892 536232006352 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 536232006353 glycosyltransferase, MGT family; Region: MGT; TIGR01426 536232006354 active site 536232006355 TDP-binding site; other site 536232006356 acceptor substrate-binding pocket; other site 536232006357 homodimer interface [polypeptide binding]; other site 536232006358 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 536232006359 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 536232006360 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 536232006361 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 536232006362 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]; Region: COG1637 536232006363 Radical SAM superfamily; Region: Radical_SAM; pfam04055 536232006364 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 536232006365 FeS/SAM binding site; other site 536232006366 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232006367 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 536232006368 active site 536232006369 metal binding site [ion binding]; metal-binding site 536232006370 Sporulation related domain; Region: SPOR; cl10051 536232006371 Holin family; Region: Phage_holin_4; pfam05105 536232006372 DNA repair protein (rad1); Region: rad1; TIGR00596 536232006373 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated...; Region: H15; cl00073 536232006374 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 536232006375 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 536232006376 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 536232006377 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 536232006378 ATP binding site [chemical binding]; other site 536232006379 putative Mg++ binding site [ion binding]; other site 536232006380 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 536232006381 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 536232006382 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 536232006383 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 536232006384 HsdM N-terminal domain; Region: HsdM_N; pfam12161 536232006385 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 536232006386 S-adenosylmethionine binding site [chemical binding]; other site 536232006387 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 536232006388 ATP binding site [chemical binding]; other site 536232006389 putative Mg++ binding site [ion binding]; other site 536232006390 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 536232006391 nucleotide binding region [chemical binding]; other site 536232006392 ATP-binding site [chemical binding]; other site 536232006393 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 536232006394 AIPR protein; Region: AIPR; pfam10592 536232006395 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536232006396 Resolvase, N terminal domain; Region: Resolvase; pfam00239 536232006397 catalytic residues [active] 536232006398 catalytic nucleophile [active] 536232006399 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536232006400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536232006401 NAD(P) binding site [chemical binding]; other site 536232006402 active site 536232006403 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 536232006404 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 536232006405 active site 536232006406 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 536232006407 active site 536232006408 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 536232006409 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 536232006410 active site 536232006411 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536232006412 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 536232006413 Predicted transcriptional regulators [Transcription]; Region: COG1695 536232006414 Transcriptional regulator PadR-like family; Region: PadR; cl17335 536232006415 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 536232006416 Membrane transport protein; Region: Mem_trans; cl09117 536232006417 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 536232006418 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 536232006419 G1 box; other site 536232006420 putative GEF interaction site [polypeptide binding]; other site 536232006421 GTP/Mg2+ binding site [chemical binding]; other site 536232006422 Switch I region; other site 536232006423 G2 box; other site 536232006424 G3 box; other site 536232006425 Switch II region; other site 536232006426 G4 box; other site 536232006427 G5 box; other site 536232006428 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 536232006429 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 536232006430 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 536232006431 Viral enhancin protein; Region: Enhancin; pfam03272 536232006432 Peptidase M60-like family; Region: M60-like; pfam13402 536232006433 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 536232006434 aromatic chitin/cellulose binding site residues [chemical binding]; other site 536232006435 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 536232006436 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536232006437 Soluble P-type ATPase [General function prediction only]; Region: COG4087 536232006438 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 536232006439 putative homodimer interface [polypeptide binding]; other site 536232006440 putative homotetramer interface [polypeptide binding]; other site 536232006441 putative metal binding site [ion binding]; other site 536232006442 putative homodimer-homodimer interface [polypeptide binding]; other site 536232006443 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 536232006444 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 536232006445 Hexamer interface [polypeptide binding]; other site 536232006446 Putative hexagonal pore residue; other site 536232006447 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 536232006448 Propanediol utilisation protein PduL; Region: PduL; pfam06130 536232006449 Propanediol utilisation protein PduL; Region: PduL; pfam06130 536232006450 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 536232006451 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 536232006452 putative catalytic cysteine [active] 536232006453 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 536232006454 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 536232006455 Hexamer interface [polypeptide binding]; other site 536232006456 Hexagonal pore residue; other site 536232006457 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 536232006458 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 536232006459 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 536232006460 Hexamer/Pentamer interface [polypeptide binding]; other site 536232006461 central pore; other site 536232006462 Bacterial Micro-Compartment (BMC)-like domain 2; Region: BMC_like_2; cd07055 536232006463 putative hexamer interface [polypeptide binding]; other site 536232006464 putative hexagonal pore; other site 536232006465 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 536232006466 Cell division protein FtsA; Region: FtsA; cl17206 536232006467 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 536232006468 nucleotide binding site [chemical binding]; other site 536232006469 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 536232006470 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 536232006471 G1 box; other site 536232006472 GTP/Mg2+ binding site [chemical binding]; other site 536232006473 G2 box; other site 536232006474 Switch I region; other site 536232006475 G3 box; other site 536232006476 Switch II region; other site 536232006477 G4 box; other site 536232006478 G5 box; other site 536232006479 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 536232006480 putative hexamer interface [polypeptide binding]; other site 536232006481 putative hexagonal pore; other site 536232006482 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 536232006483 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536232006484 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 536232006485 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 536232006486 dimer interface [polypeptide binding]; other site 536232006487 active site 536232006488 glycine loop; other site 536232006489 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 536232006490 putative catalytic cysteine [active] 536232006491 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 536232006492 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 536232006493 Hexamer interface [polypeptide binding]; other site 536232006494 Hexagonal pore residue; other site 536232006495 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 536232006496 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 536232006497 Hexamer interface [polypeptide binding]; other site 536232006498 Hexagonal pore residue; other site 536232006499 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 536232006500 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 536232006501 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536232006502 DNA binding residues [nucleotide binding] 536232006503 drug binding residues [chemical binding]; other site 536232006504 dimer interface [polypeptide binding]; other site 536232006505 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 536232006506 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 536232006507 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 536232006508 putative active site [active] 536232006509 metal binding site [ion binding]; metal-binding site 536232006510 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 536232006511 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 536232006512 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 536232006513 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 536232006514 putative substrate translocation pore; other site 536232006515 Transcriptional regulators [Transcription]; Region: FadR; COG2186 536232006516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232006517 DNA-binding site [nucleotide binding]; DNA binding site 536232006518 FCD domain; Region: FCD; pfam07729 536232006519 MarR family; Region: MarR_2; pfam12802 536232006520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232006521 Coenzyme A binding pocket [chemical binding]; other site 536232006522 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 536232006523 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 536232006524 Helix-turn-helix domain; Region: HTH_17; pfam12728 536232006525 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 536232006526 active site 536232006527 catalytic site [active] 536232006528 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 536232006529 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 536232006530 active site 536232006531 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232006532 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 536232006533 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 536232006534 ATP binding site [chemical binding]; other site 536232006535 Mg2+ binding site [ion binding]; other site 536232006536 G-X-G motif; other site 536232006537 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232006538 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 536232006539 active site 536232006540 phosphorylation site [posttranslational modification] 536232006541 intermolecular recognition site; other site 536232006542 dimerization interface [polypeptide binding]; other site 536232006543 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 536232006544 DNA binding site [nucleotide binding] 536232006545 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 536232006546 Zn binding site [ion binding]; other site 536232006547 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232006548 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 536232006549 Walker A/P-loop; other site 536232006550 ATP binding site [chemical binding]; other site 536232006551 Q-loop/lid; other site 536232006552 ABC transporter signature motif; other site 536232006553 Walker B; other site 536232006554 D-loop; other site 536232006555 H-loop/switch region; other site 536232006556 putative oxidoreductase; Provisional; Region: PRK11445 536232006557 TrkA-N domain; Region: TrkA_N; pfam02254 536232006558 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 536232006559 Predicted transcriptional regulator [Transcription]; Region: COG3655 536232006560 salt bridge; other site 536232006561 non-specific DNA binding site [nucleotide binding]; other site 536232006562 sequence-specific DNA binding site [nucleotide binding]; other site 536232006563 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 536232006564 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536232006565 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 536232006566 NAD(P) binding site [chemical binding]; other site 536232006567 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 536232006568 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 536232006569 Metal-binding active site; metal-binding site 536232006570 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 536232006571 active site 536232006572 dimer interface [polypeptide binding]; other site 536232006573 metal binding site [ion binding]; metal-binding site 536232006574 FtsX-like permease family; Region: FtsX; pfam02687 536232006575 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232006576 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232006577 Walker A/P-loop; other site 536232006578 ATP binding site [chemical binding]; other site 536232006579 Q-loop/lid; other site 536232006580 ABC transporter signature motif; other site 536232006581 Walker B; other site 536232006582 D-loop; other site 536232006583 H-loop/switch region; other site 536232006584 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 536232006585 HTH domain; Region: HTH_11; pfam08279 536232006586 HTH domain; Region: HTH_11; pfam08279 536232006587 PRD domain; Region: PRD; pfam00874 536232006588 PRD domain; Region: PRD; pfam00874 536232006589 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 536232006590 active site 536232006591 P-loop; other site 536232006592 phosphorylation site [posttranslational modification] 536232006593 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 536232006594 active site 536232006595 phosphorylation site [posttranslational modification] 536232006596 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 536232006597 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 536232006598 active site 536232006599 P-loop; other site 536232006600 phosphorylation site [posttranslational modification] 536232006601 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 536232006602 active site 536232006603 phosphorylation site [posttranslational modification] 536232006604 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 536232006605 active site 536232006606 intersubunit interactions; other site 536232006607 catalytic residue [active] 536232006608 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 536232006609 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 536232006610 active site 536232006611 substrate binding site [chemical binding]; other site 536232006612 trimer interface [polypeptide binding]; other site 536232006613 CoA binding site [chemical binding]; other site 536232006614 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 536232006615 POT family; Region: PTR2; cl17359 536232006616 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 536232006617 S-adenosylmethionine binding site [chemical binding]; other site 536232006618 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232006619 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232006620 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 536232006621 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 536232006622 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 536232006623 phosphate binding site [ion binding]; other site 536232006624 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 536232006625 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536232006626 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536232006627 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 536232006628 DNA binding residues [nucleotide binding] 536232006629 dimer interface [polypeptide binding]; other site 536232006630 CRISPR spacer 536232006631 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 536232006632 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 536232006633 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232006634 DNA-binding site [nucleotide binding]; DNA binding site 536232006635 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 536232006636 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 536232006637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232006638 homodimer interface [polypeptide binding]; other site 536232006639 catalytic residue [active] 536232006640 CRISPR repeat region, RAMP subtype 536232006641 Staygreen protein; Region: Staygreen; pfam12638 536232006642 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232006643 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 536232006644 non-specific DNA binding site [nucleotide binding]; other site 536232006645 salt bridge; other site 536232006646 sequence-specific DNA binding site [nucleotide binding]; other site 536232006647 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 536232006648 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 536232006649 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 536232006650 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 536232006651 active site 536232006652 putative substrate binding pocket [chemical binding]; other site 536232006653 xanthine permease; Region: pbuX; TIGR03173 536232006654 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 536232006655 Catalytic domain of Protein Kinases; Region: PKc; cd00180 536232006656 active site 536232006657 ATP binding site [chemical binding]; other site 536232006658 substrate binding site [chemical binding]; other site 536232006659 activation loop (A-loop); other site 536232006660 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 536232006661 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 536232006662 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 536232006663 Uncharacterized membrane protein [Function unknown]; Region: COG3949 536232006664 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 536232006665 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 536232006666 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536232006667 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 536232006668 Ligand binding site [chemical binding]; other site 536232006669 Electron transfer flavoprotein domain; Region: ETF; pfam01012 536232006670 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536232006671 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536232006672 active site 536232006673 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 536232006674 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232006675 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 536232006676 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232006677 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 536232006678 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536232006679 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 536232006680 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232006681 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 536232006682 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232006683 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 536232006684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232006685 dimer interface [polypeptide binding]; other site 536232006686 putative CheW interface [polypeptide binding]; other site 536232006687 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 536232006688 dimer interface [polypeptide binding]; other site 536232006689 FMN binding site [chemical binding]; other site 536232006690 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232006691 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536232006692 Coenzyme A binding pocket [chemical binding]; other site 536232006693 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 536232006694 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 536232006695 dimer interface [polypeptide binding]; other site 536232006696 active site 536232006697 Mn binding site [ion binding]; other site 536232006698 GntP family permease; Region: GntP_permease; pfam02447 536232006699 fructuronate transporter; Provisional; Region: PRK10034; cl15264 536232006700 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 536232006701 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 536232006702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 536232006703 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536232006704 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 536232006705 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536232006706 CAAX protease self-immunity; Region: Abi; pfam02517 536232006707 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 536232006708 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 536232006709 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536232006710 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232006711 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232006712 WHG domain; Region: WHG; pfam13305 536232006713 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232006714 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 536232006715 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 536232006716 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536232006717 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 536232006718 putative NAD(P) binding site [chemical binding]; other site 536232006719 catalytic Zn binding site [ion binding]; other site 536232006720 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 536232006721 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 536232006722 ACS interaction site; other site 536232006723 CODH interaction site; other site 536232006724 cubane metal cluster (B-cluster) [ion binding]; other site 536232006725 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 536232006726 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 536232006727 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 536232006728 Transmembrane protein 55A; Region: Tmemb_55A; pfam09788 536232006729 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232006730 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 536232006731 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 536232006732 P loop nucleotide binding; other site 536232006733 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 536232006734 switch II; other site 536232006735 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 536232006736 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 536232006737 P loop nucleotide binding; other site 536232006738 switch II; other site 536232006739 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 536232006740 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 536232006741 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 536232006742 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536232006743 ligand binding site [chemical binding]; other site 536232006744 flagellar motor protein MotA; Validated; Region: PRK08124 536232006745 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 536232006746 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232006747 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 536232006748 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232006749 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 536232006750 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 536232006751 OPT oligopeptide transporter protein; Region: OPT; cl14607 536232006752 putative oligopeptide transporter, OPT family; Region: TIGR00733 536232006753 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 536232006754 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 536232006755 metal binding site [ion binding]; metal-binding site 536232006756 dimer interface [polypeptide binding]; other site 536232006757 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 536232006758 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 536232006759 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232006760 catalytic residue [active] 536232006761 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 536232006762 oxidoreductase; Provisional; Region: PRK08017 536232006763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536232006764 NAD(P) binding site [chemical binding]; other site 536232006765 active site 536232006766 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 536232006767 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 536232006768 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 536232006769 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232006770 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232006771 Walker A/P-loop; other site 536232006772 ATP binding site [chemical binding]; other site 536232006773 Q-loop/lid; other site 536232006774 ABC transporter signature motif; other site 536232006775 Walker B; other site 536232006776 D-loop; other site 536232006777 H-loop/switch region; other site 536232006778 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536232006779 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232006780 Coenzyme A binding pocket [chemical binding]; other site 536232006781 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232006782 MarR family; Region: MarR_2; pfam12802 536232006783 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 536232006784 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 536232006785 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 536232006786 Predicted dehydrogenase [General function prediction only]; Region: COG0579 536232006787 hydroxyglutarate oxidase; Provisional; Region: PRK11728 536232006788 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 536232006789 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 536232006790 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536232006791 DNA binding residues [nucleotide binding] 536232006792 drug binding residues [chemical binding]; other site 536232006793 dimer interface [polypeptide binding]; other site 536232006794 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 536232006795 Amino acid permease; Region: AA_permease_2; pfam13520 536232006796 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 536232006797 putative ADP-ribose binding site [chemical binding]; other site 536232006798 putative active site [active] 536232006799 Predicted membrane protein [Function unknown]; Region: COG3326 536232006800 MarR family; Region: MarR_2; cl17246 536232006801 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232006802 TIGR03987 family protein; Region: TIGR03987 536232006803 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 536232006804 substrate binding site [chemical binding]; other site 536232006805 multimerization interface [polypeptide binding]; other site 536232006806 ATP binding site [chemical binding]; other site 536232006807 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 536232006808 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536232006809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232006810 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536232006811 Coenzyme A binding pocket [chemical binding]; other site 536232006812 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232006813 Mor transcription activator family; Region: Mor; cl02360 536232006814 AAA domain; Region: AAA_26; pfam13500 536232006815 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 536232006816 biotin synthase; Region: bioB; TIGR00433 536232006817 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 536232006818 FeS/SAM binding site; other site 536232006819 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 536232006820 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 536232006821 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 536232006822 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 536232006823 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 536232006824 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 536232006825 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 536232006826 active site 536232006827 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 536232006828 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 536232006829 putative substrate translocation pore; other site 536232006830 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 536232006831 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 536232006832 YmaF family; Region: YmaF; pfam12788 536232006833 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 536232006834 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 536232006835 active site 536232006836 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232006837 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536232006838 Terminase small subunit; Region: Terminase_2; cl01513 536232006839 YmaF family; Region: YmaF; pfam12788 536232006840 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 536232006841 non-specific DNA binding site [nucleotide binding]; other site 536232006842 salt bridge; other site 536232006843 sequence-specific DNA binding site [nucleotide binding]; other site 536232006844 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232006845 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 536232006846 active site 536232006847 metal binding site [ion binding]; metal-binding site 536232006848 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232006849 Haemolysin XhlA; Region: XhlA; pfam10779 536232006850 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 536232006851 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 536232006852 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 536232006853 Baseplate J-like protein; Region: Baseplate_J; pfam04865 536232006854 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 536232006855 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 536232006856 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 536232006857 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 536232006858 Phage XkdN-like protein; Region: XkdN; pfam08890 536232006859 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 536232006860 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 536232006861 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 536232006862 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 536232006863 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 536232006864 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 536232006865 Phage terminase large subunit [General function prediction only]; Region: XtmB; COG1783 536232006866 Uncharacterized conserved protein [Function unknown]; Region: COG5484 536232006867 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 536232006868 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 536232006869 Predicted membrane protein [Function unknown]; Region: COG3212 536232006870 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 536232006871 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 536232006872 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 536232006873 YopX protein; Region: YopX; pfam09643 536232006874 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 536232006875 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 536232006876 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 536232006877 active site 536232006878 DNA binding site [nucleotide binding] 536232006879 Int/Topo IB signature motif; other site 536232006880 host recBCD nuclease inhibitor; Region: PHA00442 536232006881 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 536232006882 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 536232006883 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u5; cd11542 536232006884 metal binding site [ion binding]; metal-binding site 536232006885 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 536232006886 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 536232006887 Poxvirus A11 Protein; Region: Pox_A11; pfam05061 536232006888 Myb-like DNA-binding domain; Region: Myb_DNA-bind_6; pfam13921 536232006889 hypothetical protein; Validated; Region: PRK08116 536232006890 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 536232006891 Walker A motif; other site 536232006892 ATP binding site [chemical binding]; other site 536232006893 Walker B motif; other site 536232006894 arginine finger; other site 536232006895 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 536232006896 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 536232006897 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 536232006898 Class I aldolases; Region: Aldolase_Class_I; cl17187 536232006899 Phage anti-repressor protein [Transcription]; Region: COG3561 536232006900 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 536232006901 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232006902 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 536232006903 non-specific DNA binding site [nucleotide binding]; other site 536232006904 salt bridge; other site 536232006905 sequence-specific DNA binding site [nucleotide binding]; other site 536232006906 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232006907 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 536232006908 non-specific DNA binding site [nucleotide binding]; other site 536232006909 salt bridge; other site 536232006910 sequence-specific DNA binding site [nucleotide binding]; other site 536232006911 Domain of unknown function (DUF955); Region: DUF955; pfam06114 536232006912 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 536232006913 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 536232006914 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 536232006915 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 536232006916 catalytic residues [active] 536232006917 catalytic nucleophile [active] 536232006918 Recombinase; Region: Recombinase; pfam07508 536232006919 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 536232006920 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 536232006921 hypothetical protein; Provisional; Region: PRK05802 536232006922 FAD binding pocket [chemical binding]; other site 536232006923 FAD binding motif [chemical binding]; other site 536232006924 phosphate binding motif [ion binding]; other site 536232006925 beta-alpha-beta structure motif; other site 536232006926 NAD binding pocket [chemical binding]; other site 536232006927 Iron coordination center [ion binding]; other site 536232006928 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 536232006929 methionine sulfoxide reductase B; Provisional; Region: PRK00222 536232006930 SelR domain; Region: SelR; pfam01641 536232006931 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 536232006932 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 536232006933 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 536232006934 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232006935 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232006936 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232006937 Walker A/P-loop; other site 536232006938 ATP binding site [chemical binding]; other site 536232006939 Q-loop/lid; other site 536232006940 ABC transporter signature motif; other site 536232006941 Walker B; other site 536232006942 D-loop; other site 536232006943 H-loop/switch region; other site 536232006944 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232006945 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232006946 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232006947 Walker A/P-loop; other site 536232006948 ATP binding site [chemical binding]; other site 536232006949 Q-loop/lid; other site 536232006950 ABC transporter signature motif; other site 536232006951 Walker B; other site 536232006952 D-loop; other site 536232006953 H-loop/switch region; other site 536232006954 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232006955 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232006956 serine racemase; Region: PLN02970 536232006957 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232006958 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232006959 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232006960 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 536232006961 Walker A/P-loop; other site 536232006962 ATP binding site [chemical binding]; other site 536232006963 Q-loop/lid; other site 536232006964 ABC transporter signature motif; other site 536232006965 Walker B; other site 536232006966 D-loop; other site 536232006967 H-loop/switch region; other site 536232006968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232006969 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 536232006970 dimer interface [polypeptide binding]; other site 536232006971 phosphorylation site [posttranslational modification] 536232006972 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 536232006973 ATP binding site [chemical binding]; other site 536232006974 Mg2+ binding site [ion binding]; other site 536232006975 G-X-G motif; other site 536232006976 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232006977 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 536232006978 active site 536232006979 phosphorylation site [posttranslational modification] 536232006980 intermolecular recognition site; other site 536232006981 dimerization interface [polypeptide binding]; other site 536232006982 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 536232006983 DNA binding site [nucleotide binding] 536232006984 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 536232006985 active site 536232006986 catalytic site [active] 536232006987 substrate binding site [chemical binding]; other site 536232006988 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 536232006989 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 536232006990 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 536232006991 active site 536232006992 catalytic residues [active] 536232006993 metal binding site [ion binding]; metal-binding site 536232006994 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 536232006995 non-specific DNA binding site [nucleotide binding]; other site 536232006996 salt bridge; other site 536232006997 sequence-specific DNA binding site [nucleotide binding]; other site 536232006998 transglutaminase; Provisional; Region: tgl; PRK03187 536232006999 Leucine carboxyl methyltransferase; Region: LCM; cl01306 536232007000 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 536232007001 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 536232007002 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 536232007003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232007004 Spore germination protein; Region: Spore_permease; cl17796 536232007005 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 536232007006 GIY-YIG motif/motif A; other site 536232007007 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 536232007008 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 536232007009 active site 536232007010 NTP binding site [chemical binding]; other site 536232007011 metal binding triad [ion binding]; metal-binding site 536232007012 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 536232007013 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232007014 Zn2+ binding site [ion binding]; other site 536232007015 Mg2+ binding site [ion binding]; other site 536232007016 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 536232007017 Predicted nucleotidyltransferase [General function prediction only]; Region: COG3541 536232007018 CAAX protease self-immunity; Region: Abi; pfam02517 536232007019 Src Homology 3 domain superfamily; Region: SH3; cl17036 536232007020 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 536232007021 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232007022 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 536232007023 dimer interface [polypeptide binding]; other site 536232007024 phosphorylation site [posttranslational modification] 536232007025 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 536232007026 ATP binding site [chemical binding]; other site 536232007027 Mg2+ binding site [ion binding]; other site 536232007028 G-X-G motif; other site 536232007029 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232007030 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 536232007031 active site 536232007032 phosphorylation site [posttranslational modification] 536232007033 intermolecular recognition site; other site 536232007034 dimerization interface [polypeptide binding]; other site 536232007035 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 536232007036 DNA binding site [nucleotide binding] 536232007037 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 536232007038 hypothetical protein; Provisional; Region: PRK06921 536232007039 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 536232007040 Walker A motif; other site 536232007041 ATP binding site [chemical binding]; other site 536232007042 Walker B motif; other site 536232007043 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232007044 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 536232007045 non-specific DNA binding site [nucleotide binding]; other site 536232007046 salt bridge; other site 536232007047 sequence-specific DNA binding site [nucleotide binding]; other site 536232007048 YcfA-like protein; Region: YcfA; pfam07927 536232007049 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 536232007050 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232007051 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 536232007052 active site 536232007053 metal binding site [ion binding]; metal-binding site 536232007054 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232007055 Haemolysin XhlA; Region: XhlA; pfam10779 536232007056 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 536232007057 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 536232007058 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 536232007059 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 536232007060 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 536232007061 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536232007062 Phage XkdN-like protein; Region: XkdN; pfam08890 536232007063 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 536232007064 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 536232007065 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 536232007066 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 536232007067 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 536232007068 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 536232007069 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 536232007070 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 536232007071 Phage terminase large subunit; Region: Terminase_3; cl12054 536232007072 Terminase small subunit; Region: Terminase_2; pfam03592 536232007073 DEAD-like helicases superfamily; Region: DEXDc; smart00487 536232007074 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 536232007075 ATP binding site [chemical binding]; other site 536232007076 putative Mg++ binding site [ion binding]; other site 536232007077 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 536232007078 nucleotide binding region [chemical binding]; other site 536232007079 ATP-binding site [chemical binding]; other site 536232007080 VRR-NUC domain; Region: VRR_NUC; pfam08774 536232007081 Virulence-associated protein E; Region: VirE; pfam05272 536232007082 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 536232007083 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 536232007084 active site 536232007085 DNA binding site [nucleotide binding] 536232007086 catalytic site [active] 536232007087 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 536232007088 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 536232007089 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 536232007090 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232007091 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 536232007092 DNA binding residues [nucleotide binding] 536232007093 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 536232007094 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 536232007095 non-specific DNA binding site [nucleotide binding]; other site 536232007096 salt bridge; other site 536232007097 sequence-specific DNA binding site [nucleotide binding]; other site 536232007098 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232007099 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 536232007100 non-specific DNA binding site [nucleotide binding]; other site 536232007101 salt bridge; other site 536232007102 sequence-specific DNA binding site [nucleotide binding]; other site 536232007103 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 536232007104 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 536232007105 catalytic residues [active] 536232007106 catalytic nucleophile [active] 536232007107 Presynaptic Site I dimer interface [polypeptide binding]; other site 536232007108 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 536232007109 Synaptic Flat tetramer interface [polypeptide binding]; other site 536232007110 Synaptic Site I dimer interface [polypeptide binding]; other site 536232007111 DNA binding site [nucleotide binding] 536232007112 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 536232007113 Glucose inhibited division protein A; Region: GIDA; pfam01134 536232007114 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 536232007115 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 536232007116 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 536232007117 tetramer interface [polypeptide binding]; other site 536232007118 active site 536232007119 Uncharacterized conserved protein [Function unknown]; Region: COG2155 536232007120 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 536232007121 dimerization domain swap beta strand [polypeptide binding]; other site 536232007122 regulatory protein interface [polypeptide binding]; other site 536232007123 active site 536232007124 regulatory phosphorylation site [posttranslational modification]; other site 536232007125 aspartate aminotransferase; Provisional; Region: PRK05764 536232007126 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 536232007127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232007128 homodimer interface [polypeptide binding]; other site 536232007129 catalytic residue [active] 536232007130 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 536232007131 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 536232007132 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 536232007133 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 536232007134 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 536232007135 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232007136 Zn2+ binding site [ion binding]; other site 536232007137 Mg2+ binding site [ion binding]; other site 536232007138 recombinase A; Provisional; Region: recA; PRK09354 536232007139 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 536232007140 hexamer interface [polypeptide binding]; other site 536232007141 Walker A motif; other site 536232007142 ATP binding site [chemical binding]; other site 536232007143 Walker B motif; other site 536232007144 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 536232007145 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 536232007146 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 536232007147 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 536232007148 Tetraspanin family; Region: Tetraspannin; pfam00335 536232007149 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 536232007150 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 536232007151 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 536232007152 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 536232007153 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 536232007154 active site 536232007155 aspartate kinase I; Reviewed; Region: PRK08210 536232007156 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 536232007157 nucleotide binding site [chemical binding]; other site 536232007158 substrate binding site [chemical binding]; other site 536232007159 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 536232007160 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 536232007161 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 536232007162 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 536232007163 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 536232007164 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 536232007165 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 536232007166 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 536232007167 RNase E interface [polypeptide binding]; other site 536232007168 trimer interface [polypeptide binding]; other site 536232007169 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 536232007170 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 536232007171 RNase E interface [polypeptide binding]; other site 536232007172 trimer interface [polypeptide binding]; other site 536232007173 active site 536232007174 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 536232007175 putative nucleic acid binding region [nucleotide binding]; other site 536232007176 G-X-X-G motif; other site 536232007177 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 536232007178 RNA binding site [nucleotide binding]; other site 536232007179 domain interface; other site 536232007180 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 536232007181 16S/18S rRNA binding site [nucleotide binding]; other site 536232007182 S13e-L30e interaction site [polypeptide binding]; other site 536232007183 25S rRNA binding site [nucleotide binding]; other site 536232007184 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 536232007185 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 536232007186 active site 536232007187 Riboflavin kinase; Region: Flavokinase; pfam01687 536232007188 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 536232007189 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 536232007190 RNA binding site [nucleotide binding]; other site 536232007191 active site 536232007192 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 536232007193 DHH family; Region: DHH; pfam01368 536232007194 DHHA1 domain; Region: DHHA1; pfam02272 536232007195 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 536232007196 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 536232007197 translation initiation factor IF-2; Region: IF-2; TIGR00487 536232007198 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 536232007199 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 536232007200 G1 box; other site 536232007201 putative GEF interaction site [polypeptide binding]; other site 536232007202 GTP/Mg2+ binding site [chemical binding]; other site 536232007203 Switch I region; other site 536232007204 G2 box; other site 536232007205 G3 box; other site 536232007206 Switch II region; other site 536232007207 G4 box; other site 536232007208 G5 box; other site 536232007209 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 536232007210 Translation-initiation factor 2; Region: IF-2; pfam11987 536232007211 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 536232007212 ribosomal protein L7Ae family protein; Provisional; Region: PRK05583 536232007213 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 536232007214 putative RNA binding cleft [nucleotide binding]; other site 536232007215 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 536232007216 NusA N-terminal domain; Region: NusA_N; pfam08529 536232007217 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 536232007218 RNA binding site [nucleotide binding]; other site 536232007219 homodimer interface [polypeptide binding]; other site 536232007220 NusA-like KH domain; Region: KH_5; pfam13184 536232007221 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 536232007222 G-X-X-G motif; other site 536232007223 Sm and related proteins; Region: Sm_like; cl00259 536232007224 ribosome maturation protein RimP; Reviewed; Region: PRK00092 536232007225 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 536232007226 putative oligomer interface [polypeptide binding]; other site 536232007227 putative RNA binding site [nucleotide binding]; other site 536232007228 DNA polymerase III PolC; Validated; Region: polC; PRK00448 536232007229 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 536232007230 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 536232007231 generic binding surface II; other site 536232007232 generic binding surface I; other site 536232007233 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 536232007234 active site 536232007235 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 536232007236 active site 536232007237 catalytic site [active] 536232007238 substrate binding site [chemical binding]; other site 536232007239 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 536232007240 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 536232007241 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 536232007242 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 536232007243 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 536232007244 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 536232007245 active site 536232007246 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 536232007247 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 536232007248 putative substrate binding region [chemical binding]; other site 536232007249 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 536232007250 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 536232007251 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 536232007252 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 536232007253 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 536232007254 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 536232007255 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 536232007256 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 536232007257 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 536232007258 catalytic residue [active] 536232007259 putative FPP diphosphate binding site; other site 536232007260 putative FPP binding hydrophobic cleft; other site 536232007261 dimer interface [polypeptide binding]; other site 536232007262 putative IPP diphosphate binding site; other site 536232007263 ribosome recycling factor; Reviewed; Region: frr; PRK00083 536232007264 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 536232007265 hinge region; other site 536232007266 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 536232007267 putative nucleotide binding site [chemical binding]; other site 536232007268 uridine monophosphate binding site [chemical binding]; other site 536232007269 homohexameric interface [polypeptide binding]; other site 536232007270 elongation factor Ts; Provisional; Region: tsf; PRK09377 536232007271 UBA/TS-N domain; Region: UBA; pfam00627 536232007272 Elongation factor TS; Region: EF_TS; pfam00889 536232007273 Elongation factor TS; Region: EF_TS; pfam00889 536232007274 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 536232007275 rRNA interaction site [nucleotide binding]; other site 536232007276 S8 interaction site; other site 536232007277 putative laminin-1 binding site; other site 536232007278 transcriptional repressor CodY; Validated; Region: PRK04158 536232007279 CodY GAF-like domain; Region: CodY; pfam06018 536232007280 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 536232007281 DNA topoisomerase I; Validated; Region: PRK05582 536232007282 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 536232007283 active site 536232007284 interdomain interaction site; other site 536232007285 putative metal-binding site [ion binding]; other site 536232007286 nucleotide binding site [chemical binding]; other site 536232007287 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 536232007288 domain I; other site 536232007289 DNA binding groove [nucleotide binding] 536232007290 phosphate binding site [ion binding]; other site 536232007291 domain II; other site 536232007292 domain III; other site 536232007293 nucleotide binding site [chemical binding]; other site 536232007294 catalytic site [active] 536232007295 domain IV; other site 536232007296 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 536232007297 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 536232007298 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 536232007299 DNA protecting protein DprA; Region: dprA; TIGR00732 536232007300 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 536232007301 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 536232007302 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 536232007303 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 536232007304 Walker A motif; other site 536232007305 ATP binding site [chemical binding]; other site 536232007306 Walker B motif; other site 536232007307 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 536232007308 hypothetical protein; Reviewed; Region: PRK12497 536232007309 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 536232007310 RNA/DNA hybrid binding site [nucleotide binding]; other site 536232007311 active site 536232007312 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 536232007313 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 536232007314 GTP/Mg2+ binding site [chemical binding]; other site 536232007315 G4 box; other site 536232007316 G5 box; other site 536232007317 G1 box; other site 536232007318 Switch I region; other site 536232007319 G2 box; other site 536232007320 G3 box; other site 536232007321 Switch II region; other site 536232007322 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 536232007323 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 536232007324 Catalytic site [active] 536232007325 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 536232007326 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 536232007327 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 536232007328 RimM N-terminal domain; Region: RimM; pfam01782 536232007329 PRC-barrel domain; Region: PRC; pfam05239 536232007330 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 536232007331 hypothetical protein; Provisional; Region: PRK00468 536232007332 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 536232007333 signal recognition particle protein; Provisional; Region: PRK10867 536232007334 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 536232007335 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 536232007336 P loop; other site 536232007337 GTP binding site [chemical binding]; other site 536232007338 Signal peptide binding domain; Region: SRP_SPB; pfam02978 536232007339 putative DNA-binding protein; Validated; Region: PRK00118 536232007340 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 536232007341 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 536232007342 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 536232007343 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232007344 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 536232007345 AAA domain; Region: AAA_23; pfam13476 536232007346 Walker A/P-loop; other site 536232007347 ATP binding site [chemical binding]; other site 536232007348 Q-loop/lid; other site 536232007349 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 536232007350 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 536232007351 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 536232007352 Q-loop/lid; other site 536232007353 ABC transporter signature motif; other site 536232007354 Walker B; other site 536232007355 D-loop; other site 536232007356 H-loop/switch region; other site 536232007357 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 536232007358 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 536232007359 FeS/SAM binding site; other site 536232007360 ribonuclease III; Reviewed; Region: rnc; PRK00102 536232007361 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 536232007362 dimerization interface [polypeptide binding]; other site 536232007363 active site 536232007364 metal binding site [ion binding]; metal-binding site 536232007365 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 536232007366 dsRNA binding site [nucleotide binding]; other site 536232007367 acyl carrier protein; Provisional; Region: acpP; PRK00982 536232007368 putative phosphate acyltransferase; Provisional; Region: PRK05331 536232007369 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 536232007370 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 536232007371 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 536232007372 propionate/acetate kinase; Provisional; Region: PRK12379 536232007373 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 536232007374 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 536232007375 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 536232007376 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 536232007377 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 536232007378 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 536232007379 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 536232007380 Cache domain; Region: Cache_1; pfam02743 536232007381 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 536232007382 dimerization interface [polypeptide binding]; other site 536232007383 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232007384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232007385 dimer interface [polypeptide binding]; other site 536232007386 putative CheW interface [polypeptide binding]; other site 536232007387 Uncharacterized conserved protein [Function unknown]; Region: COG1915 536232007388 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 536232007389 Uncharacterized conserved protein [Function unknown]; Region: COG1915 536232007390 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 536232007391 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 536232007392 proline racemase; Provisional; Region: PRK13969 536232007393 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 536232007394 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 536232007395 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 536232007396 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 536232007397 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 536232007398 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 536232007399 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 536232007400 similar to hypothetical protein; identified by glimmer; putative 536232007401 Predicted permease; Region: DUF318; cl17795 536232007402 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 536232007403 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 536232007404 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 536232007405 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 536232007406 putative active site [active] 536232007407 heme pocket [chemical binding]; other site 536232007408 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 536232007409 Walker A motif; other site 536232007410 ATP binding site [chemical binding]; other site 536232007411 Walker B motif; other site 536232007412 arginine finger; other site 536232007413 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536232007414 hypothetical protein; Provisional; Region: PRK13670 536232007415 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 536232007416 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 536232007417 Nucleoside recognition; Region: Gate; pfam07670 536232007418 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 536232007419 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 536232007420 active site 536232007421 (T/H)XGH motif; other site 536232007422 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 536232007423 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 536232007424 S-adenosylmethionine binding site [chemical binding]; other site 536232007425 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 536232007426 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 536232007427 ssDNA binding site; other site 536232007428 generic binding surface II; other site 536232007429 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 536232007430 ATP binding site [chemical binding]; other site 536232007431 putative Mg++ binding site [ion binding]; other site 536232007432 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 536232007433 nucleotide binding region [chemical binding]; other site 536232007434 ATP-binding site [chemical binding]; other site 536232007435 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 536232007436 DAK2 domain; Region: Dak2; pfam02734 536232007437 Asp23 family; Region: Asp23; pfam03780 536232007438 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 536232007439 Thiamine pyrophosphokinase; Region: TPK; cd07995 536232007440 active site 536232007441 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 536232007442 dimerization interface [polypeptide binding]; other site 536232007443 thiamine binding site [chemical binding]; other site 536232007444 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 536232007445 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 536232007446 substrate binding site [chemical binding]; other site 536232007447 hexamer interface [polypeptide binding]; other site 536232007448 metal binding site [ion binding]; metal-binding site 536232007449 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 536232007450 GTPase RsgA; Reviewed; Region: PRK00098 536232007451 RNA binding site [nucleotide binding]; other site 536232007452 homodimer interface [polypeptide binding]; other site 536232007453 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 536232007454 GTPase/Zn-binding domain interface [polypeptide binding]; other site 536232007455 GTP/Mg2+ binding site [chemical binding]; other site 536232007456 G4 box; other site 536232007457 G5 box; other site 536232007458 G1 box; other site 536232007459 Switch I region; other site 536232007460 G2 box; other site 536232007461 G3 box; other site 536232007462 Switch II region; other site 536232007463 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 536232007464 Catalytic domain of Protein Kinases; Region: PKc; cd00180 536232007465 active site 536232007466 ATP binding site [chemical binding]; other site 536232007467 substrate binding site [chemical binding]; other site 536232007468 activation loop (A-loop); other site 536232007469 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 536232007470 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 536232007471 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 536232007472 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 536232007473 active site 536232007474 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 536232007475 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 536232007476 FeS/SAM binding site; other site 536232007477 16S rRNA methyltransferase B; Provisional; Region: PRK14902 536232007478 NusB family; Region: NusB; pfam01029 536232007479 putative RNA binding site [nucleotide binding]; other site 536232007480 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 536232007481 S-adenosylmethionine binding site [chemical binding]; other site 536232007482 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 536232007483 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 536232007484 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 536232007485 putative active site [active] 536232007486 substrate binding site [chemical binding]; other site 536232007487 putative cosubstrate binding site; other site 536232007488 catalytic site [active] 536232007489 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 536232007490 substrate binding site [chemical binding]; other site 536232007491 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 536232007492 active site 536232007493 catalytic residues [active] 536232007494 metal binding site [ion binding]; metal-binding site 536232007495 primosome assembly protein PriA; Validated; Region: PRK05580 536232007496 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 536232007497 ATP binding site [chemical binding]; other site 536232007498 putative Mg++ binding site [ion binding]; other site 536232007499 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 536232007500 nucleotide binding region [chemical binding]; other site 536232007501 ATP-binding site [chemical binding]; other site 536232007502 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 536232007503 Flavoprotein; Region: Flavoprotein; pfam02441 536232007504 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 536232007505 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 536232007506 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 536232007507 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 536232007508 catalytic site [active] 536232007509 G-X2-G-X-G-K; other site 536232007510 hypothetical protein; Provisional; Region: PRK04323 536232007511 hypothetical protein; Provisional; Region: PRK11820 536232007512 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 536232007513 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 536232007514 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 536232007515 active site 536232007516 homotetramer interface [polypeptide binding]; other site 536232007517 homodimer interface [polypeptide binding]; other site 536232007518 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 536232007519 sequence-specific DNA binding site [nucleotide binding]; other site 536232007520 salt bridge; other site 536232007521 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 536232007522 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 536232007523 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 536232007524 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 536232007525 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 536232007526 GTP-binding protein Der; Reviewed; Region: PRK00093 536232007527 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 536232007528 G1 box; other site 536232007529 GTP/Mg2+ binding site [chemical binding]; other site 536232007530 Switch I region; other site 536232007531 G2 box; other site 536232007532 Switch II region; other site 536232007533 G3 box; other site 536232007534 G4 box; other site 536232007535 G5 box; other site 536232007536 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 536232007537 G1 box; other site 536232007538 GTP/Mg2+ binding site [chemical binding]; other site 536232007539 Switch I region; other site 536232007540 G2 box; other site 536232007541 G3 box; other site 536232007542 Switch II region; other site 536232007543 G4 box; other site 536232007544 G5 box; other site 536232007545 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 536232007546 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 536232007547 Protein of unknown function (DUF512); Region: DUF512; pfam04459 536232007548 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 536232007549 PhoU domain; Region: PhoU; pfam01895 536232007550 PhoU domain; Region: PhoU; pfam01895 536232007551 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 536232007552 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 536232007553 Walker A/P-loop; other site 536232007554 ATP binding site [chemical binding]; other site 536232007555 Q-loop/lid; other site 536232007556 ABC transporter signature motif; other site 536232007557 Walker B; other site 536232007558 D-loop; other site 536232007559 H-loop/switch region; other site 536232007560 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 536232007561 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232007562 dimer interface [polypeptide binding]; other site 536232007563 conserved gate region; other site 536232007564 putative PBP binding loops; other site 536232007565 ABC-ATPase subunit interface; other site 536232007566 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 536232007567 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232007568 dimer interface [polypeptide binding]; other site 536232007569 conserved gate region; other site 536232007570 putative PBP binding loops; other site 536232007571 ABC-ATPase subunit interface; other site 536232007572 PBP superfamily domain; Region: PBP_like_2; cl17296 536232007573 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 536232007574 dimerization interface [polypeptide binding]; other site 536232007575 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 536232007576 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 536232007577 putative active site [active] 536232007578 heme pocket [chemical binding]; other site 536232007579 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 536232007580 dimer interface [polypeptide binding]; other site 536232007581 phosphorylation site [posttranslational modification] 536232007582 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 536232007583 ATP binding site [chemical binding]; other site 536232007584 Mg2+ binding site [ion binding]; other site 536232007585 G-X-G motif; other site 536232007586 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232007587 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 536232007588 active site 536232007589 phosphorylation site [posttranslational modification] 536232007590 intermolecular recognition site; other site 536232007591 dimerization interface [polypeptide binding]; other site 536232007592 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 536232007593 DNA binding site [nucleotide binding] 536232007594 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 536232007595 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 536232007596 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 536232007597 ATP cone domain; Region: ATP-cone; pfam03477 536232007598 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 536232007599 sporulation sigma factor SigG; Reviewed; Region: PRK08215 536232007600 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232007601 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536232007602 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 536232007603 DNA binding residues [nucleotide binding] 536232007604 sporulation sigma factor SigE; Reviewed; Region: PRK08301 536232007605 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232007606 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 536232007607 DNA binding residues [nucleotide binding] 536232007608 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 536232007609 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 536232007610 cell division protein FtsZ; Validated; Region: PRK09330 536232007611 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 536232007612 nucleotide binding site [chemical binding]; other site 536232007613 SulA interaction site; other site 536232007614 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 536232007615 Cell division protein FtsA; Region: FtsA; smart00842 536232007616 Cell division protein FtsA; Region: FtsA; pfam14450 536232007617 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 536232007618 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 536232007619 DXD motif; other site 536232007620 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 536232007621 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 536232007622 Walker A motif; other site 536232007623 ATP binding site [chemical binding]; other site 536232007624 Walker B motif; other site 536232007625 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 536232007626 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 536232007627 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 536232007628 shikimate binding site; other site 536232007629 NAD(P) binding site [chemical binding]; other site 536232007630 sporulation sigma factor SigK; Reviewed; Region: PRK05803 536232007631 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232007632 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 536232007633 DNA binding residues [nucleotide binding] 536232007634 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 536232007635 conserved domain; Region: TIGR02271 536232007636 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 536232007637 RecT family; Region: RecT; pfam03837 536232007638 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 536232007639 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 536232007640 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 536232007641 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 536232007642 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 536232007643 Sugar specificity; other site 536232007644 Pyrimidine base specificity; other site 536232007645 ATP-binding site [chemical binding]; other site 536232007646 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 536232007647 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 536232007648 Peptidase family U32; Region: Peptidase_U32; pfam01136 536232007649 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 536232007650 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 536232007651 S-adenosylmethionine binding site [chemical binding]; other site 536232007652 YceG-like family; Region: YceG; pfam02618 536232007653 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 536232007654 dimerization interface [polypeptide binding]; other site 536232007655 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 536232007656 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 536232007657 G1 box; other site 536232007658 putative GEF interaction site [polypeptide binding]; other site 536232007659 GTP/Mg2+ binding site [chemical binding]; other site 536232007660 Switch I region; other site 536232007661 G2 box; other site 536232007662 G3 box; other site 536232007663 Switch II region; other site 536232007664 G4 box; other site 536232007665 G5 box; other site 536232007666 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 536232007667 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 536232007668 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 536232007669 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232007670 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 536232007671 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536232007672 metal binding site 2 [ion binding]; metal-binding site 536232007673 putative DNA binding helix; other site 536232007674 metal binding site 1 [ion binding]; metal-binding site 536232007675 dimer interface [polypeptide binding]; other site 536232007676 structural Zn2+ binding site [ion binding]; other site 536232007677 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 536232007678 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 536232007679 hypothetical protein; Provisional; Region: PRK05473 536232007680 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 536232007681 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 536232007682 motif 1; other site 536232007683 active site 536232007684 motif 2; other site 536232007685 motif 3; other site 536232007686 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 536232007687 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 536232007688 Domain of unknown function DUF20; Region: UPF0118; pfam01594 536232007689 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 536232007690 PRC-barrel domain; Region: PRC; pfam05239 536232007691 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 536232007692 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 536232007693 trimerization site [polypeptide binding]; other site 536232007694 active site 536232007695 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 536232007696 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 536232007697 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232007698 catalytic residue [active] 536232007699 Transcriptional regulator; Region: Rrf2; cl17282 536232007700 Rrf2 family protein; Region: rrf2_super; TIGR00738 536232007701 recombination factor protein RarA; Reviewed; Region: PRK13342 536232007702 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 536232007703 Walker A motif; other site 536232007704 ATP binding site [chemical binding]; other site 536232007705 Walker B motif; other site 536232007706 arginine finger; other site 536232007707 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 536232007708 histidinol-phosphatase; Provisional; Region: PRK05588 536232007709 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 536232007710 active site 536232007711 Predicted permeases [General function prediction only]; Region: COG0679 536232007712 EDD domain protein, DegV family; Region: DegV; TIGR00762 536232007713 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 536232007714 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 536232007715 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 536232007716 CPxP motif; other site 536232007717 DsrE/DsrF-like family; Region: DrsE; pfam02635 536232007718 ornithine cyclodeaminase; Validated; Region: PRK08618 536232007719 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 536232007720 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536232007721 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 536232007722 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536232007723 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 536232007724 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 536232007725 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 536232007726 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 536232007727 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 536232007728 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 536232007729 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 536232007730 dimerization interface [polypeptide binding]; other site 536232007731 ATP binding site [chemical binding]; other site 536232007732 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 536232007733 dimerization interface [polypeptide binding]; other site 536232007734 ATP binding site [chemical binding]; other site 536232007735 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 536232007736 putative active site [active] 536232007737 catalytic triad [active] 536232007738 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 536232007739 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 536232007740 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 536232007741 phosphoenolpyruvate synthase; Validated; Region: PRK06241 536232007742 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536232007743 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536232007744 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 536232007745 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536232007746 active site 536232007747 AMP binding site [chemical binding]; other site 536232007748 acyl-activating enzyme (AAE) consensus motif; other site 536232007749 CoA binding site [chemical binding]; other site 536232007750 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 536232007751 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 536232007752 dimer interface [polypeptide binding]; other site 536232007753 active site 536232007754 CoA binding pocket [chemical binding]; other site 536232007755 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 536232007756 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536232007757 AMP-binding enzyme; Region: AMP-binding; pfam00501 536232007758 acyl-activating enzyme (AAE) consensus motif; other site 536232007759 AMP binding site [chemical binding]; other site 536232007760 active site 536232007761 CoA binding site [chemical binding]; other site 536232007762 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536232007763 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536232007764 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232007765 Coenzyme A binding pocket [chemical binding]; other site 536232007766 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 536232007767 Ligand Binding Site [chemical binding]; other site 536232007768 hypothetical protein; Validated; Region: PRK07080 536232007769 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 536232007770 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 536232007771 ornithine carbamoyltransferase; Provisional; Region: PRK04284 536232007772 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536232007773 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536232007774 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 536232007775 carbamate kinase; Reviewed; Region: PRK12686 536232007776 putative substrate binding site [chemical binding]; other site 536232007777 nucleotide binding site [chemical binding]; other site 536232007778 nucleotide binding site [chemical binding]; other site 536232007779 homodimer interface [polypeptide binding]; other site 536232007780 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 536232007781 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 536232007782 dimer interface [polypeptide binding]; other site 536232007783 active site 536232007784 glycine-pyridoxal phosphate binding site [chemical binding]; other site 536232007785 folate binding site [chemical binding]; other site 536232007786 Uncharacterized conserved protein [Function unknown]; Region: COG2966 536232007787 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 536232007788 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 536232007789 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 536232007790 putative homodimer interface [polypeptide binding]; other site 536232007791 putative homotetramer interface [polypeptide binding]; other site 536232007792 putative allosteric switch controlling residues; other site 536232007793 putative metal binding site [ion binding]; other site 536232007794 putative homodimer-homodimer interface [polypeptide binding]; other site 536232007795 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 536232007796 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 536232007797 active site 536232007798 motif I; other site 536232007799 motif II; other site 536232007800 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 536232007801 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 536232007802 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536232007803 active site 536232007804 nucleotide binding site [chemical binding]; other site 536232007805 HIGH motif; other site 536232007806 KMSKS motif; other site 536232007807 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 536232007808 NAD(P) binding site [chemical binding]; other site 536232007809 LDH/MDH dimer interface [polypeptide binding]; other site 536232007810 substrate binding site [chemical binding]; other site 536232007811 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536232007812 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232007813 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 536232007814 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 536232007815 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 536232007816 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 536232007817 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232007818 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 536232007819 active site 536232007820 metal binding site [ion binding]; metal-binding site 536232007821 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232007822 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 536232007823 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 536232007824 Phage tail protein; Region: Sipho_tail; cl17486 536232007825 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 536232007826 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 536232007827 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 536232007828 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 536232007829 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 536232007830 oligomerization interface [polypeptide binding]; other site 536232007831 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; cl03075 536232007832 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 536232007833 GSCFA family; Region: GSCFA; pfam08885 536232007834 Phage capsid family; Region: Phage_capsid; pfam05065 536232007835 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 536232007836 oligomer interface [polypeptide binding]; other site 536232007837 active site residues [active] 536232007838 Phage portal protein; Region: Phage_portal; pfam04860 536232007839 Phage-related protein [Function unknown]; Region: COG4695 536232007840 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 536232007841 Phage terminase, small subunit; Region: Terminase_4; pfam05119 536232007842 Predicted ATPase [General function prediction only]; Region: COG5293 536232007843 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 536232007844 SprT-like family; Region: SprT-like; pfam10263 536232007845 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232007846 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 536232007847 sequence-specific DNA binding site [nucleotide binding]; other site 536232007848 salt bridge; other site 536232007849 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 536232007850 Restriction endonuclease; Region: Mrr_cat; pfam04471 536232007851 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536232007852 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 536232007853 active site 536232007854 metal binding site [ion binding]; metal-binding site 536232007855 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 536232007856 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 536232007857 active site 536232007858 catalytic residues [active] 536232007859 DNA binding site [nucleotide binding] 536232007860 Int/Topo IB signature motif; other site 536232007861 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 536232007862 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 536232007863 oligomer interface [polypeptide binding]; other site 536232007864 putative active site [active] 536232007865 metal binding site [ion binding]; metal-binding site 536232007866 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 536232007867 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 536232007868 oligomer interface [polypeptide binding]; other site 536232007869 metal binding site [ion binding]; metal-binding site 536232007870 metal binding site [ion binding]; metal-binding site 536232007871 putative Cl binding site [ion binding]; other site 536232007872 aspartate ring; other site 536232007873 basic sphincter; other site 536232007874 hydrophobic gate; other site 536232007875 periplasmic entrance; other site 536232007876 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 536232007877 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 536232007878 HPr kinase/phosphorylase; Provisional; Region: PRK05428 536232007879 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 536232007880 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 536232007881 Hpr binding site; other site 536232007882 active site 536232007883 homohexamer subunit interaction site [polypeptide binding]; other site 536232007884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 536232007885 Uncharacterized conserved protein [Function unknown]; Region: COG0398 536232007886 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 536232007887 Uncharacterized conserved protein [Function unknown]; Region: COG0398 536232007888 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 536232007889 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 536232007890 Cysteine-rich domain; Region: CCG; pfam02754 536232007891 Cysteine-rich domain; Region: CCG; pfam02754 536232007892 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 536232007893 Phosphotransferase enzyme family; Region: APH; pfam01636 536232007894 active site 536232007895 ATP binding site [chemical binding]; other site 536232007896 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 536232007897 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 536232007898 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 536232007899 Probable Catalytic site; other site 536232007900 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 536232007901 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 536232007902 active site residue [active] 536232007903 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 536232007904 active site residue [active] 536232007905 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 536232007906 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 536232007907 putative active site [active] 536232007908 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 536232007909 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 536232007910 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232007911 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 536232007912 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 536232007913 active site 536232007914 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 536232007915 active site 536232007916 catalytic residues [active] 536232007917 metal binding site [ion binding]; metal-binding site 536232007918 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 536232007919 V-type ATP synthase subunit B; Provisional; Region: PRK04196 536232007920 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536232007921 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 536232007922 Walker A motif homologous position; other site 536232007923 Walker B motif; other site 536232007924 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536232007925 V-type ATP synthase subunit A; Provisional; Region: PRK04192 536232007926 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536232007927 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 536232007928 Walker A motif/ATP binding site; other site 536232007929 Walker B motif; other site 536232007930 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536232007931 V-type ATP synthase subunit F; Provisional; Region: PRK01395 536232007932 V-type ATP synthase subunit C; Provisional; Region: PRK01198 536232007933 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 536232007934 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 536232007935 V-type ATP synthase subunit K; Validated; Region: PRK06558 536232007936 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 536232007937 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 536232007938 V-type ATP synthase subunit I; Validated; Region: PRK05771 536232007939 V-type ATP synthase subunit H; Validated; Region: PRK08404 536232007940 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 536232007941 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 536232007942 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 536232007943 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; cl12011 536232007944 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 536232007945 Zn binding site [ion binding]; other site 536232007946 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 536232007947 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 536232007948 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 536232007949 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536232007950 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 536232007951 Soluble P-type ATPase [General function prediction only]; Region: COG4087 536232007952 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 536232007953 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 536232007954 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 536232007955 DRTGG domain; Region: DRTGG; pfam07085 536232007956 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 536232007957 DHH family; Region: DHH; pfam01368 536232007958 DHHA2 domain; Region: DHHA2; pfam02833 536232007959 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 536232007960 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536232007961 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536232007962 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 536232007963 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536232007964 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536232007965 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 536232007966 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232007967 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536232007968 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 536232007969 DNA binding residues [nucleotide binding] 536232007970 Flagellar protein YcgR; Region: YcgR_2; pfam12945 536232007971 PilZ domain; Region: PilZ; pfam07238 536232007972 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 536232007973 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 536232007974 P-loop; other site 536232007975 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 536232007976 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 536232007977 GTP/Mg2+ binding site [chemical binding]; other site 536232007978 G5 box; other site 536232007979 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232007980 G1 box; other site 536232007981 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 536232007982 FHIPEP family; Region: FHIPEP; pfam00771 536232007983 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 536232007984 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 536232007985 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 536232007986 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 536232007987 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 536232007988 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 536232007989 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 536232007990 flagellar motor protein MotS; Reviewed; Region: PRK06925 536232007991 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 536232007992 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536232007993 ligand binding site [chemical binding]; other site 536232007994 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 536232007995 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 536232007996 Flagellar protein (FlbD); Region: FlbD; pfam06289 536232007997 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 536232007998 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536232007999 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536232008000 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 536232008001 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 536232008002 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 536232008003 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 536232008004 Flagellar FliJ protein; Region: FliJ; pfam02050 536232008005 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 536232008006 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536232008007 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 536232008008 Walker A motif/ATP binding site; other site 536232008009 Walker B motif; other site 536232008010 Flagellar assembly protein FliH; Region: FliH; pfam02108 536232008011 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 536232008012 FliG C-terminal domain; Region: FliG_C; pfam01706 536232008013 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 536232008014 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 536232008015 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 536232008016 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 536232008017 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 536232008018 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536232008019 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536232008020 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 536232008021 flagellin; Provisional; Region: PRK12804 536232008022 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536232008023 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 536232008024 argininosuccinate lyase; Provisional; Region: PRK00855 536232008025 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536232008026 active sites [active] 536232008027 tetramer interface [polypeptide binding]; other site 536232008028 argininosuccinate synthase; Provisional; Region: PRK13820 536232008029 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 536232008030 ANP binding site [chemical binding]; other site 536232008031 Substrate Binding Site II [chemical binding]; other site 536232008032 Substrate Binding Site I [chemical binding]; other site 536232008033 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 536232008034 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 536232008035 putative active site [active] 536232008036 catalytic site [active] 536232008037 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 536232008038 putative active site [active] 536232008039 catalytic site [active] 536232008040 Predicted membrane protein [Function unknown]; Region: COG4129 536232008041 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 536232008042 Predicted integral membrane protein [Function unknown]; Region: COG5652 536232008043 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 536232008044 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536232008045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536232008046 NAD(P) binding site [chemical binding]; other site 536232008047 active site 536232008048 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 536232008049 NeuB family; Region: NeuB; pfam03102 536232008050 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 536232008051 NeuB binding interface [polypeptide binding]; other site 536232008052 putative substrate binding site [chemical binding]; other site 536232008053 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 536232008054 ligand binding site; other site 536232008055 tetramer interface; other site 536232008056 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 536232008057 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 536232008058 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 536232008059 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 536232008060 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 536232008061 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536232008062 UDP-galactopyranose mutase; Region: GLF; pfam03275 536232008063 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 536232008064 Bacterial sugar transferase; Region: Bac_transf; pfam02397 536232008065 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 536232008066 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536232008067 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 536232008068 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 536232008069 Chain length determinant protein; Region: Wzz; cl15801 536232008070 Transcriptional regulator [Transcription]; Region: LytR; COG1316 536232008071 Putative motility protein; Region: YjfB_motility; pfam14070 536232008072 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232008073 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232008074 dimer interface [polypeptide binding]; other site 536232008075 putative CheW interface [polypeptide binding]; other site 536232008076 flagellin; Provisional; Region: PRK12804 536232008077 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536232008078 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 536232008079 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 536232008080 binding surface 536232008081 TPR motif; other site 536232008082 Tetratricopeptide repeat; Region: TPR_16; pfam13432 536232008083 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 536232008084 catalytic triad [active] 536232008085 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 536232008086 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 536232008087 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 536232008088 active site 536232008089 catalytic triad [active] 536232008090 oxyanion hole [active] 536232008091 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 536232008092 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 536232008093 active site 536232008094 TPR repeat; Region: TPR_11; pfam13414 536232008095 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 536232008096 binding surface 536232008097 TPR motif; other site 536232008098 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 536232008099 S-adenosylmethionine binding site [chemical binding]; other site 536232008100 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 536232008101 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536232008102 acidic ribosomal protein P0; Validated; Region: rplP0; PRK04019 536232008103 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 536232008104 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536232008105 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536232008106 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 536232008107 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 536232008108 putative active site [active] 536232008109 putative catalytic site [active] 536232008110 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 536232008111 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536232008112 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 536232008113 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 536232008114 Radical SAM superfamily; Region: Radical_SAM; pfam04055 536232008115 FeS/SAM binding site; other site 536232008116 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 536232008117 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 536232008118 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 536232008119 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 536232008120 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 536232008121 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 536232008122 inhibitor-cofactor binding pocket; inhibition site 536232008123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232008124 catalytic residue [active] 536232008125 WbqC-like protein family; Region: WbqC; pfam08889 536232008126 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 536232008127 FeS/SAM binding site; other site 536232008128 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 536232008129 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 536232008130 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 536232008131 substrate binding site; other site 536232008132 tetramer interface; other site 536232008133 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 536232008134 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 536232008135 NAD binding site [chemical binding]; other site 536232008136 substrate binding site [chemical binding]; other site 536232008137 homodimer interface [polypeptide binding]; other site 536232008138 active site 536232008139 pseudaminic acid synthase; Region: PseI; TIGR03586 536232008140 NeuB family; Region: NeuB; pfam03102 536232008141 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 536232008142 NeuB binding interface [polypeptide binding]; other site 536232008143 putative substrate binding site [chemical binding]; other site 536232008144 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 536232008145 ligand binding site; other site 536232008146 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 536232008147 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 536232008148 motif II; other site 536232008149 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 536232008150 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 536232008151 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536232008152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536232008153 NAD(P) binding site [chemical binding]; other site 536232008154 active site 536232008155 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 536232008156 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 536232008157 NAD(P) binding site [chemical binding]; other site 536232008158 homodimer interface [polypeptide binding]; other site 536232008159 substrate binding site [chemical binding]; other site 536232008160 active site 536232008161 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 536232008162 putative metal binding site; other site 536232008163 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 536232008164 TPR motif; other site 536232008165 binding surface 536232008166 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 536232008167 TPR motif; other site 536232008168 binding surface 536232008169 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 536232008170 binding surface 536232008171 TPR motif; other site 536232008172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 536232008173 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 536232008174 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 536232008175 putative metal binding site; other site 536232008176 TPR repeat; Region: TPR_11; pfam13414 536232008177 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 536232008178 binding surface 536232008179 TPR motif; other site 536232008180 Tetratricopeptide repeat; Region: TPR_16; pfam13432 536232008181 flagellin; Provisional; Region: PRK12804 536232008182 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536232008183 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 536232008184 flagellin; Provisional; Region: PRK12804 536232008185 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536232008186 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 536232008187 Flagellar protein FliT; Region: FliT; pfam05400 536232008188 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 536232008189 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 536232008190 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 536232008191 FlaG protein; Region: FlaG; pfam03646 536232008192 carbon storage regulator; Provisional; Region: PRK01712 536232008193 flagellar assembly protein FliW; Provisional; Region: PRK13285 536232008194 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 536232008195 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536232008196 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 536232008197 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 536232008198 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536232008199 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536232008200 FlgN protein; Region: FlgN; pfam05130 536232008201 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 536232008202 flagellar motor switch protein; Validated; Region: PRK08119 536232008203 CheC-like family; Region: CheC; pfam04509 536232008204 CheC-like family; Region: CheC; pfam04509 536232008205 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 536232008206 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 536232008207 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 536232008208 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 536232008209 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 536232008210 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 536232008211 active site 536232008212 phosphorylation site [posttranslational modification] 536232008213 intermolecular recognition site; other site 536232008214 dimerization interface [polypeptide binding]; other site 536232008215 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 536232008216 CheC-like family; Region: CheC; pfam04509 536232008217 CheC-like family; Region: CheC; pfam04509 536232008218 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 536232008219 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 536232008220 putative binding surface; other site 536232008221 active site 536232008222 P2 response regulator binding domain; Region: P2; pfam07194 536232008223 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 536232008224 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 536232008225 ATP binding site [chemical binding]; other site 536232008226 Mg2+ binding site [ion binding]; other site 536232008227 G-X-G motif; other site 536232008228 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 536232008229 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 536232008230 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 536232008231 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 536232008232 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 536232008233 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 536232008234 active site 536232008235 phosphorylation site [posttranslational modification] 536232008236 intermolecular recognition site; other site 536232008237 dimerization interface [polypeptide binding]; other site 536232008238 CheB methylesterase; Region: CheB_methylest; pfam01339 536232008239 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13490 536232008240 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 536232008241 Protein of unknown function (DUF342); Region: DUF342; pfam03961 536232008242 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232008243 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 536232008244 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 536232008245 active site turn [active] 536232008246 phosphorylation site [posttranslational modification] 536232008247 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 536232008248 HPr interaction site; other site 536232008249 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536232008250 active site 536232008251 phosphorylation site [posttranslational modification] 536232008252 transcriptional antiterminator BglG; Provisional; Region: PRK09772 536232008253 CAT RNA binding domain; Region: CAT_RBD; smart01061 536232008254 PRD domain; Region: PRD; pfam00874 536232008255 PRD domain; Region: PRD; pfam00874 536232008256 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 536232008257 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 536232008258 homodimer interface [polypeptide binding]; other site 536232008259 substrate-cofactor binding pocket; other site 536232008260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232008261 catalytic residue [active] 536232008262 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 536232008263 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 536232008264 motif II; other site 536232008265 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 536232008266 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 536232008267 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 536232008268 dimer interface [polypeptide binding]; other site 536232008269 PYR/PP interface [polypeptide binding]; other site 536232008270 TPP binding site [chemical binding]; other site 536232008271 substrate binding site [chemical binding]; other site 536232008272 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 536232008273 Domain of unknown function; Region: EKR; smart00890 536232008274 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 536232008275 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 536232008276 TPP-binding site [chemical binding]; other site 536232008277 dimer interface [polypeptide binding]; other site 536232008278 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 536232008279 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 536232008280 active site 536232008281 homodimer interface [polypeptide binding]; other site 536232008282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232008283 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 536232008284 dimer interface [polypeptide binding]; other site 536232008285 phosphorylation site [posttranslational modification] 536232008286 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 536232008287 ATP binding site [chemical binding]; other site 536232008288 Mg2+ binding site [ion binding]; other site 536232008289 G-X-G motif; other site 536232008290 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 536232008291 DHH family; Region: DHH; pfam01368 536232008292 DHHA1 domain; Region: DHHA1; pfam02272 536232008293 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 536232008294 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 536232008295 AP (apurinic/apyrimidinic) site pocket; other site 536232008296 DNA interaction; other site 536232008297 Metal-binding active site; metal-binding site 536232008298 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 536232008299 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536232008300 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 536232008301 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 536232008302 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 536232008303 DJ-1 family protein; Region: not_thiJ; TIGR01383 536232008304 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 536232008305 conserved cys residue [active] 536232008306 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 536232008307 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 536232008308 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 536232008309 CAP-like domain; other site 536232008310 active site 536232008311 primary dimer interface [polypeptide binding]; other site 536232008312 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536232008313 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 536232008314 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 536232008315 ATP binding site [chemical binding]; other site 536232008316 Mg2+ binding site [ion binding]; other site 536232008317 G-X-G motif; other site 536232008318 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 536232008319 anchoring element; other site 536232008320 dimer interface [polypeptide binding]; other site 536232008321 ATP binding site [chemical binding]; other site 536232008322 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 536232008323 active site 536232008324 metal binding site [ion binding]; metal-binding site 536232008325 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 536232008326 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 536232008327 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 536232008328 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 536232008329 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 536232008330 NodB motif; other site 536232008331 active site 536232008332 catalytic site [active] 536232008333 Zn binding site [ion binding]; other site 536232008334 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 536232008335 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 536232008336 NAD binding site [chemical binding]; other site 536232008337 homodimer interface [polypeptide binding]; other site 536232008338 active site 536232008339 substrate binding site [chemical binding]; other site 536232008340 flavodoxin; Provisional; Region: PRK05568 536232008341 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 536232008342 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 536232008343 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 536232008344 Cupin domain; Region: Cupin_2; cl17218 536232008345 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536232008346 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232008347 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 536232008348 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 536232008349 putative dimer interface [polypeptide binding]; other site 536232008350 catalytic triad [active] 536232008351 glycerol kinase; Provisional; Region: glpK; PRK00047 536232008352 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 536232008353 N- and C-terminal domain interface [polypeptide binding]; other site 536232008354 active site 536232008355 MgATP binding site [chemical binding]; other site 536232008356 catalytic site [active] 536232008357 metal binding site [ion binding]; metal-binding site 536232008358 glycerol binding site [chemical binding]; other site 536232008359 homotetramer interface [polypeptide binding]; other site 536232008360 homodimer interface [polypeptide binding]; other site 536232008361 FBP binding site [chemical binding]; other site 536232008362 protein IIAGlc interface [polypeptide binding]; other site 536232008363 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 536232008364 amphipathic channel; other site 536232008365 Asn-Pro-Ala signature motifs; other site 536232008366 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 536232008367 VanZ like family; Region: VanZ; pfam04892 536232008368 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232008369 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536232008370 Walker A/P-loop; other site 536232008371 ATP binding site [chemical binding]; other site 536232008372 Q-loop/lid; other site 536232008373 ABC transporter signature motif; other site 536232008374 Walker B; other site 536232008375 D-loop; other site 536232008376 H-loop/switch region; other site 536232008377 Predicted transcriptional regulators [Transcription]; Region: COG1725 536232008378 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232008379 DNA-binding site [nucleotide binding]; DNA binding site 536232008380 hybrid cluster protein; Provisional; Region: PRK05290 536232008381 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 536232008382 ACS interaction site; other site 536232008383 CODH interaction site; other site 536232008384 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 536232008385 hybrid metal cluster; other site 536232008386 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 536232008387 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 536232008388 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 536232008389 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 536232008390 Spore germination protein; Region: Spore_permease; pfam03845 536232008391 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 536232008392 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 536232008393 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 536232008394 NodB motif; other site 536232008395 active site 536232008396 catalytic site [active] 536232008397 Zn binding site [ion binding]; other site 536232008398 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 536232008399 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 536232008400 ATP binding site [chemical binding]; other site 536232008401 Mg++ binding site [ion binding]; other site 536232008402 motif III; other site 536232008403 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 536232008404 nucleotide binding region [chemical binding]; other site 536232008405 ATP-binding site [chemical binding]; other site 536232008406 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 536232008407 RNA binding site [nucleotide binding]; other site 536232008408 Probable zinc-binding domain; Region: zf-trcl; pfam13451 536232008409 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232008410 dimer interface [polypeptide binding]; other site 536232008411 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 536232008412 putative CheW interface [polypeptide binding]; other site 536232008413 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 536232008414 Ligand Binding Site [chemical binding]; other site 536232008415 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 536232008416 4Fe-4S binding domain; Region: Fer4_5; pfam12801 536232008417 glutaminase; Provisional; Region: PRK00971 536232008418 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 536232008419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 536232008420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 536232008421 Cache domain; Region: Cache_1; pfam02743 536232008422 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 536232008423 dimerization interface [polypeptide binding]; other site 536232008424 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232008425 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232008426 dimer interface [polypeptide binding]; other site 536232008427 putative CheW interface [polypeptide binding]; other site 536232008428 TraX protein; Region: TraX; cl05434 536232008429 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 536232008430 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 536232008431 dimer interface [polypeptide binding]; other site 536232008432 putative radical transfer pathway; other site 536232008433 diiron center [ion binding]; other site 536232008434 tyrosyl radical; other site 536232008435 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 536232008436 ATP cone domain; Region: ATP-cone; pfam03477 536232008437 Class I ribonucleotide reductase; Region: RNR_I; cd01679 536232008438 active site 536232008439 dimer interface [polypeptide binding]; other site 536232008440 catalytic residues [active] 536232008441 effector binding site; other site 536232008442 R2 peptide binding site; other site 536232008443 Putative amidase domain; Region: Amidase_6; pfam12671 536232008444 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 536232008445 DNA polymerase IV; Provisional; Region: PRK14133 536232008446 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 536232008447 active site 536232008448 DNA binding site [nucleotide binding] 536232008449 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 536232008450 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 536232008451 homodimer interface [polypeptide binding]; other site 536232008452 active site 536232008453 FMN binding site [chemical binding]; other site 536232008454 substrate binding site [chemical binding]; other site 536232008455 4Fe-4S binding domain; Region: Fer4; pfam00037 536232008456 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 536232008457 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536232008458 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 536232008459 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232008460 active site 536232008461 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 536232008462 putative active site [active] 536232008463 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232008464 MarR family; Region: MarR_2; pfam12802 536232008465 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 536232008466 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 536232008467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232008468 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 536232008469 Walker A/P-loop; other site 536232008470 ATP binding site [chemical binding]; other site 536232008471 Q-loop/lid; other site 536232008472 ABC transporter signature motif; other site 536232008473 Walker B; other site 536232008474 D-loop; other site 536232008475 H-loop/switch region; other site 536232008476 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 536232008477 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 536232008478 Carbohydrate binding domain; Region: CBM_25; smart01066 536232008479 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 536232008480 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 536232008481 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 536232008482 dimerization interface [polypeptide binding]; other site 536232008483 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232008484 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232008485 dimer interface [polypeptide binding]; other site 536232008486 putative CheW interface [polypeptide binding]; other site 536232008487 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 536232008488 nudix motif; other site 536232008489 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536232008490 metal binding site 2 [ion binding]; metal-binding site 536232008491 putative DNA binding helix; other site 536232008492 metal binding site 1 [ion binding]; metal-binding site 536232008493 dimer interface [polypeptide binding]; other site 536232008494 structural Zn2+ binding site [ion binding]; other site 536232008495 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 536232008496 Glyco_18 domain; Region: Glyco_18; smart00636 536232008497 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 536232008498 active site 536232008499 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 536232008500 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 536232008501 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 536232008502 active site 536232008503 trimer interface [polypeptide binding]; other site 536232008504 allosteric site; other site 536232008505 active site lid [active] 536232008506 hexamer (dimer of trimers) interface [polypeptide binding]; other site 536232008507 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 536232008508 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 536232008509 active site 536232008510 dimer interface [polypeptide binding]; other site 536232008511 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 536232008512 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232008513 DNA-binding site [nucleotide binding]; DNA binding site 536232008514 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 536232008515 CAT RNA binding domain; Region: CAT_RBD; smart01061 536232008516 transcriptional antiterminator BglG; Provisional; Region: PRK09772 536232008517 PRD domain; Region: PRD; pfam00874 536232008518 PRD domain; Region: PRD; pfam00874 536232008519 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 536232008520 HPr interaction site; other site 536232008521 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536232008522 active site 536232008523 phosphorylation site [posttranslational modification] 536232008524 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536232008525 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 536232008526 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 536232008527 active site turn [active] 536232008528 phosphorylation site [posttranslational modification] 536232008529 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 536232008530 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 536232008531 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 536232008532 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 536232008533 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 536232008534 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232008535 Walker A/P-loop; other site 536232008536 ATP binding site [chemical binding]; other site 536232008537 Q-loop/lid; other site 536232008538 ABC transporter signature motif; other site 536232008539 Walker B; other site 536232008540 D-loop; other site 536232008541 H-loop/switch region; other site 536232008542 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536232008543 metal binding site 2 [ion binding]; metal-binding site 536232008544 putative DNA binding helix; other site 536232008545 metal binding site 1 [ion binding]; metal-binding site 536232008546 dimer interface [polypeptide binding]; other site 536232008547 structural Zn2+ binding site [ion binding]; other site 536232008548 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 536232008549 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 536232008550 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 536232008551 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232008552 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 536232008553 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536232008554 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 536232008555 FAD binding site [chemical binding]; other site 536232008556 homotetramer interface [polypeptide binding]; other site 536232008557 substrate binding pocket [chemical binding]; other site 536232008558 catalytic base [active] 536232008559 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 536232008560 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536232008561 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 536232008562 Rubredoxin; Region: Rubredoxin; pfam00301 536232008563 iron binding site [ion binding]; other site 536232008564 HTH-like domain; Region: HTH_21; pfam13276 536232008565 Integrase core domain; Region: rve; pfam00665 536232008566 Integrase core domain; Region: rve_2; pfam13333 536232008567 Helix-turn-helix domain; Region: HTH_28; pfam13518 536232008568 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536232008569 Transposase; Region: HTH_Tnp_1; cl17663 536232008570 Helix-turn-helix domain; Region: HTH_28; pfam13518 536232008571 Winged helix-turn helix; Region: HTH_29; pfam13551 536232008572 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 536232008573 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 536232008574 Domain of unknown function (DUF956); Region: DUF956; pfam06115 536232008575 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 536232008576 Coenzyme A transferase; Region: CoA_trans; cl17247 536232008577 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 536232008578 Ligand binding site; other site 536232008579 metal-binding site 536232008580 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 536232008581 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 536232008582 catalytic loop [active] 536232008583 iron binding site [ion binding]; other site 536232008584 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 536232008585 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 536232008586 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 536232008587 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 536232008588 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 536232008589 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 536232008590 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 536232008591 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 536232008592 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 536232008593 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 536232008594 motif II; other site 536232008595 TfoX C-terminal domain; Region: TfoX_C; pfam04994 536232008596 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 536232008597 amidase catalytic site [active] 536232008598 Zn binding residues [ion binding]; other site 536232008599 substrate binding site [chemical binding]; other site 536232008600 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 536232008601 chloramphenicol/florfenicol resistance protein; Provisional; Region: PRK14453 536232008602 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 536232008603 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232008604 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232008605 Beta-lactamase; Region: Beta-lactamase; pfam00144 536232008606 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 536232008607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232008608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232008609 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 536232008610 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 536232008611 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 536232008612 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 536232008613 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232008614 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536232008615 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232008616 Coenzyme A binding pocket [chemical binding]; other site 536232008617 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 536232008618 active site 536232008619 catalytic triad [active] 536232008620 peptide maturation system acyl carrier-related protein; Region: ocin_ACP_rel; TIGR04069 536232008621 peptide maturation system protein, TIGR04066 family; Region: nat_prod_clost 536232008622 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 536232008623 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 536232008624 FeS/SAM binding site; other site 536232008625 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 536232008626 putative bacteriocin precursor, CLI_3235 family; Region: ocin_CLI_3235; TIGR04065 536232008627 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232008628 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232008629 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232008630 Walker A/P-loop; other site 536232008631 ATP binding site [chemical binding]; other site 536232008632 Q-loop/lid; other site 536232008633 ABC transporter signature motif; other site 536232008634 Walker B; other site 536232008635 D-loop; other site 536232008636 H-loop/switch region; other site 536232008637 TRAM domain; Region: TRAM; cl01282 536232008638 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 536232008639 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 536232008640 S-adenosylmethionine binding site [chemical binding]; other site 536232008641 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 536232008642 Sulfatase; Region: Sulfatase; pfam00884 536232008643 hypothetical protein; Provisional; Region: PRK10621 536232008644 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 536232008645 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 536232008646 homopentamer interface [polypeptide binding]; other site 536232008647 active site 536232008648 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 536232008649 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 536232008650 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 536232008651 dimerization interface [polypeptide binding]; other site 536232008652 active site 536232008653 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 536232008654 Lumazine binding domain; Region: Lum_binding; pfam00677 536232008655 Lumazine binding domain; Region: Lum_binding; pfam00677 536232008656 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 536232008657 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 536232008658 catalytic motif [active] 536232008659 Zn binding site [ion binding]; other site 536232008660 RibD C-terminal domain; Region: RibD_C; cl17279 536232008661 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 536232008662 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 536232008663 metal binding site [ion binding]; metal-binding site 536232008664 dimer interface [polypeptide binding]; other site 536232008665 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232008666 magnesium-transporting ATPase; Provisional; Region: PRK15122 536232008667 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 536232008668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536232008669 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 536232008670 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 536232008671 motif II; other site 536232008672 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 536232008673 ykoK leader 536232008674 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 536232008675 active site 536232008676 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 536232008677 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 536232008678 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 536232008679 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 536232008680 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 536232008681 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 536232008682 purine monophosphate binding site [chemical binding]; other site 536232008683 dimer interface [polypeptide binding]; other site 536232008684 putative catalytic residues [active] 536232008685 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 536232008686 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 536232008687 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 536232008688 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 536232008689 active site 536232008690 substrate binding site [chemical binding]; other site 536232008691 cosubstrate binding site; other site 536232008692 catalytic site [active] 536232008693 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 536232008694 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 536232008695 dimerization interface [polypeptide binding]; other site 536232008696 putative ATP binding site [chemical binding]; other site 536232008697 amidophosphoribosyltransferase; Provisional; Region: PRK05793 536232008698 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 536232008699 active site 536232008700 tetramer interface [polypeptide binding]; other site 536232008701 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232008702 active site 536232008703 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 536232008704 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 536232008705 ATP binding site [chemical binding]; other site 536232008706 active site 536232008707 substrate binding site [chemical binding]; other site 536232008708 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 536232008709 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 536232008710 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 536232008711 catalytic loop [active] 536232008712 iron binding site [ion binding]; other site 536232008713 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 536232008714 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 536232008715 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 536232008716 putative selenium metabolism hydrolase; Region: selenium_YgeY; TIGR03526 536232008717 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 536232008718 putative metal binding site [ion binding]; other site 536232008719 putative dimer interface [polypeptide binding]; other site 536232008720 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 536232008721 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 536232008722 active site 536232008723 putative substrate binding pocket [chemical binding]; other site 536232008724 putative selenate reductase, YgfK subunit; Region: Se_ygfK; TIGR03315 536232008725 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536232008726 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 536232008727 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536232008728 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536232008729 phenylhydantoinase; Validated; Region: PRK08323 536232008730 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 536232008731 tetramer interface [polypeptide binding]; other site 536232008732 active site 536232008733 xanthine permease; Region: pbuX; TIGR03173 536232008734 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 536232008735 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 536232008736 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232008737 catalytic residue [active] 536232008738 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 536232008739 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 536232008740 Walker A motif; other site 536232008741 ATP binding site [chemical binding]; other site 536232008742 Walker B motif; other site 536232008743 arginine finger; other site 536232008744 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536232008745 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 536232008746 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 536232008747 Ligand binding site; other site 536232008748 metal-binding site 536232008749 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 536232008750 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 536232008751 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 536232008752 XdhC Rossmann domain; Region: XdhC_C; pfam13478 536232008753 NTPase; Region: NTPase_1; pfam03266 536232008754 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 536232008755 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536232008756 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 536232008757 ABC-ATPase subunit interface; other site 536232008758 dimer interface [polypeptide binding]; other site 536232008759 putative PBP binding regions; other site 536232008760 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536232008761 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536232008762 Walker A/P-loop; other site 536232008763 ATP binding site [chemical binding]; other site 536232008764 Q-loop/lid; other site 536232008765 ABC transporter signature motif; other site 536232008766 Walker B; other site 536232008767 D-loop; other site 536232008768 H-loop/switch region; other site 536232008769 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 536232008770 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 536232008771 intersubunit interface [polypeptide binding]; other site 536232008772 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 536232008773 active site 536232008774 catalytic triad [active] 536232008775 oxyanion hole [active] 536232008776 Uncharacterized conserved protein [Function unknown]; Region: COG1434 536232008777 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 536232008778 putative active site [active] 536232008779 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 536232008780 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536232008781 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 536232008782 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 536232008783 Part of AAA domain; Region: AAA_19; pfam13245 536232008784 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 536232008785 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 536232008786 Ligand Binding Site [chemical binding]; other site 536232008787 CHAP domain; Region: CHAP; pfam05257 536232008788 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 536232008789 putative metal binding site [ion binding]; other site 536232008790 putative dimer interface [polypeptide binding]; other site 536232008791 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 536232008792 GAF domain; Region: GAF_2; pfam13185 536232008793 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 536232008794 Domain of unknown function DUF21; Region: DUF21; pfam01595 536232008795 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 536232008796 Transporter associated domain; Region: CorC_HlyC; pfam03471 536232008797 Domain of unknown function DUF77; Region: DUF77; pfam01910 536232008798 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 536232008799 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 536232008800 amidophosphoribosyltransferase; Provisional; Region: PRK05793 536232008801 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 536232008802 active site 536232008803 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232008804 active site 536232008805 Protein of unknown function (DUF503); Region: DUF503; pfam04456 536232008806 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 536232008807 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 536232008808 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232008809 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536232008810 Walker A/P-loop; other site 536232008811 ATP binding site [chemical binding]; other site 536232008812 Q-loop/lid; other site 536232008813 ABC transporter signature motif; other site 536232008814 Walker B; other site 536232008815 D-loop; other site 536232008816 H-loop/switch region; other site 536232008817 Predicted transcriptional regulators [Transcription]; Region: COG1725 536232008818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232008819 DNA-binding site [nucleotide binding]; DNA binding site 536232008820 Ferredoxin [Energy production and conversion]; Region: COG1146 536232008821 4Fe-4S binding domain; Region: Fer4_6; pfam12837 536232008822 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 536232008823 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536232008824 ligand binding site [chemical binding]; other site 536232008825 flexible hinge region; other site 536232008826 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 536232008827 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 536232008828 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 536232008829 Predicted membrane protein [Function unknown]; Region: COG1511 536232008830 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 536232008831 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 536232008832 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 536232008833 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 536232008834 active site 536232008835 catalytic site [active] 536232008836 metal binding site [ion binding]; metal-binding site 536232008837 dimer interface [polypeptide binding]; other site 536232008838 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 536232008839 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232008840 catalytic residue [active] 536232008841 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 536232008842 Domain of unknown function DUF21; Region: DUF21; pfam01595 536232008843 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 536232008844 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 536232008845 Putative zinc ribbon domain; Region: DUF164; pfam02591 536232008846 Uncharacterized conserved protein [Function unknown]; Region: COG0327 536232008847 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 536232008848 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 536232008849 Family of unknown function (DUF633); Region: DUF633; pfam04816 536232008850 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 536232008851 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 536232008852 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 536232008853 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 536232008854 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232008855 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536232008856 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 536232008857 DNA binding residues [nucleotide binding] 536232008858 DNA primase, catalytic core; Region: dnaG; TIGR01391 536232008859 CHC2 zinc finger; Region: zf-CHC2; pfam01807 536232008860 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 536232008861 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 536232008862 active site 536232008863 metal binding site [ion binding]; metal-binding site 536232008864 interdomain interaction site; other site 536232008865 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 536232008866 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 536232008867 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232008868 Zn2+ binding site [ion binding]; other site 536232008869 Mg2+ binding site [ion binding]; other site 536232008870 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 536232008871 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 536232008872 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 536232008873 pyruvate phosphate dikinase; Provisional; Region: PRK09279 536232008874 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 536232008875 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536232008876 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536232008877 HTH domain; Region: HTH_11; pfam08279 536232008878 FOG: CBS domain [General function prediction only]; Region: COG0517 536232008879 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 536232008880 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 536232008881 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 536232008882 GTPase Era; Reviewed; Region: era; PRK00089 536232008883 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 536232008884 G1 box; other site 536232008885 GTP/Mg2+ binding site [chemical binding]; other site 536232008886 Switch I region; other site 536232008887 G2 box; other site 536232008888 Switch II region; other site 536232008889 G3 box; other site 536232008890 G4 box; other site 536232008891 G5 box; other site 536232008892 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 536232008893 active site 536232008894 catalytic motif [active] 536232008895 Zn binding site [ion binding]; other site 536232008896 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 536232008897 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 536232008898 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 536232008899 active site 536232008900 metal-binding heat shock protein; Provisional; Region: PRK00016 536232008901 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 536232008902 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 536232008903 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232008904 Zn2+ binding site [ion binding]; other site 536232008905 Mg2+ binding site [ion binding]; other site 536232008906 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 536232008907 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 536232008908 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 536232008909 Yqey-like protein; Region: YqeY; pfam09424 536232008910 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 536232008911 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 536232008912 nucleotide binding site/active site [active] 536232008913 HIT family signature motif; other site 536232008914 catalytic residue [active] 536232008915 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 536232008916 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 536232008917 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 536232008918 FeS/SAM binding site; other site 536232008919 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 536232008920 RNA methyltransferase, RsmE family; Region: TIGR00046 536232008921 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 536232008922 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 536232008923 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 536232008924 S-adenosylmethionine binding site [chemical binding]; other site 536232008925 chaperone protein DnaJ; Provisional; Region: PRK14297 536232008926 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 536232008927 HSP70 interaction site [polypeptide binding]; other site 536232008928 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 536232008929 substrate binding site [polypeptide binding]; other site 536232008930 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 536232008931 Zn binding sites [ion binding]; other site 536232008932 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 536232008933 dimer interface [polypeptide binding]; other site 536232008934 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 536232008935 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 536232008936 nucleotide binding site [chemical binding]; other site 536232008937 NEF interaction site [polypeptide binding]; other site 536232008938 SBD interface [polypeptide binding]; other site 536232008939 GrpE; Region: GrpE; pfam01025 536232008940 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 536232008941 dimer interface [polypeptide binding]; other site 536232008942 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 536232008943 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 536232008944 HTH domain; Region: HTH_11; cl17392 536232008945 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 536232008946 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 536232008947 FeS/SAM binding site; other site 536232008948 HemN C-terminal domain; Region: HemN_C; pfam06969 536232008949 GTP-binding protein LepA; Provisional; Region: PRK05433 536232008950 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 536232008951 G1 box; other site 536232008952 putative GEF interaction site [polypeptide binding]; other site 536232008953 GTP/Mg2+ binding site [chemical binding]; other site 536232008954 Switch I region; other site 536232008955 G2 box; other site 536232008956 G3 box; other site 536232008957 Switch II region; other site 536232008958 G4 box; other site 536232008959 G5 box; other site 536232008960 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 536232008961 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 536232008962 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 536232008963 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 536232008964 stage II sporulation protein P; Region: spore_II_P; TIGR02867 536232008965 germination protease; Provisional; Region: PRK12362 536232008966 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 536232008967 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 536232008968 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 536232008969 Competence protein; Region: Competence; pfam03772 536232008970 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 536232008971 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 536232008972 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536232008973 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 536232008974 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 536232008975 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 536232008976 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 536232008977 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 536232008978 G1 box; other site 536232008979 putative GEF interaction site [polypeptide binding]; other site 536232008980 GTP/Mg2+ binding site [chemical binding]; other site 536232008981 Switch I region; other site 536232008982 G2 box; other site 536232008983 G3 box; other site 536232008984 Switch II region; other site 536232008985 G4 box; other site 536232008986 G5 box; other site 536232008987 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 536232008988 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 536232008989 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 536232008990 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 536232008991 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 536232008992 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 536232008993 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 536232008994 selenophosphate synthetase; Provisional; Region: PRK00943 536232008995 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 536232008996 dimerization interface [polypeptide binding]; other site 536232008997 putative ATP binding site [chemical binding]; other site 536232008998 SLBB domain; Region: SLBB; pfam10531 536232008999 Helix-hairpin-helix motif; Region: HHH; pfam00633 536232009000 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536232009001 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 536232009002 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 536232009003 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 536232009004 RNA binding surface [nucleotide binding]; other site 536232009005 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 536232009006 active site 536232009007 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 536232009008 homotrimer interaction site [polypeptide binding]; other site 536232009009 putative active site [active] 536232009010 Transcriptional regulator [Transcription]; Region: LytR; COG1316 536232009011 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 536232009012 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232009013 Zn2+ binding site [ion binding]; other site 536232009014 Mg2+ binding site [ion binding]; other site 536232009015 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 536232009016 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 536232009017 active site 536232009018 (T/H)XGH motif; other site 536232009019 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 536232009020 GTPase CgtA; Reviewed; Region: obgE; PRK12297 536232009021 GTP1/OBG; Region: GTP1_OBG; pfam01018 536232009022 Obg GTPase; Region: Obg; cd01898 536232009023 G1 box; other site 536232009024 GTP/Mg2+ binding site [chemical binding]; other site 536232009025 Switch I region; other site 536232009026 G2 box; other site 536232009027 G3 box; other site 536232009028 Switch II region; other site 536232009029 G4 box; other site 536232009030 G5 box; other site 536232009031 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 536232009032 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 536232009033 hypothetical protein; Provisional; Region: PRK14553 536232009034 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 536232009035 Ribosomal protein L21 leader 536232009036 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 536232009037 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 536232009038 homodimer interface [polypeptide binding]; other site 536232009039 oligonucleotide binding site [chemical binding]; other site 536232009040 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 536232009041 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 536232009042 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 536232009043 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 536232009044 FeS/SAM binding site; other site 536232009045 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 536232009046 Peptidase family M50; Region: Peptidase_M50; pfam02163 536232009047 active site 536232009048 putative substrate binding region [chemical binding]; other site 536232009049 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 536232009050 Peptidase family M23; Region: Peptidase_M23; pfam01551 536232009051 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 536232009052 cell division topological specificity factor MinE; Provisional; Region: PRK13987 536232009053 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 536232009054 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 536232009055 Switch I; other site 536232009056 Switch II; other site 536232009057 septum formation inhibitor; Reviewed; Region: minC; PRK00513 536232009058 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 536232009059 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 536232009060 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 536232009061 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 536232009062 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 536232009063 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 536232009064 rod shape-determining protein MreC; Provisional; Region: PRK13922 536232009065 rod shape-determining protein MreC; Region: MreC; pfam04085 536232009066 rod shape-determining protein MreB; Provisional; Region: PRK13927 536232009067 MreB and similar proteins; Region: MreB_like; cd10225 536232009068 nucleotide binding site [chemical binding]; other site 536232009069 Mg binding site [ion binding]; other site 536232009070 putative protofilament interaction site [polypeptide binding]; other site 536232009071 RodZ interaction site [polypeptide binding]; other site 536232009072 hypothetical protein; Reviewed; Region: PRK00024 536232009073 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 536232009074 helix-hairpin-helix signature motif; other site 536232009075 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 536232009076 MPN+ (JAMM) motif; other site 536232009077 Zinc-binding site [ion binding]; other site 536232009078 Maf-like protein; Reviewed; Region: PRK00078 536232009079 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 536232009080 active site 536232009081 dimer interface [polypeptide binding]; other site 536232009082 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 536232009083 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 536232009084 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 536232009085 hypothetical protein; Provisional; Region: PRK04435 536232009086 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 536232009087 DNA-binding interface [nucleotide binding]; DNA binding site 536232009088 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 536232009089 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 536232009090 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536232009091 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536232009092 catalytic residue [active] 536232009093 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 536232009094 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 536232009095 CoA-binding site [chemical binding]; other site 536232009096 ATP-binding [chemical binding]; other site 536232009097 DNA polymerase I; Provisional; Region: PRK05755 536232009098 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 536232009099 active site 536232009100 metal binding site 1 [ion binding]; metal-binding site 536232009101 putative 5' ssDNA interaction site; other site 536232009102 metal binding site 3; metal-binding site 536232009103 metal binding site 2 [ion binding]; metal-binding site 536232009104 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 536232009105 putative DNA binding site [nucleotide binding]; other site 536232009106 putative metal binding site [ion binding]; other site 536232009107 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 536232009108 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 536232009109 active site 536232009110 DNA binding site [nucleotide binding] 536232009111 catalytic site [active] 536232009112 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 536232009113 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 536232009114 Tetramer interface [polypeptide binding]; other site 536232009115 active site 536232009116 FMN-binding site [chemical binding]; other site 536232009117 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232009118 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 536232009119 active site 536232009120 metal binding site [ion binding]; metal-binding site 536232009121 Bacterial SH3 domain; Region: SH3_3; pfam08239 536232009122 Haemolysin XhlA; Region: XhlA; pfam10779 536232009123 SPRY domain; Region: SPRY; cl02614 536232009124 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 536232009125 SPRY domain; Region: SPRY; cl02614 536232009126 Caspase domain; Region: Peptidase_C14; pfam00656 536232009127 Phage-related protein [Function unknown]; Region: COG5412 536232009128 hypothetical protein; Validated; Region: PRK08116 536232009129 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 536232009130 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 536232009131 Walker A motif; other site 536232009132 ATP binding site [chemical binding]; other site 536232009133 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 536232009134 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 536232009135 non-specific DNA binding site [nucleotide binding]; other site 536232009136 salt bridge; other site 536232009137 sequence-specific DNA binding site [nucleotide binding]; other site 536232009138 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 536232009139 non-specific DNA binding site [nucleotide binding]; other site 536232009140 salt bridge; other site 536232009141 sequence-specific DNA binding site [nucleotide binding]; other site 536232009142 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536232009143 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 536232009144 non-specific DNA binding site [nucleotide binding]; other site 536232009145 salt bridge; other site 536232009146 sequence-specific DNA binding site [nucleotide binding]; other site 536232009147 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 536232009148 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 536232009149 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 536232009150 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 536232009151 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 536232009152 dimer interface [polypeptide binding]; other site 536232009153 anticodon binding site; other site 536232009154 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 536232009155 homodimer interface [polypeptide binding]; other site 536232009156 motif 1; other site 536232009157 active site 536232009158 motif 2; other site 536232009159 GAD domain; Region: GAD; pfam02938 536232009160 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 536232009161 motif 3; other site 536232009162 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 536232009163 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 536232009164 dimer interface [polypeptide binding]; other site 536232009165 motif 1; other site 536232009166 active site 536232009167 motif 2; other site 536232009168 motif 3; other site 536232009169 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 536232009170 anticodon binding site; other site 536232009171 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 536232009172 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 536232009173 FeS/SAM binding site; other site 536232009174 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536232009175 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 536232009176 putative active site [active] 536232009177 dimerization interface [polypeptide binding]; other site 536232009178 putative tRNAtyr binding site [nucleotide binding]; other site 536232009179 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 536232009180 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232009181 Zn2+ binding site [ion binding]; other site 536232009182 Mg2+ binding site [ion binding]; other site 536232009183 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 536232009184 synthetase active site [active] 536232009185 NTP binding site [chemical binding]; other site 536232009186 metal binding site [ion binding]; metal-binding site 536232009187 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 536232009188 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 536232009189 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232009190 active site 536232009191 DHH family; Region: DHH; pfam01368 536232009192 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 536232009193 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 536232009194 Protein export membrane protein; Region: SecD_SecF; pfam02355 536232009195 protein-export membrane protein SecD; Region: secD; TIGR01129 536232009196 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 536232009197 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 536232009198 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 536232009199 FeS/SAM binding site; other site 536232009200 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 536232009201 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 536232009202 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 536232009203 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 536232009204 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 536232009205 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 536232009206 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 536232009207 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 536232009208 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 536232009209 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 536232009210 Walker A motif; other site 536232009211 ATP binding site [chemical binding]; other site 536232009212 Walker B motif; other site 536232009213 arginine finger; other site 536232009214 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 536232009215 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 536232009216 RuvA N terminal domain; Region: RuvA_N; pfam01330 536232009217 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 536232009218 hypothetical protein; Validated; Region: PRK00110 536232009219 Uncharacterized conserved protein [Function unknown]; Region: COG1739 536232009220 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 536232009221 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 536232009222 HEAT repeats; Region: HEAT_2; pfam13646 536232009223 HEAT-like repeat; Region: HEAT_EZ; pfam13513 536232009224 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 536232009225 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536232009226 DNA-binding site [nucleotide binding]; DNA binding site 536232009227 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 536232009228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232009229 homodimer interface [polypeptide binding]; other site 536232009230 catalytic residue [active] 536232009231 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 536232009232 active site 536232009233 NTP binding site [chemical binding]; other site 536232009234 metal binding triad [ion binding]; metal-binding site 536232009235 antibiotic binding site [chemical binding]; other site 536232009236 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 536232009237 Rubredoxin; Region: Rubredoxin; pfam00301 536232009238 iron binding site [ion binding]; other site 536232009239 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 536232009240 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 536232009241 HflX GTPase family; Region: HflX; cd01878 536232009242 G1 box; other site 536232009243 GTP/Mg2+ binding site [chemical binding]; other site 536232009244 Switch I region; other site 536232009245 G2 box; other site 536232009246 G3 box; other site 536232009247 Switch II region; other site 536232009248 G4 box; other site 536232009249 G5 box; other site 536232009250 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232009251 active site 536232009252 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 536232009253 Transglycosylase; Region: Transgly; pfam00912 536232009254 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 536232009255 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 536232009256 SpoVA protein; Region: SpoVA; cl04298 536232009257 stage V sporulation protein AD; Validated; Region: PRK08304 536232009258 stage V sporulation protein AD; Provisional; Region: PRK12404 536232009259 SpoVA protein; Region: SpoVA; cl04298 536232009260 sporulation sigma factor SigF; Validated; Region: PRK05572 536232009261 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232009262 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536232009263 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 536232009264 DNA binding residues [nucleotide binding] 536232009265 anti-sigma F factor; Provisional; Region: PRK03660 536232009266 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 536232009267 ATP binding site [chemical binding]; other site 536232009268 Mg2+ binding site [ion binding]; other site 536232009269 G-X-G motif; other site 536232009270 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 536232009271 anti sigma factor interaction site; other site 536232009272 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 536232009273 regulatory phosphorylation site [posttranslational modification]; other site 536232009274 spermidine synthase; Provisional; Region: PRK00811 536232009275 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 536232009276 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 536232009277 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 536232009278 NodB motif; other site 536232009279 active site 536232009280 catalytic site [active] 536232009281 Cd binding site [ion binding]; other site 536232009282 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 536232009283 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 536232009284 Bacterial sugar transferase; Region: Bac_transf; pfam02397 536232009285 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 536232009286 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 536232009287 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 536232009288 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 536232009289 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 536232009290 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 536232009291 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536232009292 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 536232009293 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 536232009294 O-Antigen ligase; Region: Wzy_C; pfam04932 536232009295 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 536232009296 putative glycosyl transferase; Provisional; Region: PRK10307 536232009297 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 536232009298 active site 536232009299 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 536232009300 homodimer interface [polypeptide binding]; other site 536232009301 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 536232009302 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536232009303 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 536232009304 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 536232009305 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232009306 Leucine-rich repeats; other site 536232009307 Substrate binding site [chemical binding]; other site 536232009308 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232009309 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232009310 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 536232009311 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 536232009312 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 536232009313 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 536232009314 putative trimer interface [polypeptide binding]; other site 536232009315 putative CoA binding site [chemical binding]; other site 536232009316 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 536232009317 putative trimer interface [polypeptide binding]; other site 536232009318 putative active site [active] 536232009319 putative substrate binding site [chemical binding]; other site 536232009320 putative CoA binding site [chemical binding]; other site 536232009321 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 536232009322 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536232009323 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536232009324 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 536232009325 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 536232009326 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 536232009327 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 536232009328 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 536232009329 NAD(P) binding site [chemical binding]; other site 536232009330 homodimer interface [polypeptide binding]; other site 536232009331 substrate binding site [chemical binding]; other site 536232009332 active site 536232009333 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 536232009334 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 536232009335 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 536232009336 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 536232009337 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 536232009338 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232009339 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 536232009340 active site 536232009341 metal binding site [ion binding]; metal-binding site 536232009342 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 536232009343 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232009344 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 536232009345 active site 536232009346 metal binding site [ion binding]; metal-binding site 536232009347 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 536232009348 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 536232009349 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 536232009350 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 536232009351 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 536232009352 active site 536232009353 tetramer interface; other site 536232009354 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536232009355 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 536232009356 binding surface 536232009357 TPR motif; other site 536232009358 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 536232009359 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 536232009360 active site 536232009361 substrate binding site [chemical binding]; other site 536232009362 metal binding site [ion binding]; metal-binding site 536232009363 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 536232009364 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 536232009365 5S rRNA interface [nucleotide binding]; other site 536232009366 CTC domain interface [polypeptide binding]; other site 536232009367 L16 interface [polypeptide binding]; other site 536232009368 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 536232009369 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 536232009370 homodimer interface [polypeptide binding]; other site 536232009371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232009372 catalytic residue [active] 536232009373 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 536232009374 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 536232009375 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 536232009376 active site 536232009377 substrate binding site [chemical binding]; other site 536232009378 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 536232009379 FMN binding site [chemical binding]; other site 536232009380 putative catalytic residues [active] 536232009381 Uncharacterized conserved protein [Function unknown]; Region: COG1683 536232009382 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 536232009383 MutS domain III; Region: MutS_III; pfam05192 536232009384 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 536232009385 Walker A/P-loop; other site 536232009386 ATP binding site [chemical binding]; other site 536232009387 Q-loop/lid; other site 536232009388 ABC transporter signature motif; other site 536232009389 Walker B; other site 536232009390 D-loop; other site 536232009391 H-loop/switch region; other site 536232009392 Smr domain; Region: Smr; pfam01713 536232009393 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 536232009394 Peptidase family U32; Region: Peptidase_U32; pfam01136 536232009395 Collagenase; Region: DUF3656; pfam12392 536232009396 Peptidase family U32; Region: Peptidase_U32; cl03113 536232009397 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 536232009398 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 536232009399 active site 536232009400 Cell division protein ZapA; Region: ZapA; pfam05164 536232009401 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 536232009402 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 536232009403 putative tRNA-binding site [nucleotide binding]; other site 536232009404 B3/4 domain; Region: B3_4; pfam03483 536232009405 tRNA synthetase B5 domain; Region: B5; smart00874 536232009406 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 536232009407 dimer interface [polypeptide binding]; other site 536232009408 motif 1; other site 536232009409 motif 3; other site 536232009410 motif 2; other site 536232009411 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 536232009412 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 536232009413 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 536232009414 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 536232009415 dimer interface [polypeptide binding]; other site 536232009416 motif 1; other site 536232009417 active site 536232009418 motif 2; other site 536232009419 motif 3; other site 536232009420 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 536232009421 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 536232009422 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 536232009423 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 536232009424 TrkA-N domain; Region: TrkA_N; pfam02254 536232009425 TrkA-C domain; Region: TrkA_C; pfam02080 536232009426 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 536232009427 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 536232009428 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 536232009429 23S rRNA binding site [nucleotide binding]; other site 536232009430 L21 binding site [polypeptide binding]; other site 536232009431 L13 binding site [polypeptide binding]; other site 536232009432 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 536232009433 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 536232009434 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 536232009435 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 536232009436 Ribosomal protein L20 leader 536232009437 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 536232009438 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 536232009439 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 536232009440 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 536232009441 active site 536232009442 dimer interface [polypeptide binding]; other site 536232009443 motif 1; other site 536232009444 motif 2; other site 536232009445 motif 3; other site 536232009446 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 536232009447 anticodon binding site; other site 536232009448 YtxC-like family; Region: YtxC; pfam08812 536232009449 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 536232009450 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536232009451 Walker A/P-loop; other site 536232009452 ATP binding site [chemical binding]; other site 536232009453 Q-loop/lid; other site 536232009454 ABC transporter signature motif; other site 536232009455 Walker B; other site 536232009456 D-loop; other site 536232009457 H-loop/switch region; other site 536232009458 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 536232009459 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 536232009460 dimerization interface [polypeptide binding]; other site 536232009461 domain crossover interface; other site 536232009462 redox-dependent activation switch; other site 536232009463 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 536232009464 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 536232009465 S-adenosylmethionine binding site [chemical binding]; other site 536232009466 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 536232009467 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 536232009468 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536232009469 Walker A/P-loop; other site 536232009470 ATP binding site [chemical binding]; other site 536232009471 Q-loop/lid; other site 536232009472 ABC transporter signature motif; other site 536232009473 Walker B; other site 536232009474 D-loop; other site 536232009475 H-loop/switch region; other site 536232009476 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536232009477 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 536232009478 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536232009479 Walker A/P-loop; other site 536232009480 ATP binding site [chemical binding]; other site 536232009481 Q-loop/lid; other site 536232009482 ABC transporter signature motif; other site 536232009483 Walker B; other site 536232009484 D-loop; other site 536232009485 H-loop/switch region; other site 536232009486 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 536232009487 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 536232009488 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 536232009489 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232009490 putative PBP binding loops; other site 536232009491 dimer interface [polypeptide binding]; other site 536232009492 ABC-ATPase subunit interface; other site 536232009493 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 536232009494 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232009495 dimer interface [polypeptide binding]; other site 536232009496 conserved gate region; other site 536232009497 putative PBP binding loops; other site 536232009498 ABC-ATPase subunit interface; other site 536232009499 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 536232009500 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 536232009501 peptide binding site [polypeptide binding]; other site 536232009502 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 536232009503 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 536232009504 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 536232009505 dihydrodipicolinate synthase; Region: dapA; TIGR00674 536232009506 dimer interface [polypeptide binding]; other site 536232009507 active site 536232009508 catalytic residue [active] 536232009509 dihydrodipicolinate reductase; Provisional; Region: PRK00048 536232009510 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 536232009511 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 536232009512 aminotransferase A; Validated; Region: PRK07683 536232009513 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 536232009514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232009515 homodimer interface [polypeptide binding]; other site 536232009516 catalytic residue [active] 536232009517 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 536232009518 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 536232009519 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 536232009520 trimer interface [polypeptide binding]; other site 536232009521 active site 536232009522 substrate binding site [chemical binding]; other site 536232009523 CoA binding site [chemical binding]; other site 536232009524 single-stranded DNA-binding protein; Provisional; Region: PRK05813 536232009525 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 536232009526 dimer interface [polypeptide binding]; other site 536232009527 ssDNA binding site [nucleotide binding]; other site 536232009528 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536232009529 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 536232009530 NodB motif; other site 536232009531 active site 536232009532 catalytic site [active] 536232009533 metal binding site [ion binding]; metal-binding site 536232009534 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 536232009535 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 536232009536 uncharacterized protein TIGR03905; Region: TIGR03905_4_Cys 536232009537 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 536232009538 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536232009539 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536232009540 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 536232009541 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536232009542 active site 536232009543 HIGH motif; other site 536232009544 nucleotide binding site [chemical binding]; other site 536232009545 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 536232009546 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 536232009547 active site 536232009548 KMSKS motif; other site 536232009549 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 536232009550 tRNA binding surface [nucleotide binding]; other site 536232009551 anticodon binding site; other site 536232009552 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 536232009553 putative acetyltransferase YhhY; Provisional; Region: PRK10140 536232009554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232009555 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536232009556 Coenzyme A binding pocket [chemical binding]; other site 536232009557 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536232009558 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536232009559 Walker A/P-loop; other site 536232009560 ATP binding site [chemical binding]; other site 536232009561 Q-loop/lid; other site 536232009562 ABC transporter signature motif; other site 536232009563 Walker B; other site 536232009564 D-loop; other site 536232009565 H-loop/switch region; other site 536232009566 NMT1-like family; Region: NMT1_2; pfam13379 536232009567 NMT1/THI5 like; Region: NMT1; pfam09084 536232009568 Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like...; Region: CH; cl00030 536232009569 putative actin binding surface [polypeptide binding]; other site 536232009570 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 536232009571 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 536232009572 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 536232009573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 536232009574 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232009575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 536232009576 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536232009577 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 536232009578 Walker A/P-loop; other site 536232009579 ATP binding site [chemical binding]; other site 536232009580 Q-loop/lid; other site 536232009581 ABC transporter signature motif; other site 536232009582 Walker B; other site 536232009583 D-loop; other site 536232009584 H-loop/switch region; other site 536232009585 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 536232009586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232009587 dimer interface [polypeptide binding]; other site 536232009588 conserved gate region; other site 536232009589 putative PBP binding loops; other site 536232009590 ABC-ATPase subunit interface; other site 536232009591 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 536232009592 TPR repeat; Region: TPR_11; pfam13414 536232009593 binding surface 536232009594 TPR motif; other site 536232009595 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 536232009596 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 536232009597 recombination regulator RecX; Provisional; Region: recX; PRK14134 536232009598 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 536232009599 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 536232009600 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 536232009601 QueT transporter; Region: QueT; pfam06177 536232009602 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 536232009603 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536232009604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 536232009605 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536232009606 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 536232009607 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 536232009608 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 536232009609 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 536232009610 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 536232009611 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 536232009612 dimer interface [polypeptide binding]; other site 536232009613 active site 536232009614 glycine loop; other site 536232009615 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 536232009616 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536232009617 sequence-specific DNA binding site [nucleotide binding]; other site 536232009618 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 536232009619 salt bridge; other site 536232009620 Cupin domain; Region: Cupin_2; pfam07883 536232009621 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 536232009622 Dimer interface [polypeptide binding]; other site 536232009623 BRCT sequence motif; other site 536232009624 agmatine deiminase; Region: agmatine_aguA; TIGR03380 536232009625 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 536232009626 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 536232009627 metal ion-dependent adhesion site (MIDAS); other site 536232009628 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 536232009629 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 536232009630 Walker A motif; other site 536232009631 ATP binding site [chemical binding]; other site 536232009632 Walker B motif; other site 536232009633 arginine finger; other site 536232009634 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 536232009635 Uncharacterized conserved protein [Function unknown]; Region: COG1915 536232009636 Uncharacterized conserved protein [Function unknown]; Region: COG1915 536232009637 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 536232009638 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 536232009639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 536232009640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 536232009641 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 536232009642 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 536232009643 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 536232009644 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 536232009645 Walker A motif; other site 536232009646 ATP binding site [chemical binding]; other site 536232009647 Walker B motif; other site 536232009648 arginine finger; other site 536232009649 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536232009650 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 536232009651 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 536232009652 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536232009653 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 536232009654 Ligand binding site [chemical binding]; other site 536232009655 Electron transfer flavoprotein domain; Region: ETF; pfam01012 536232009656 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536232009657 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 536232009658 FAD binding site [chemical binding]; other site 536232009659 homotetramer interface [polypeptide binding]; other site 536232009660 substrate binding pocket [chemical binding]; other site 536232009661 catalytic base [active] 536232009662 putative acyltransferase; Provisional; Region: PRK05790 536232009663 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 536232009664 dimer interface [polypeptide binding]; other site 536232009665 active site 536232009666 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 536232009667 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 536232009668 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536232009669 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 536232009670 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 536232009671 substrate binding site [chemical binding]; other site 536232009672 oxyanion hole (OAH) forming residues; other site 536232009673 trimer interface [polypeptide binding]; other site 536232009674 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 536232009675 GIY-YIG motif/motif A; other site 536232009676 active site 536232009677 catalytic site [active] 536232009678 putative DNA binding site [nucleotide binding]; other site 536232009679 metal binding site [ion binding]; metal-binding site 536232009680 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 536232009681 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 536232009682 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232009683 Zn2+ binding site [ion binding]; other site 536232009684 Mg2+ binding site [ion binding]; other site 536232009685 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 536232009686 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 536232009687 homotetramer interface [polypeptide binding]; other site 536232009688 active site 536232009689 metal binding site [ion binding]; metal-binding site 536232009690 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 536232009691 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 536232009692 active site 536232009693 catalytic site [active] 536232009694 metal binding site [ion binding]; metal-binding site 536232009695 dimer interface [polypeptide binding]; other site 536232009696 Cache domain; Region: Cache_1; pfam02743 536232009697 HAMP domain; Region: HAMP; pfam00672 536232009698 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232009699 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232009700 dimer interface [polypeptide binding]; other site 536232009701 putative CheW interface [polypeptide binding]; other site 536232009702 Rubredoxin [Energy production and conversion]; Region: COG1773 536232009703 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 536232009704 iron binding site [ion binding]; other site 536232009705 Rubrerythrin [Energy production and conversion]; Region: COG1592 536232009706 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 536232009707 diiron binding motif [ion binding]; other site 536232009708 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 536232009709 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 536232009710 FeS/SAM binding site; other site 536232009711 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 536232009712 Pyruvate formate lyase 1; Region: PFL1; cd01678 536232009713 coenzyme A binding site [chemical binding]; other site 536232009714 active site 536232009715 catalytic residues [active] 536232009716 glycine loop; other site 536232009717 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 536232009718 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 536232009719 5S rRNA interface [nucleotide binding]; other site 536232009720 CTC domain interface [polypeptide binding]; other site 536232009721 L16 interface [polypeptide binding]; other site 536232009722 ferric uptake regulator; Provisional; Region: fur; PRK09462 536232009723 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536232009724 metal binding site 2 [ion binding]; metal-binding site 536232009725 putative DNA binding helix; other site 536232009726 metal binding site 1 [ion binding]; metal-binding site 536232009727 dimer interface [polypeptide binding]; other site 536232009728 structural Zn2+ binding site [ion binding]; other site 536232009729 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 536232009730 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 536232009731 Predicted transcriptional regulator [Transcription]; Region: COG2378 536232009732 HTH domain; Region: HTH_11; pfam08279 536232009733 WYL domain; Region: WYL; pfam13280 536232009734 CAAX protease self-immunity; Region: Abi; pfam02517 536232009735 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 536232009736 G1 box; other site 536232009737 GTP/Mg2+ binding site [chemical binding]; other site 536232009738 Switch I region; other site 536232009739 G2 box; other site 536232009740 G3 box; other site 536232009741 Switch II region; other site 536232009742 G4 box; other site 536232009743 G5 box; other site 536232009744 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 536232009745 Found in ATP-dependent protease La (LON); Region: LON; smart00464 536232009746 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 536232009747 Walker A motif; other site 536232009748 ATP binding site [chemical binding]; other site 536232009749 Walker B motif; other site 536232009750 arginine finger; other site 536232009751 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 536232009752 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 536232009753 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 536232009754 Walker A motif; other site 536232009755 ATP binding site [chemical binding]; other site 536232009756 Walker B motif; other site 536232009757 arginine finger; other site 536232009758 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 536232009759 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 536232009760 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 536232009761 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 536232009762 Walker A motif; other site 536232009763 ATP binding site [chemical binding]; other site 536232009764 Walker B motif; other site 536232009765 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 536232009766 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 536232009767 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 536232009768 oligomer interface [polypeptide binding]; other site 536232009769 active site residues [active] 536232009770 trigger factor; Provisional; Region: tig; PRK01490 536232009771 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 536232009772 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 536232009773 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 536232009774 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 536232009775 DNA interaction; other site 536232009776 Metal-binding active site; metal-binding site 536232009777 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232009778 active site 536232009779 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 536232009780 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 536232009781 heterodimer interface [polypeptide binding]; other site 536232009782 active site 536232009783 FMN binding site [chemical binding]; other site 536232009784 homodimer interface [polypeptide binding]; other site 536232009785 substrate binding site [chemical binding]; other site 536232009786 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 536232009787 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 536232009788 FAD binding pocket [chemical binding]; other site 536232009789 FAD binding motif [chemical binding]; other site 536232009790 phosphate binding motif [ion binding]; other site 536232009791 beta-alpha-beta structure motif; other site 536232009792 NAD binding pocket [chemical binding]; other site 536232009793 Iron coordination center [ion binding]; other site 536232009794 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 536232009795 active site 536232009796 dimer interface [polypeptide binding]; other site 536232009797 dihydroorotase; Validated; Region: pyrC; PRK09357 536232009798 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 536232009799 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 536232009800 active site 536232009801 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 536232009802 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 536232009803 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 536232009804 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 536232009805 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536232009806 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536232009807 PyrR binding site 536232009808 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536232009809 nucleotide binding site [chemical binding]; other site 536232009810 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 536232009811 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 536232009812 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232009813 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232009814 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 536232009815 DsrE/DsrF-like family; Region: DrsE; cl00672 536232009816 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536232009817 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 536232009818 Walker A/P-loop; other site 536232009819 ATP binding site [chemical binding]; other site 536232009820 Q-loop/lid; other site 536232009821 ABC transporter signature motif; other site 536232009822 Walker B; other site 536232009823 D-loop; other site 536232009824 H-loop/switch region; other site 536232009825 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 536232009826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536232009827 dimer interface [polypeptide binding]; other site 536232009828 conserved gate region; other site 536232009829 ABC-ATPase subunit interface; other site 536232009830 Alkylmercury lyase; Region: MerB; pfam03243 536232009831 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 536232009832 NMT1-like family; Region: NMT1_2; pfam13379 536232009833 Predicted permeases [General function prediction only]; Region: COG0701 536232009834 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 536232009835 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536232009836 active site 536232009837 metal binding site [ion binding]; metal-binding site 536232009838 homotetramer interface [polypeptide binding]; other site 536232009839 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 536232009840 active site 536232009841 dimerization interface [polypeptide binding]; other site 536232009842 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 536232009843 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 536232009844 peptide binding site [polypeptide binding]; other site 536232009845 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 536232009846 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 536232009847 GatB domain; Region: GatB_Yqey; smart00845 536232009848 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 536232009849 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 536232009850 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 536232009851 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536232009852 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 536232009853 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 536232009854 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 536232009855 nucleotide binding pocket [chemical binding]; other site 536232009856 K-X-D-G motif; other site 536232009857 catalytic site [active] 536232009858 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 536232009859 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 536232009860 Helix-hairpin-helix motif; Region: HHH; pfam00633 536232009861 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 536232009862 Dimer interface [polypeptide binding]; other site 536232009863 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 536232009864 Part of AAA domain; Region: AAA_19; pfam13245 536232009865 Family description; Region: UvrD_C_2; pfam13538 536232009866 Trp repressor protein; Region: Trp_repressor; cl17266 536232009867 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 536232009868 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 536232009869 RNA binding surface [nucleotide binding]; other site 536232009870 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 536232009871 active site 536232009872 uracil binding [chemical binding]; other site 536232009873 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 536232009874 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 536232009875 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536232009876 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536232009877 catalytic residue [active] 536232009878 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 536232009879 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 536232009880 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 536232009881 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 536232009882 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 536232009883 hypothetical protein; Validated; Region: PRK00124 536232009884 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 536232009885 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 536232009886 active site 536232009887 dimer interface [polypeptide binding]; other site 536232009888 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 536232009889 dimer interface [polypeptide binding]; other site 536232009890 active site 536232009891 Probable zinc-binding domain; Region: zf-trcl; pfam13451 536232009892 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232009893 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536232009894 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232009895 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536232009896 Coenzyme A binding pocket [chemical binding]; other site 536232009897 D-lactate dehydrogenase; Validated; Region: PRK08605 536232009898 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 536232009899 homodimer interface [polypeptide binding]; other site 536232009900 ligand binding site [chemical binding]; other site 536232009901 NAD binding site [chemical binding]; other site 536232009902 catalytic site [active] 536232009903 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 536232009904 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 536232009905 putative ligand binding site [chemical binding]; other site 536232009906 putative NAD binding site [chemical binding]; other site 536232009907 catalytic site [active] 536232009908 Uncharacterized membrane protein [Function unknown]; Region: COG3949 536232009909 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 536232009910 4Fe-4S binding domain; Region: Fer4; pfam00037 536232009911 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 536232009912 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 536232009913 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536232009914 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 536232009915 Ligand binding site [chemical binding]; other site 536232009916 Electron transfer flavoprotein domain; Region: ETF; pfam01012 536232009917 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536232009918 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536232009919 active site 536232009920 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 536232009921 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232009922 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 536232009923 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 536232009924 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 536232009925 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 536232009926 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 536232009927 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536232009928 AMP-binding domain protein; Validated; Region: PRK08315 536232009929 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536232009930 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 536232009931 acyl-activating enzyme (AAE) consensus motif; other site 536232009932 putative AMP binding site [chemical binding]; other site 536232009933 putative active site [active] 536232009934 putative CoA binding site [chemical binding]; other site 536232009935 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 536232009936 GMP synthase; Reviewed; Region: guaA; PRK00074 536232009937 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 536232009938 AMP/PPi binding site [chemical binding]; other site 536232009939 candidate oxyanion hole; other site 536232009940 catalytic triad [active] 536232009941 potential glutamine specificity residues [chemical binding]; other site 536232009942 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 536232009943 ATP Binding subdomain [chemical binding]; other site 536232009944 Ligand Binding sites [chemical binding]; other site 536232009945 Dimerization subdomain; other site 536232009946 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 536232009947 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 536232009948 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 536232009949 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 536232009950 active site 536232009951 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 536232009952 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 536232009953 Ligand Binding Site [chemical binding]; other site 536232009954 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 536232009955 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 536232009956 ring oligomerisation interface [polypeptide binding]; other site 536232009957 ATP/Mg binding site [chemical binding]; other site 536232009958 stacking interactions; other site 536232009959 hinge regions; other site 536232009960 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 536232009961 oligomerisation interface [polypeptide binding]; other site 536232009962 mobile loop; other site 536232009963 roof hairpin; other site 536232009964 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 536232009965 Uncharacterized conserved protein [Function unknown]; Region: COG0398 536232009966 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 536232009967 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 536232009968 4Fe-4S binding domain; Region: Fer4; pfam00037 536232009969 4Fe-4S binding domain; Region: Fer4; pfam00037 536232009970 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 536232009971 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 536232009972 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 536232009973 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536232009974 minor groove reading motif; other site 536232009975 helix-hairpin-helix signature motif; other site 536232009976 substrate binding pocket [chemical binding]; other site 536232009977 active site 536232009978 putative oxidoreductase; Provisional; Region: PRK12831 536232009979 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 536232009980 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536232009981 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 536232009982 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 536232009983 FAD binding pocket [chemical binding]; other site 536232009984 FAD binding motif [chemical binding]; other site 536232009985 phosphate binding motif [ion binding]; other site 536232009986 beta-alpha-beta structure motif; other site 536232009987 NAD binding pocket [chemical binding]; other site 536232009988 Iron coordination center [ion binding]; other site 536232009989 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 536232009990 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 536232009991 CoA binding domain; Region: CoA_binding; pfam02629 536232009992 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 536232009993 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232009994 Walker A/P-loop; other site 536232009995 ATP binding site [chemical binding]; other site 536232009996 Q-loop/lid; other site 536232009997 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232009998 ABC transporter; Region: ABC_tran_2; pfam12848 536232009999 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536232010000 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 536232010001 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 536232010002 active site 536232010003 phosphorylation site [posttranslational modification] 536232010004 intermolecular recognition site; other site 536232010005 dimerization interface [polypeptide binding]; other site 536232010006 LytTr DNA-binding domain; Region: LytTR; pfam04397 536232010007 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 536232010008 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 536232010009 Histidine kinase; Region: His_kinase; pfam06580 536232010010 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 536232010011 ATP binding site [chemical binding]; other site 536232010012 Mg2+ binding site [ion binding]; other site 536232010013 G-X-G motif; other site 536232010014 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 536232010015 Carbon starvation protein CstA; Region: CstA; pfam02554 536232010016 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 536232010017 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 536232010018 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 536232010019 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 536232010020 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 536232010021 Peptidase M16C associated; Region: M16C_assoc; pfam08367 536232010022 pyruvate carboxylase; Reviewed; Region: PRK12999 536232010023 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536232010024 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 536232010025 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 536232010026 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 536232010027 active site 536232010028 catalytic residues [active] 536232010029 metal binding site [ion binding]; metal-binding site 536232010030 homodimer binding site [polypeptide binding]; other site 536232010031 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 536232010032 carboxyltransferase (CT) interaction site; other site 536232010033 biotinylation site [posttranslational modification]; other site 536232010034 UGMP family protein; Validated; Region: PRK09604 536232010035 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 536232010036 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 536232010037 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 536232010038 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536232010039 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 536232010040 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 536232010041 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 536232010042 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 536232010043 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 536232010044 intersubunit interface [polypeptide binding]; other site 536232010045 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232010046 Zn2+ binding site [ion binding]; other site 536232010047 Mg2+ binding site [ion binding]; other site 536232010048 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 536232010049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232010050 Zn2+ binding site [ion binding]; other site 536232010051 Mg2+ binding site [ion binding]; other site 536232010052 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 536232010053 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 536232010054 Glycoprotease family; Region: Peptidase_M22; pfam00814 536232010055 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 536232010056 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232010057 Coenzyme A binding pocket [chemical binding]; other site 536232010058 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 536232010059 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 536232010060 active site 536232010061 HIGH motif; other site 536232010062 dimer interface [polypeptide binding]; other site 536232010063 KMSKS motif; other site 536232010064 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 536232010065 RNA binding surface [nucleotide binding]; other site 536232010066 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 536232010067 Divergent AAA domain; Region: AAA_4; pfam04326 536232010068 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 536232010069 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 536232010070 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 536232010071 active site 536232010072 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 536232010073 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 536232010074 G1 box; other site 536232010075 putative GEF interaction site [polypeptide binding]; other site 536232010076 GTP/Mg2+ binding site [chemical binding]; other site 536232010077 Switch I region; other site 536232010078 G2 box; other site 536232010079 G3 box; other site 536232010080 Switch II region; other site 536232010081 G4 box; other site 536232010082 G5 box; other site 536232010083 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 536232010084 sugar phosphate phosphatase; Provisional; Region: PRK10513 536232010085 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 536232010086 active site 536232010087 motif I; other site 536232010088 motif II; other site 536232010089 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 536232010090 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 536232010091 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 536232010092 active site 536232010093 HIGH motif; other site 536232010094 dimer interface [polypeptide binding]; other site 536232010095 KMSKS motif; other site 536232010096 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 536232010097 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 536232010098 non-heme iron binding site [ion binding]; other site 536232010099 dimer interface [polypeptide binding]; other site 536232010100 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 536232010101 non-heme iron binding site [ion binding]; other site 536232010102 dimer interface [polypeptide binding]; other site 536232010103 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 536232010104 active site 536232010105 catalytic triad [active] 536232010106 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 536232010107 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232010108 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232010109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232010110 Walker A/P-loop; other site 536232010111 ATP binding site [chemical binding]; other site 536232010112 Q-loop/lid; other site 536232010113 ABC transporter signature motif; other site 536232010114 Walker B; other site 536232010115 D-loop; other site 536232010116 H-loop/switch region; other site 536232010117 CXXX repeat peptide modification system protein; Region: CXXX_rpt_assoc; TIGR04116 536232010118 CXXX repeat peptide modification system protein; Region: CXXX_rpt_assoc; TIGR04116 536232010119 radical SAM peptide maturase, CXXX-repeat target family; Region: rSAM_Cxxx_rpt; TIGR04115 536232010120 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 536232010121 FeS/SAM binding site; other site 536232010122 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 536232010123 CXXX repeat peptide maturase; Region: CXXX_matur; TIGR04119 536232010124 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536232010125 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536232010126 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232010127 Walker A/P-loop; other site 536232010128 ATP binding site [chemical binding]; other site 536232010129 Q-loop/lid; other site 536232010130 ABC transporter signature motif; other site 536232010131 Walker B; other site 536232010132 D-loop; other site 536232010133 H-loop/switch region; other site 536232010134 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 536232010135 Putative glucoamylase; Region: Glycoamylase; pfam10091 536232010136 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 536232010137 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 536232010138 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 536232010139 diaminopimelate decarboxylase; Region: lysA; TIGR01048 536232010140 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 536232010141 active site 536232010142 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536232010143 substrate binding site [chemical binding]; other site 536232010144 catalytic residues [active] 536232010145 dimer interface [polypeptide binding]; other site 536232010146 aspartate kinase; Reviewed; Region: PRK06635 536232010147 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 536232010148 putative nucleotide binding site [chemical binding]; other site 536232010149 putative catalytic residues [active] 536232010150 putative Mg ion binding site [ion binding]; other site 536232010151 putative aspartate binding site [chemical binding]; other site 536232010152 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 536232010153 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 536232010154 putative allosteric regulatory residue; other site 536232010155 Lysine riboswitch 536232010156 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 536232010157 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 536232010158 active site 536232010159 metal binding site [ion binding]; metal-binding site 536232010160 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 536232010161 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 536232010162 hypothetical protein; Provisional; Region: PRK06851 536232010163 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 536232010164 Walker A motif; other site 536232010165 ATP binding site [chemical binding]; other site 536232010166 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 536232010167 Part of AAA domain; Region: AAA_19; pfam13245 536232010168 FtsH Extracellular; Region: FtsH_ext; pfam06480 536232010169 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 536232010170 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 536232010171 Walker A motif; other site 536232010172 ATP binding site [chemical binding]; other site 536232010173 Walker B motif; other site 536232010174 arginine finger; other site 536232010175 Peptidase family M41; Region: Peptidase_M41; pfam01434 536232010176 dipeptidase PepV; Reviewed; Region: PRK07318 536232010177 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 536232010178 active site 536232010179 metal binding site [ion binding]; metal-binding site 536232010180 prolyl-tRNA synthetase; Provisional; Region: PRK08661 536232010181 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 536232010182 dimer interface [polypeptide binding]; other site 536232010183 motif 1; other site 536232010184 active site 536232010185 motif 2; other site 536232010186 motif 3; other site 536232010187 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 536232010188 anticodon binding site; other site 536232010189 zinc-binding site [ion binding]; other site 536232010190 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 536232010191 GIY-YIG motif/motif A; other site 536232010192 putative active site [active] 536232010193 putative metal binding site [ion binding]; other site 536232010194 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232010195 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 536232010196 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232010197 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 536232010198 Walker A/P-loop; other site 536232010199 ATP binding site [chemical binding]; other site 536232010200 Q-loop/lid; other site 536232010201 ABC transporter signature motif; other site 536232010202 Walker B; other site 536232010203 D-loop; other site 536232010204 H-loop/switch region; other site 536232010205 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 536232010206 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232010207 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 536232010208 DNA binding residues [nucleotide binding] 536232010209 putative transporter; Provisional; Region: PRK11660 536232010210 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 536232010211 Sulfate transporter family; Region: Sulfate_transp; pfam00916 536232010212 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 536232010213 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232010214 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 536232010215 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 536232010216 dimer interface [polypeptide binding]; other site 536232010217 phosphorylation site [posttranslational modification] 536232010218 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 536232010219 ATP binding site [chemical binding]; other site 536232010220 Mg2+ binding site [ion binding]; other site 536232010221 G-X-G motif; other site 536232010222 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232010223 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 536232010224 active site 536232010225 phosphorylation site [posttranslational modification] 536232010226 intermolecular recognition site; other site 536232010227 dimerization interface [polypeptide binding]; other site 536232010228 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 536232010229 DNA binding site [nucleotide binding] 536232010230 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 536232010231 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 536232010232 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536232010233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232010234 Walker A/P-loop; other site 536232010235 ATP binding site [chemical binding]; other site 536232010236 Q-loop/lid; other site 536232010237 ABC transporter signature motif; other site 536232010238 Walker B; other site 536232010239 D-loop; other site 536232010240 H-loop/switch region; other site 536232010241 Uncharacterized conserved protein [Function unknown]; Region: COG3589 536232010242 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 536232010243 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 536232010244 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 536232010245 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 536232010246 methionine cluster; other site 536232010247 active site 536232010248 phosphorylation site [posttranslational modification] 536232010249 metal binding site [ion binding]; metal-binding site 536232010250 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 536232010251 active site 536232010252 P-loop; other site 536232010253 phosphorylation site [posttranslational modification] 536232010254 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 536232010255 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 536232010256 Walker A motif; other site 536232010257 ATP binding site [chemical binding]; other site 536232010258 Walker B motif; other site 536232010259 arginine finger; other site 536232010260 Transcriptional antiterminator [Transcription]; Region: COG3933 536232010261 PRD domain; Region: PRD; pfam00874 536232010262 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 536232010263 active pocket/dimerization site; other site 536232010264 active site 536232010265 phosphorylation site [posttranslational modification] 536232010266 PRD domain; Region: PRD; pfam00874 536232010267 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 536232010268 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 536232010269 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 536232010270 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 536232010271 NAD binding site [chemical binding]; other site 536232010272 sugar binding site [chemical binding]; other site 536232010273 divalent metal binding site [ion binding]; other site 536232010274 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536232010275 dimer interface [polypeptide binding]; other site 536232010276 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536232010277 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536232010278 metal binding site [ion binding]; metal-binding site 536232010279 active site 536232010280 I-site; other site 536232010281 Phage integrase family; Region: Phage_integrase; pfam00589 536232010282 active site 536232010283 DNA binding site [nucleotide binding] 536232010284 Int/Topo IB signature motif; other site 536232010285 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 536232010286 Protein of unknown function DUF43; Region: DUF43; pfam01861 536232010287 Mor transcription activator family; Region: Mor; cl02360 536232010288 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 536232010289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536232010290 NmrA-like family; Region: NmrA; pfam05368 536232010291 NAD(P) binding site [chemical binding]; other site 536232010292 active site 536232010293 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 536232010294 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536232010295 active site 536232010296 catalytic tetrad [active] 536232010297 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232010298 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536232010299 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536232010300 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 536232010301 DNA binding residues [nucleotide binding] 536232010302 putative dimer interface [polypeptide binding]; other site 536232010303 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 536232010304 active site 536232010305 catalytic motif [active] 536232010306 Zn binding site [ion binding]; other site 536232010307 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536232010308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536232010309 NAD(P) binding site [chemical binding]; other site 536232010310 active site 536232010311 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 536232010312 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232010313 RibD C-terminal domain; Region: RibD_C; cl17279 536232010314 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 536232010315 Protein of unknown function, DUF606; Region: DUF606; pfam04657 536232010316 Protein of unknown function, DUF606; Region: DUF606; pfam04657 536232010317 Rrf2 family protein; Region: rrf2_super; TIGR00738 536232010318 Transcriptional regulator; Region: Rrf2; pfam02082 536232010319 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536232010320 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536232010321 Coenzyme A binding pocket [chemical binding]; other site 536232010322 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 536232010323 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 536232010324 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 536232010325 S-adenosylmethionine binding site [chemical binding]; other site 536232010326 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 536232010327 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 536232010328 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 536232010329 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 536232010330 active site 536232010331 catalytic tetrad [active] 536232010332 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 536232010333 pyruvate kinase; Provisional; Region: PRK06354 536232010334 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 536232010335 domain interfaces; other site 536232010336 active site 536232010337 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 536232010338 6-phosphofructokinase; Provisional; Region: PRK03202 536232010339 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 536232010340 active site 536232010341 ADP/pyrophosphate binding site [chemical binding]; other site 536232010342 dimerization interface [polypeptide binding]; other site 536232010343 allosteric effector site; other site 536232010344 fructose-1,6-bisphosphate binding site; other site 536232010345 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 536232010346 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 536232010347 active site 536232010348 PHP Thumb interface [polypeptide binding]; other site 536232010349 metal binding site [ion binding]; metal-binding site 536232010350 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 536232010351 generic binding surface II; other site 536232010352 generic binding surface I; other site 536232010353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 536232010354 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 536232010355 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 536232010356 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 536232010357 phosphate binding site [ion binding]; other site 536232010358 putative substrate binding pocket [chemical binding]; other site 536232010359 dimer interface [polypeptide binding]; other site 536232010360 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 536232010361 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 536232010362 FAD binding domain; Region: FAD_binding_4; pfam01565 536232010363 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 536232010364 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 536232010365 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 536232010366 active site 536232010367 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 536232010368 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 536232010369 GIY-YIG motif/motif A; other site 536232010370 active site 536232010371 catalytic site [active] 536232010372 putative DNA binding site [nucleotide binding]; other site 536232010373 metal binding site [ion binding]; metal-binding site 536232010374 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 536232010375 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 536232010376 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 536232010377 generic binding surface II; other site 536232010378 generic binding surface I; other site 536232010379 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536232010380 Zn2+ binding site [ion binding]; other site 536232010381 Mg2+ binding site [ion binding]; other site 536232010382 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 536232010383 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 536232010384 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 536232010385 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 536232010386 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 536232010387 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 536232010388 phosphopeptide binding site; other site 536232010389 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 536232010390 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 536232010391 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 536232010392 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 536232010393 excinuclease ABC subunit B; Provisional; Region: PRK05298 536232010394 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 536232010395 ATP binding site [chemical binding]; other site 536232010396 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 536232010397 nucleotide binding region [chemical binding]; other site 536232010398 ATP-binding site [chemical binding]; other site 536232010399 Ultra-violet resistance protein B; Region: UvrB; pfam12344 536232010400 UvrB/uvrC motif; Region: UVR; pfam02151 536232010401 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 536232010402 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 536232010403 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 536232010404 C-terminal peptidase (prc); Region: prc; TIGR00225 536232010405 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 536232010406 protein binding site [polypeptide binding]; other site 536232010407 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 536232010408 Catalytic dyad [active] 536232010409 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 536232010410 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 536232010411 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 536232010412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536232010413 Walker A/P-loop; other site 536232010414 ATP binding site [chemical binding]; other site 536232010415 Q-loop/lid; other site 536232010416 ABC transporter signature motif; other site 536232010417 Walker B; other site 536232010418 D-loop; other site 536232010419 H-loop/switch region; other site 536232010420 Uncharacterized conserved protein [Function unknown]; Region: COG1284 536232010421 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 536232010422 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 536232010423 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 536232010424 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 536232010425 PYR/PP interface [polypeptide binding]; other site 536232010426 dimer interface [polypeptide binding]; other site 536232010427 TPP binding site [chemical binding]; other site 536232010428 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 536232010429 transketolase; Reviewed; Region: PRK05899 536232010430 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 536232010431 TPP-binding site [chemical binding]; other site 536232010432 dimer interface [polypeptide binding]; other site 536232010433 PemK-like protein; Region: PemK; pfam02452 536232010434 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 536232010435 alanine racemase; Reviewed; Region: alr; PRK00053 536232010436 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 536232010437 active site 536232010438 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536232010439 dimer interface [polypeptide binding]; other site 536232010440 substrate binding site [chemical binding]; other site 536232010441 catalytic residues [active] 536232010442 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 536232010443 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 536232010444 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 536232010445 putative substrate binding site [chemical binding]; other site 536232010446 putative ATP binding site [chemical binding]; other site 536232010447 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 536232010448 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 536232010449 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 536232010450 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 536232010451 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 536232010452 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 536232010453 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 536232010454 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 536232010455 RNA binding surface [nucleotide binding]; other site 536232010456 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536232010457 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 536232010458 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 536232010459 dinuclear metal binding motif [ion binding]; other site 536232010460 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 536232010461 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536232010462 DNA binding residues [nucleotide binding] 536232010463 drug binding residues [chemical binding]; other site 536232010464 dimer interface [polypeptide binding]; other site 536232010465 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 536232010466 Creatinine amidohydrolase; Region: Creatininase; pfam02633 536232010467 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 536232010468 E-class dimer interface [polypeptide binding]; other site 536232010469 P-class dimer interface [polypeptide binding]; other site 536232010470 active site 536232010471 Cu2+ binding site [ion binding]; other site 536232010472 Zn2+ binding site [ion binding]; other site 536232010473 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 536232010474 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 536232010475 glutaminase active site [active] 536232010476 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 536232010477 dimer interface [polypeptide binding]; other site 536232010478 active site 536232010479 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 536232010480 dimer interface [polypeptide binding]; other site 536232010481 active site 536232010482 glmS glucosamine-6-phosphate activated ribozyme, putative 536232010483 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 536232010484 active site 536232010485 intersubunit interactions; other site 536232010486 catalytic residue [active] 536232010487 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 536232010488 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 536232010489 motif II; other site 536232010490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536232010491 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 536232010492 NAD(P) binding site [chemical binding]; other site 536232010493 active site 536232010494 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 536232010495 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 536232010496 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 536232010497 Nucleoside recognition; Region: Gate; pfam07670 536232010498 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 536232010499 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 536232010500 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 536232010501 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536232010502 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 536232010503 putative NAD(P) binding site [chemical binding]; other site 536232010504 catalytic Zn binding site [ion binding]; other site 536232010505 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 536232010506 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 536232010507 non-specific DNA interactions [nucleotide binding]; other site 536232010508 DNA binding site [nucleotide binding] 536232010509 sequence specific DNA binding site [nucleotide binding]; other site 536232010510 putative cAMP binding site [chemical binding]; other site 536232010511 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 536232010512 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 536232010513 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 536232010514 active site 536232010515 substrate binding site [chemical binding]; other site 536232010516 metal binding site [ion binding]; metal-binding site 536232010517 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 536232010518 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 536232010519 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 536232010520 TPP-binding site [chemical binding]; other site 536232010521 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 536232010522 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 536232010523 dimer interface [polypeptide binding]; other site 536232010524 PYR/PP interface [polypeptide binding]; other site 536232010525 TPP binding site [chemical binding]; other site 536232010526 substrate binding site [chemical binding]; other site 536232010527 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 536232010528 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536232010529 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 536232010530 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 536232010531 P-loop; other site 536232010532 Magnesium ion binding site [ion binding]; other site 536232010533 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536232010534 nucleotide binding site [chemical binding]; other site 536232010535 Acetokinase family; Region: Acetate_kinase; cl17229 536232010536 phosphate butyryltransferase; Validated; Region: PRK05805 536232010537 butyrate kinase; Provisional; Region: PRK03011 536232010538 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 536232010539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 536232010540 YbbR-like protein; Region: YbbR; pfam07949 536232010541 Uncharacterized conserved protein [Function unknown]; Region: COG1624 536232010542 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 536232010543 ydaO/yuaA leader 536232010544 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 536232010545 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 536232010546 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536232010547 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 536232010548 catalytic residues [active] 536232010549 isoaspartyl dipeptidase; Provisional; Region: PRK10657 536232010550 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 536232010551 active site 536232010552 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 536232010553 TPR motif; other site 536232010554 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536232010555 binding surface 536232010556 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 536232010557 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 536232010558 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536232010559 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536232010560 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 536232010561 dimerization domain swap beta strand [polypeptide binding]; other site 536232010562 regulatory protein interface [polypeptide binding]; other site 536232010563 active site 536232010564 regulatory phosphorylation site [posttranslational modification]; other site 536232010565 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 536232010566 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 536232010567 putative active site [active] 536232010568 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 536232010569 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 536232010570 Walker A motif; other site 536232010571 ATP binding site [chemical binding]; other site 536232010572 Walker B motif; other site 536232010573 arginine finger; other site 536232010574 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 536232010575 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 536232010576 TPR motif; other site 536232010577 binding surface 536232010578 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536232010579 fumarate hydratase; Provisional; Region: PRK06842 536232010580 fumarate hydratase; Provisional; Region: PRK06246 536232010581 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 536232010582 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 536232010583 active site 536232010584 metal binding site [ion binding]; metal-binding site 536232010585 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 536232010586 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 536232010587 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 536232010588 PhoU domain; Region: PhoU; pfam01895 536232010589 PhoU domain; Region: PhoU; pfam01895 536232010590 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 536232010591 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 536232010592 23S rRNA interface [nucleotide binding]; other site 536232010593 L3 interface [polypeptide binding]; other site 536232010594 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 536232010595 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 536232010596 dimerization interface 3.5A [polypeptide binding]; other site 536232010597 active site 536232010598 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 536232010599 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 536232010600 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 536232010601 Walker A/P-loop; other site 536232010602 ATP binding site [chemical binding]; other site 536232010603 Q-loop/lid; other site 536232010604 ABC transporter signature motif; other site 536232010605 Walker B; other site 536232010606 D-loop; other site 536232010607 H-loop/switch region; other site 536232010608 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 536232010609 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 536232010610 Walker A/P-loop; other site 536232010611 ATP binding site [chemical binding]; other site 536232010612 Q-loop/lid; other site 536232010613 ABC transporter signature motif; other site 536232010614 Walker B; other site 536232010615 D-loop; other site 536232010616 H-loop/switch region; other site 536232010617 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 536232010618 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 536232010619 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 536232010620 alphaNTD homodimer interface [polypeptide binding]; other site 536232010621 alphaNTD - beta interaction site [polypeptide binding]; other site 536232010622 alphaNTD - beta' interaction site [polypeptide binding]; other site 536232010623 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 536232010624 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 536232010625 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 536232010626 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 536232010627 RNA binding surface [nucleotide binding]; other site 536232010628 30S ribosomal protein S11; Validated; Region: PRK05309 536232010629 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 536232010630 30S ribosomal protein S13; Region: bact_S13; TIGR03631 536232010631 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 536232010632 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 536232010633 rRNA binding site [nucleotide binding]; other site 536232010634 predicted 30S ribosome binding site; other site 536232010635 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 536232010636 RNA binding site [nucleotide binding]; other site 536232010637 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 536232010638 active site 536232010639 adenylate kinase; Reviewed; Region: adk; PRK00279 536232010640 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 536232010641 AMP-binding site [chemical binding]; other site 536232010642 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 536232010643 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 536232010644 SecY translocase; Region: SecY; pfam00344 536232010645 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 536232010646 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 536232010647 23S rRNA binding site [nucleotide binding]; other site 536232010648 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 536232010649 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 536232010650 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 536232010651 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 536232010652 5S rRNA interface [nucleotide binding]; other site 536232010653 L27 interface [polypeptide binding]; other site 536232010654 23S rRNA interface [nucleotide binding]; other site 536232010655 L5 interface [polypeptide binding]; other site 536232010656 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 536232010657 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 536232010658 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 536232010659 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 536232010660 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 536232010661 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 536232010662 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 536232010663 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 536232010664 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 536232010665 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 536232010666 RNA binding site [nucleotide binding]; other site 536232010667 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 536232010668 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 536232010669 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 536232010670 23S rRNA interface [nucleotide binding]; other site 536232010671 putative translocon interaction site; other site 536232010672 signal recognition particle (SRP54) interaction site; other site 536232010673 L23 interface [polypeptide binding]; other site 536232010674 trigger factor interaction site; other site 536232010675 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 536232010676 23S rRNA interface [nucleotide binding]; other site 536232010677 5S rRNA interface [nucleotide binding]; other site 536232010678 putative antibiotic binding site [chemical binding]; other site 536232010679 L25 interface [polypeptide binding]; other site 536232010680 L27 interface [polypeptide binding]; other site 536232010681 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 536232010682 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 536232010683 G-X-X-G motif; other site 536232010684 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 536232010685 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 536232010686 putative translocon binding site; other site 536232010687 protein-rRNA interface [nucleotide binding]; other site 536232010688 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 536232010689 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 536232010690 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 536232010691 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 536232010692 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 536232010693 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 536232010694 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 536232010695 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 536232010696 elongation factor Tu; Reviewed; Region: PRK00049 536232010697 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 536232010698 G1 box; other site 536232010699 GEF interaction site [polypeptide binding]; other site 536232010700 GTP/Mg2+ binding site [chemical binding]; other site 536232010701 Switch I region; other site 536232010702 G2 box; other site 536232010703 G3 box; other site 536232010704 Switch II region; other site 536232010705 G4 box; other site 536232010706 G5 box; other site 536232010707 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 536232010708 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 536232010709 Antibiotic Binding Site [chemical binding]; other site 536232010710 elongation factor G; Reviewed; Region: PRK00007 536232010711 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 536232010712 G1 box; other site 536232010713 putative GEF interaction site [polypeptide binding]; other site 536232010714 GTP/Mg2+ binding site [chemical binding]; other site 536232010715 Switch I region; other site 536232010716 G2 box; other site 536232010717 G3 box; other site 536232010718 Switch II region; other site 536232010719 G4 box; other site 536232010720 G5 box; other site 536232010721 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 536232010722 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 536232010723 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 536232010724 30S ribosomal protein S7; Validated; Region: PRK05302 536232010725 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 536232010726 S17 interaction site [polypeptide binding]; other site 536232010727 S8 interaction site; other site 536232010728 16S rRNA interaction site [nucleotide binding]; other site 536232010729 streptomycin interaction site [chemical binding]; other site 536232010730 23S rRNA interaction site [nucleotide binding]; other site 536232010731 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 536232010732 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 536232010733 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 536232010734 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 536232010735 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 536232010736 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 536232010737 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 536232010738 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 536232010739 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 536232010740 G-loop; other site 536232010741 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 536232010742 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 536232010743 DNA binding site [nucleotide binding] 536232010744 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 536232010745 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 536232010746 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 536232010747 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 536232010748 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 536232010749 RPB1 interaction site [polypeptide binding]; other site 536232010750 RPB10 interaction site [polypeptide binding]; other site 536232010751 RPB11 interaction site [polypeptide binding]; other site 536232010752 RPB3 interaction site [polypeptide binding]; other site 536232010753 RPB12 interaction site [polypeptide binding]; other site 536232010754 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 536232010755 core dimer interface [polypeptide binding]; other site 536232010756 peripheral dimer interface [polypeptide binding]; other site 536232010757 L10 interface [polypeptide binding]; other site 536232010758 L11 interface [polypeptide binding]; other site 536232010759 putative EF-Tu interaction site [polypeptide binding]; other site 536232010760 putative EF-G interaction site [polypeptide binding]; other site 536232010761 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 536232010762 23S rRNA interface [nucleotide binding]; other site 536232010763 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 536232010764 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 536232010765 mRNA/rRNA interface [nucleotide binding]; other site 536232010766 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 536232010767 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 536232010768 23S rRNA interface [nucleotide binding]; other site 536232010769 L7/L12 interface [polypeptide binding]; other site 536232010770 putative thiostrepton binding site; other site 536232010771 L25 interface [polypeptide binding]; other site 536232010772 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 536232010773 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 536232010774 putative homodimer interface [polypeptide binding]; other site 536232010775 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 536232010776 heterodimer interface [polypeptide binding]; other site 536232010777 homodimer interface [polypeptide binding]; other site 536232010778 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 536232010779 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 536232010780 elongation factor Tu; Reviewed; Region: PRK00049 536232010781 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 536232010782 G1 box; other site 536232010783 GEF interaction site [polypeptide binding]; other site 536232010784 GTP/Mg2+ binding site [chemical binding]; other site 536232010785 Switch I region; other site 536232010786 G2 box; other site 536232010787 G3 box; other site 536232010788 Switch II region; other site 536232010789 G4 box; other site 536232010790 G5 box; other site 536232010791 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 536232010792 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 536232010793 Antibiotic Binding Site [chemical binding]; other site 536232010794 RNA polymerase factor sigma-70; Validated; Region: PRK08295 536232010795 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536232010796 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 536232010797 YacP-like NYN domain; Region: NYN_YacP; pfam05991 536232010798 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 536232010799 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 536232010800 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 536232010801 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 536232010802 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 536232010803 dimerization interface [polypeptide binding]; other site 536232010804 active site 536232010805 metal binding site [ion binding]; metal-binding site 536232010806 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 536232010807 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 536232010808 active site 536232010809 HIGH motif; other site 536232010810 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 536232010811 KMSKS motif; other site 536232010812 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 536232010813 tRNA binding surface [nucleotide binding]; other site 536232010814 anticodon binding site; other site 536232010815 threonine dehydratase; Provisional; Region: PRK08198 536232010816 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 536232010817 tetramer interface [polypeptide binding]; other site 536232010818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536232010819 catalytic residue [active] 536232010820 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 536232010821 prolyl-tRNA synthetase; Provisional; Region: PRK09194 536232010822 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 536232010823 motif 1; other site 536232010824 dimer interface [polypeptide binding]; other site 536232010825 active site 536232010826 motif 2; other site 536232010827 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 536232010828 putative deacylase active site [active] 536232010829 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 536232010830 anticodon binding site; other site 536232010831 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 536232010832 substrate binding site; other site 536232010833 dimer interface; other site 536232010834 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 536232010835 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 536232010836 putative active site [active] 536232010837 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 536232010838 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 536232010839 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 536232010840 DNA repair protein RadA; Provisional; Region: PRK11823 536232010841 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 536232010842 Walker A motif/ATP binding site; other site 536232010843 ATP binding site [chemical binding]; other site 536232010844 Walker B motif; other site 536232010845 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 536232010846 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 536232010847 Clp amino terminal domain; Region: Clp_N; pfam02861 536232010848 Clp amino terminal domain; Region: Clp_N; pfam02861 536232010849 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 536232010850 Walker A motif; other site 536232010851 ATP binding site [chemical binding]; other site 536232010852 Walker B motif; other site 536232010853 arginine finger; other site 536232010854 UvrB/uvrC motif; Region: UVR; pfam02151 536232010855 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 536232010856 Walker A motif; other site 536232010857 ATP binding site [chemical binding]; other site 536232010858 Walker B motif; other site 536232010859 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536232010860 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 536232010861 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 536232010862 ADP binding site [chemical binding]; other site 536232010863 phosphagen binding site; other site 536232010864 substrate specificity loop; other site 536232010865 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 536232010866 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 536232010867 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 536232010868 elongation factor G; Reviewed; Region: PRK12740 536232010869 G1 box; other site 536232010870 putative GEF interaction site [polypeptide binding]; other site 536232010871 GTP/Mg2+ binding site [chemical binding]; other site 536232010872 Switch I region; other site 536232010873 G2 box; other site 536232010874 G3 box; other site 536232010875 Switch II region; other site 536232010876 G4 box; other site 536232010877 G5 box; other site 536232010878 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 536232010879 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 536232010880 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 536232010881 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 536232010882 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 536232010883 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 536232010884 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 536232010885 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536232010886 Quinolinate phosphoribosyl transferase, C-terminal domain; Region: QRPTase_C; pfam01729 536232010887 glycyl-tRNA synthetase; Provisional; Region: PRK04173 536232010888 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 536232010889 motif 1; other site 536232010890 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 536232010891 active site 536232010892 motif 2; other site 536232010893 motif 3; other site 536232010894 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 536232010895 anticodon binding site; other site 536232010896 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 536232010897 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 536232010898 dimer interface [polypeptide binding]; other site 536232010899 putative anticodon binding site; other site 536232010900 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 536232010901 motif 1; other site 536232010902 active site 536232010903 motif 2; other site 536232010904 motif 3; other site 536232010905 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 536232010906 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 536232010907 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 536232010908 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 536232010909 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 536232010910 FMN binding site [chemical binding]; other site 536232010911 active site 536232010912 catalytic residues [active] 536232010913 substrate binding site [chemical binding]; other site 536232010914 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536232010915 nucleotide binding site [chemical binding]; other site 536232010916 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 536232010917 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 536232010918 Potassium binding sites [ion binding]; other site 536232010919 Cesium cation binding sites [ion binding]; other site 536232010920 FtsH Extracellular; Region: FtsH_ext; pfam06480 536232010921 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 536232010922 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 536232010923 Walker A motif; other site 536232010924 ATP binding site [chemical binding]; other site 536232010925 Walker B motif; other site 536232010926 arginine finger; other site 536232010927 Peptidase family M41; Region: Peptidase_M41; pfam01434 536232010928 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232010929 active site 536232010930 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 536232010931 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 536232010932 Ligand Binding Site [chemical binding]; other site 536232010933 TilS substrate C-terminal domain; Region: TilS_C; smart00977 536232010934 stage II sporulation protein E; Region: spore_II_E; TIGR02865 536232010935 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 536232010936 hypothetical protein; Provisional; Region: PRK05807 536232010937 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 536232010938 RNA binding site [nucleotide binding]; other site 536232010939 Septum formation initiator; Region: DivIC; pfam04977 536232010940 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 536232010941 sporulation protein YabP; Region: spore_yabP; TIGR02892 536232010942 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 536232010943 RNA binding surface [nucleotide binding]; other site 536232010944 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 536232010945 IHF dimer interface [polypeptide binding]; other site 536232010946 IHF - DNA interface [nucleotide binding]; other site 536232010947 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 536232010948 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 536232010949 putative SAM binding site [chemical binding]; other site 536232010950 putative homodimer interface [polypeptide binding]; other site 536232010951 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 536232010952 homodimer interface [polypeptide binding]; other site 536232010953 metal binding site [ion binding]; metal-binding site 536232010954 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 536232010955 homodimer interface [polypeptide binding]; other site 536232010956 active site 536232010957 putative chemical substrate binding site [chemical binding]; other site 536232010958 metal binding site [ion binding]; metal-binding site 536232010959 stage V sporulation protein B; Region: spore_V_B; TIGR02900 536232010960 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 536232010961 stage V sporulation protein T; Region: spore_V_T; TIGR02851 536232010962 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 536232010963 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 536232010964 SurA N-terminal domain; Region: SurA_N_3; cl07813 536232010965 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 536232010966 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 536232010967 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 536232010968 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 536232010969 ATP binding site [chemical binding]; other site 536232010970 putative Mg++ binding site [ion binding]; other site 536232010971 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 536232010972 nucleotide binding region [chemical binding]; other site 536232010973 ATP-binding site [chemical binding]; other site 536232010974 TRCF domain; Region: TRCF; pfam03461 536232010975 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 536232010976 putative active site [active] 536232010977 catalytic residue [active] 536232010978 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 536232010979 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 536232010980 protein binding site [polypeptide binding]; other site 536232010981 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536232010982 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 536232010983 dimerization interface [polypeptide binding]; other site 536232010984 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 536232010985 dimer interface [polypeptide binding]; other site 536232010986 phosphorylation site [posttranslational modification] 536232010987 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 536232010988 ATP binding site [chemical binding]; other site 536232010989 Mg2+ binding site [ion binding]; other site 536232010990 G-X-G motif; other site 536232010991 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536232010992 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 536232010993 active site 536232010994 phosphorylation site [posttranslational modification] 536232010995 intermolecular recognition site; other site 536232010996 dimerization interface [polypeptide binding]; other site 536232010997 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 536232010998 DNA binding site [nucleotide binding] 536232010999 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 536232011000 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 536232011001 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232011002 active site 536232011003 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 536232011004 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 536232011005 Substrate binding site; other site 536232011006 Mg++ binding site; other site 536232011007 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 536232011008 active site 536232011009 substrate binding site [chemical binding]; other site 536232011010 CoA binding site [chemical binding]; other site 536232011011 regulatory protein SpoVG; Reviewed; Region: PRK13259 536232011012 pur operon repressor; Provisional; Region: PRK09213 536232011013 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 536232011014 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536232011015 active site 536232011016 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 536232011017 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536232011018 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536232011019 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536232011020 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 536232011021 4Fe-4S binding domain; Region: Fer4; pfam00037 536232011022 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 536232011023 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 536232011024 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 536232011025 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 536232011026 motif II; other site 536232011027 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 536232011028 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 536232011029 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 536232011030 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 536232011031 FeS/SAM binding site; other site 536232011032 Uncharacterized membrane protein [Function unknown]; Region: COG3949 536232011033 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 536232011034 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 536232011035 FeS/SAM binding site; other site 536232011036 Heme NO binding; Region: HNOB; pfam07700 536232011037 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536232011038 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536232011039 dimer interface [polypeptide binding]; other site 536232011040 putative CheW interface [polypeptide binding]; other site 536232011041 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 536232011042 non-specific DNA binding site [nucleotide binding]; other site 536232011043 salt bridge; other site 536232011044 sequence-specific DNA binding site [nucleotide binding]; other site 536232011045 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 536232011046 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 536232011047 active site 536232011048 glutamate racemase; Provisional; Region: PRK00865 536232011049 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 536232011050 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 536232011051 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 536232011052 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 536232011053 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 536232011054 hinge; other site 536232011055 active site 536232011056 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 536232011057 Sporulation and spore germination; Region: Germane; pfam10646 536232011058 hypothetical protein; Provisional; Region: PRK05590 536232011059 SEC-C motif; Region: SEC-C; pfam02810 536232011060 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 536232011061 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 536232011062 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536232011063 putative substrate translocation pore; other site 536232011064 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536232011065 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536232011066 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536232011067 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 536232011068 DNA-binding interface [nucleotide binding]; DNA binding site 536232011069 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232011070 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536232011071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536232011072 methionine aminopeptidase; Provisional; Region: PRK12318 536232011073 SEC-C motif; Region: SEC-C; pfam02810 536232011074 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 536232011075 active site 536232011076 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 536232011077 putative FMN binding site [chemical binding]; other site 536232011078 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 536232011079 Pyruvate formate lyase; Region: PFL; pfam02901 536232011080 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 536232011081 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 536232011082 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 536232011083 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 536232011084 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 536232011085 FeS/SAM binding site; other site 536232011086 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 536232011087 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 536232011088 FeS/SAM binding site; other site 536232011089 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 536232011090 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 536232011091 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 536232011092 G1 box; other site 536232011093 GTP/Mg2+ binding site [chemical binding]; other site 536232011094 Switch I region; other site 536232011095 G2 box; other site 536232011096 Switch II region; other site 536232011097 G3 box; other site 536232011098 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 536232011099 Na binding site [ion binding]; other site 536232011100 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 536232011101 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536232011102 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 536232011103 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 536232011104 active site 536232011105 PHP-associated; Region: PHP_C; pfam13263 536232011106 dUTPase; Region: dUTPase_2; pfam08761 536232011107 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 536232011108 active site 536232011109 homodimer interface [polypeptide binding]; other site 536232011110 metal binding site [ion binding]; metal-binding site 536232011111 Protein of unknown function, DUF606; Region: DUF606; pfam04657 536232011112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536232011113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536232011114 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 536232011115 dimerization interface [polypeptide binding]; other site 536232011116 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 536232011117 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 536232011118 active site 536232011119 catalytic residues [active] 536232011120 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 536232011121 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536232011122 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 536232011123 putative dimerization interface [polypeptide binding]; other site 536232011124 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 536232011125 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 536232011126 putative ligand binding site [chemical binding]; other site 536232011127 NAD binding site [chemical binding]; other site 536232011128 catalytic site [active] 536232011129 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 536232011130 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 536232011131 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 536232011132 biotin carboxylase; Validated; Region: PRK05586 536232011133 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536232011134 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 536232011135 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 536232011136 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 536232011137 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 536232011138 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 536232011139 carboxyltransferase (CT) interaction site; other site 536232011140 biotinylation site [posttranslational modification]; other site 536232011141 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 536232011142 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 536232011143 dimer interface [polypeptide binding]; other site 536232011144 active site 536232011145 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 536232011146 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 536232011147 NAD(P) binding site [chemical binding]; other site 536232011148 homotetramer interface [polypeptide binding]; other site 536232011149 homodimer interface [polypeptide binding]; other site 536232011150 active site 536232011151 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 536232011152 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 536232011153 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 536232011154 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 536232011155 FMN binding site [chemical binding]; other site 536232011156 substrate binding site [chemical binding]; other site 536232011157 putative catalytic residue [active] 536232011158 acyl carrier protein; Provisional; Region: acpP; PRK00982 536232011159 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 536232011160 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 536232011161 dimer interface [polypeptide binding]; other site 536232011162 active site 536232011163 CoA binding pocket [chemical binding]; other site 536232011164 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536232011165 MarR family; Region: MarR_2; pfam12802 536232011166 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 536232011167 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 536232011168 FMN binding site [chemical binding]; other site 536232011169 substrate binding site [chemical binding]; other site 536232011170 putative catalytic residue [active] 536232011171 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 536232011172 Peptidase family M23; Region: Peptidase_M23; pfam01551 536232011173 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 536232011174 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 536232011175 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 536232011176 DNA replication protein DnaC; Validated; Region: PRK06835 536232011177 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 536232011178 Walker A motif; other site 536232011179 ATP binding site [chemical binding]; other site 536232011180 PEP synthetase regulatory protein; Provisional; Region: PRK05339 536232011181 CoA binding domain; Region: CoA_binding_2; pfam13380 536232011182 flavoprotein, HI0933 family; Region: TIGR00275 536232011183 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 536232011184 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 536232011185 active site 536232011186 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 536232011187 active site 536232011188 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 536232011189 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 536232011190 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 536232011191 GDP-binding site [chemical binding]; other site 536232011192 ACT binding site; other site 536232011193 IMP binding site; other site 536232011194 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 536232011195 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536232011196 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 536232011197 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 536232011198 active site 536232011199 substrate binding site [chemical binding]; other site 536232011200 metal binding site [ion binding]; metal-binding site 536232011201 replicative DNA helicase; Provisional; Region: PRK05595 536232011202 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 536232011203 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 536232011204 Walker A motif; other site 536232011205 ATP binding site [chemical binding]; other site 536232011206 Walker B motif; other site 536232011207 DNA binding loops [nucleotide binding] 536232011208 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 536232011209 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 536232011210 Walker A motif; other site 536232011211 ATP binding site [chemical binding]; other site 536232011212 Walker B motif; other site 536232011213 arginine finger; other site 536232011214 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 536232011215 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 536232011216 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 536232011217 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 536232011218 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 536232011219 DHH family; Region: DHH; pfam01368 536232011220 DHHA1 domain; Region: DHHA1; pfam02272 536232011221 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 536232011222 MazG-like family; Region: MazG-like; pfam12643 536232011223 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 536232011224 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 536232011225 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 536232011226 dimer interface [polypeptide binding]; other site 536232011227 ssDNA binding site [nucleotide binding]; other site 536232011228 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536232011229 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 536232011230 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 536232011231 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 536232011232 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 536232011233 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 536232011234 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536232011235 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 536232011236 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 536232011237 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 536232011238 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536232011239 catalytic residue [active] 536232011240 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 536232011241 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 536232011242 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 536232011243 ParB-like nuclease domain; Region: ParB; smart00470 536232011244 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 536232011245 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 536232011246 P-loop; other site 536232011247 Magnesium ion binding site [ion binding]; other site 536232011248 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 536232011249 Magnesium ion binding site [ion binding]; other site 536232011250 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 536232011251 ParB-like nuclease domain; Region: ParBc; pfam02195 536232011252 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 536232011253 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 536232011254 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 536232011255 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 536232011256 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 536232011257 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 536232011258 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 536232011259 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 536232011260 trmE is a tRNA modification GTPase; Region: trmE; cd04164 536232011261 G1 box; other site 536232011262 GTP/Mg2+ binding site [chemical binding]; other site 536232011263 Switch I region; other site 536232011264 G2 box; other site 536232011265 Switch II region; other site 536232011266 G3 box; other site 536232011267 G4 box; other site 536232011268 G5 box; other site 536232011269 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 536232011270 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 536232011271 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 536232011272 G-X-X-G motif; other site 536232011273 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 536232011274 RxxxH motif; other site 536232011275 putative inner membrane protein translocase component YidC; Provisional; Region: PRK00145 536232011276 Haemolytic domain; Region: Haemolytic; pfam01809 536232011277 ribonuclease P; Reviewed; Region: rnpA; PRK00499 536232011278 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399