-- dump date 20111121_013554 -- class Genbank::misc_feature -- table misc_feature_note -- id note 105559000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 105559000002 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...; Region: AAA; cd00009 105559000003 Walker A motif; other site 105559000004 ATP binding site; other site 105559000005 Walker B motif; other site 105559000006 arginine finger; other site 105559000007 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 105559000008 DnaA box-binding interface; other site 105559000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 105559000010 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...; Region: beta_clamp; cd00140 105559000011 putative DNA binding surface; other site 105559000012 dimer interface; other site 105559000013 beta-clamp/clamp loader binding surface; other site 105559000014 beta-clamp/translesion DNA polymerase binding surface; other site 105559000015 Integrase core domain; Region: rve; cl01316 105559000016 Transposase; Region: Transposase_14; pfam01710 105559000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559000018 Walker A/P-loop; other site 105559000019 ATP binding site; other site 105559000020 Q-loop/lid; other site 105559000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559000022 ABC transporter signature motif; other site 105559000023 Walker B; other site 105559000024 D-loop; other site 105559000025 H-loop/switch region; other site 105559000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 105559000027 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 105559000028 ATP binding site; other site 105559000029 Mg2+ binding site; other site 105559000030 G-X-G motif; other site 105559000031 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 105559000032 anchoring element; other site 105559000033 dimer interface; other site 105559000034 ATP binding site; other site 105559000035 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 105559000036 active site 105559000037 putative metal-binding site; other site 105559000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 105559000039 Protein of unknown function (DUF556); Region: DUF556; cl00822 105559000040 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 105559000041 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 105559000042 putative C-terminal domain interface; other site 105559000043 putative GSH binding site (G-site); other site 105559000044 putative dimer interface; other site 105559000045 GST_C family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_C_GTT2_like; cd03182 105559000046 putative N-terminal domain interface; other site 105559000047 putative dimer interface; other site 105559000048 putative substrate binding pocket (H-site); other site 105559000049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 105559000050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 105559000051 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1,7-...; Region: FBPase; cd00354 105559000052 AMP binding site; other site 105559000053 metal-binding site 105559000054 active site 105559000055 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 105559000056 domain_subunit interface; other site 105559000057 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 105559000058 lobe; Region: FTR; pfam01913 105559000059 FTR, proximal lobe; Region: FTR_C; pfam02741 105559000060 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 105559000061 Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in...; Region: FMDH_A; cd01304 105559000062 active site 105559000063 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 105559000064 The MopB_FmdB-FwdB CD contains the molybdenum/tungsten formylmethanofuran dehydrogenases, subunit B (FmdB/FwdB), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea...; Region: MopB_FmdB-FwdB; cd02761 105559000065 putative [4Fe-4S] binding site; other site 105559000066 putative molybdopterin cofactor binding site; other site 105559000067 Sporulation related domain; Region: SPOR; cl10051 105559000068 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 105559000069 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 105559000070 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559000071 HIGH motif; other site 105559000072 active site 105559000073 nucleotide binding site; other site 105559000074 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 105559000075 KMSK motif region; other site 105559000076 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 105559000077 tRNA binding surface; other site 105559000078 anticodon binding site; other site 105559000079 primosome assembly protein PriA; Validated; Region: PRK05580 105559000080 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 105559000081 ATP binding site; other site 105559000082 putative Mg++ binding site; other site 105559000083 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; cl12029 105559000084 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 105559000085 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 105559000086 conserved cys residue; other site 105559000087 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 105559000088 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 105559000089 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 105559000090 protein binding site; other site 105559000091 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 105559000092 Catalytic dyad; other site 105559000093 Sulfatase; Region: Sulfatase; cl10460 105559000094 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 105559000095 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 105559000096 active site residue 105559000097 ribonuclease E; Reviewed; Region: rne; PRK10811 105559000098 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 105559000099 GSH binding site; other site 105559000100 catalytic residues; other site 105559000101 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 105559000102 SecA binding site; other site 105559000103 Preprotein binding site; other site 105559000104 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 105559000105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000106 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 105559000107 Uncharacterized conserved protein [Function unknown]; Region: COG1565 105559000108 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 105559000109 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 105559000110 catalytic center binding site; other site 105559000111 ATP binding site; other site 105559000112 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 105559000113 homooctamer interface; other site 105559000114 active site 105559000115 Domain of unknown function (DUF205); Region: DUF205; cl00410 105559000116 putative DNA-binding/iron metalloprotein/AP endonuclease; Reviewed; Region: PRK09604 105559000117 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 105559000118 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 105559000119 GatB domain; Region: GatB_Yqey; cl11497 105559000120 DNA primase; Validated; Region: dnaG; PRK05667 105559000121 CHC2 zinc finger; Region: zf-CHC2; cl02597 105559000122 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 105559000123 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 105559000124 active site 105559000125 metal-binding site 105559000126 interdomain interaction site; other site 105559000127 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 105559000128 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 105559000129 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 105559000130 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 105559000131 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 105559000132 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 105559000133 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559000134 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 105559000135 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...; Region: Sigma70_r4; cd06171 105559000136 DNA binding residues 105559000137 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 105559000138 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 105559000139 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 105559000140 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 105559000141 ATP binding site; other site 105559000142 Mg2+ binding site; other site 105559000143 G-X-G motif; other site 105559000144 PIN domain; Region: PIN; cl09128 105559000145 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 105559000146 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 105559000147 ATP binding site; other site 105559000148 putative Mg++ binding site; other site 105559000149 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 105559000150 nucleotide binding region; other site 105559000151 ATP-binding site; other site 105559000152 PglZ domain; Region: PglZ; pfam08665 105559000153 Replication initiator protein A; Region: RPA; cl02339 105559000154 C4-dicarboxylate transporter/malic acid transport protein; Region: C4dic_mal_tran; cl04176 105559000155 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 105559000156 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 105559000157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559000158 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559000159 ABC transporter signature motif; other site 105559000160 Walker B; other site 105559000161 D-loop; other site 105559000162 H-loop/switch region; other site 105559000163 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 105559000164 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 105559000165 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 105559000166 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 105559000167 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 105559000168 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 105559000169 Alkyladenine DNA glycosylase (AAG), also known as 3-methyladenine DNA glycosylase, catalyzes the first step in base excision repair (BER) by cleaving damaged DNA bases within double-stranded DNA to produce an abasic site. AAG bends DNA by intercalating...; Region: AAG; cd00540 105559000170 active site 105559000171 Active site - hydrogen bonding network; active site 105559000172 Glycosylase - DNA interaction site; other site 105559000173 Active site - substrate stacking residues; active site 105559000174 Active site - intercalating residue; active site 105559000175 integron integrase; Region: integrase_gron; TIGR02249 105559000176 DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and a secondary target called the attC (or 59-base element)...; Region: INT_IntI; cd01193 105559000177 Int/Topo IB signature motif; other site 105559000178 Protein of unknown function (DUF3532); Region: DUF3532; pfam12050 105559000179 FAD binding domain; Region: FAD_binding_3; pfam01494 105559000180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000181 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559000182 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 105559000183 YcfA-like protein; Region: YcfA; cl00752 105559000184 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 105559000185 Protein of unknown function (DUF2283); Region: DUF2283; cl02251 105559000186 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_6; cd07242 105559000187 putative dimer interface; other site 105559000188 ligand binding site; other site 105559000189 Zn binding site; other site 105559000190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 105559000191 glycogen synthase; Provisional; Region: glgA; PRK00654 105559000192 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 105559000193 ADP-binding pocket; other site 105559000194 homodimer interface; other site 105559000195 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-...; Region: CBS_pair_27; cd04640 105559000196 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 105559000197 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 105559000198 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 105559000199 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 105559000200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000203 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559000204 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 105559000205 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 105559000206 TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 105559000207 TPP-binding site; other site 105559000208 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 105559000209 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 105559000210 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 105559000211 E3 interaction surface; other site 105559000212 lipoyl attachment site; other site 105559000213 e3 binding domain; Region: E3_binding; pfam02817 105559000214 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 105559000215 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 105559000216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000218 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 105559000219 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 105559000220 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 105559000221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559000222 Walker A/P-loop; other site 105559000223 ATP binding site; other site 105559000224 Q-loop/lid; other site 105559000225 ABC transporter signature motif; other site 105559000226 Walker B; other site 105559000227 D-loop; other site 105559000228 H-loop/switch region; other site 105559000229 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 105559000230 Domain of unknown function DUF21; Region: DUF21; pfam01595 105559000231 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 105559000232 Transporter associated domain; Region: CorC_HlyC; pfam03471 105559000233 Domain of unknown function DUF21; Region: DUF21; pfam01595 105559000234 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 105559000235 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 105559000236 Transporter associated domain; Region: CorC_HlyC; pfam03471 105559000237 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 105559000238 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 105559000239 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 105559000240 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 105559000241 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 105559000242 putative substrate translocation pore; other site 105559000243 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 105559000244 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 two-...; Region: SirA_YedF_YeeD; cl00436 105559000245 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 105559000246 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 105559000247 inhibitor-cofactor binding pocket; inhibition site 105559000248 pyridoxal 5'-phosphate binding site; other site 105559000249 catalytic residue; other site 105559000250 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 105559000251 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 105559000252 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 105559000253 CheB methylesterase; Region: CheB_methylest; pfam01339 105559000254 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 105559000255 putative binding surface; other site 105559000256 active site 105559000257 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 105559000258 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 105559000259 putative binding surface; other site 105559000260 active site 105559000261 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 105559000262 putative binding surface; other site 105559000263 active site 105559000264 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 105559000265 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 105559000266 ATP binding site; other site 105559000267 Mg2+ binding site; other site 105559000268 G-X-G motif; other site 105559000269 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 105559000270 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 105559000271 active site 105559000272 phosphorylation site 105559000273 intermolecular recognition site; other site 105559000274 dimerization interface; other site 105559000275 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 105559000276 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 105559000277 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 105559000278 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 105559000279 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 105559000280 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 105559000281 active site 105559000282 phosphorylation site 105559000283 intermolecular recognition site; other site 105559000284 dimerization interface; other site 105559000285 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 105559000286 active site 105559000287 phosphorylation site 105559000288 intermolecular recognition site; other site 105559000289 dimerization interface; other site 105559000290 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cd00882 105559000291 G1 box; other site 105559000292 GTP/Mg2+ binding site; other site 105559000293 G2 box; other site 105559000294 Switch I region; other site 105559000295 G3 box; other site 105559000296 Switch II region; other site 105559000297 G4 box; other site 105559000298 G5 box; other site 105559000299 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 105559000300 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 105559000301 metal binding triad; other site 105559000302 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 105559000303 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 105559000304 metal binding triad; other site 105559000305 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 alpha-...; Region: BCAT_beta_family; cd01557 105559000306 homodimer interface; other site 105559000307 substrate-cofactor binding pocket; other site 105559000308 Aminotransferase class IV; Region: Aminotran_4; pfam01063 105559000309 catalytic residue; other site 105559000310 Domain of unknown function DUF28; Region: DUF28; cl00361 105559000311 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 105559000312 active site 105559000313 putative DNA-binding cleft; other site 105559000314 dimer interface; other site 105559000315 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 105559000316 RuvA N terminal domain; Region: RuvA_N; pfam01330 105559000317 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 105559000318 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 105559000319 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...; Region: AAA; cd00009 105559000320 Walker A motif; other site 105559000321 ATP binding site; other site 105559000322 Walker B motif; other site 105559000323 arginine finger; other site 105559000324 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 105559000325 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...; Region: 4HBT; cd00586 105559000326 active site 105559000327 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 105559000328 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 105559000329 Gram-negative bacterial tonB protein; Region: TonB; cl10048 105559000330 translocation protein TolB; Provisional; Region: tolB; PRK04922 105559000331 TolB amino-terminal domain; Region: TolB_N; pfam04052 105559000332 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 105559000333 structural tetrad; other site 105559000334 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559000335 ligand binding site; other site 105559000336 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 105559000337 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 105559000338 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 105559000339 binding surface 105559000340 TPR motif; other site 105559000341 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 105559000342 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 105559000343 FeS/SAM binding site; other site 105559000344 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 105559000345 Ligand Binding Site; other site 105559000346 Outer membrane efflux protein; Region: OEP; pfam02321 105559000347 Outer membrane efflux protein; Region: OEP; pfam02321 105559000348 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559000349 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 105559000350 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 105559000351 Predicted flavoproteins [General function prediction only]; Region: COG2081 105559000352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000353 Haemolysin-III related; Region: HlyIII; cl03831 105559000354 Spondin_N; Region: Spond_N; pfam06468 105559000355 CHRD domain; Region: CHRD; cl06473 105559000356 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 105559000357 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 105559000358 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 105559000359 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_1; cd06251 105559000360 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 105559000361 putative active site; other site 105559000362 Zn-binding site; other site 105559000363 Uncharacterized conserved protein [Function unknown]; Region: COG5361 105559000364 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 105559000365 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 105559000366 Uncharacterized conserved protein [Function unknown]; Region: COG5361 105559000367 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 105559000368 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 105559000369 Bacterial membrane flanked domain; Region: DUF304; cl01348 105559000370 Cytochrome c; Region: Cytochrom_C; cl11414 105559000371 Iron permease FTR1 family; Region: FTR1; cl00475 105559000372 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 105559000373 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 105559000374 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 105559000375 DNA gyrase subunit A; Validated; Region: PRK05560 105559000376 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 105559000377 CAP-like domain; other site 105559000378 active site 105559000379 primary dimer interface; other site 105559000380 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000381 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000382 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000383 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000384 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000385 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000386 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active...; Region: PSAT_like; cd00611 105559000387 homodimer interface; other site 105559000388 substrate-cofactor binding pocket; other site 105559000389 pyridoxal 5'-phosphate binding site; other site 105559000390 catalytic residue; other site 105559000391 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 105559000392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000393 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 105559000394 L-serine binding site; other site 105559000395 ACT domain interface; other site 105559000396 Chorismate mutase type II; Region: CM_2; cl00693 105559000397 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 105559000398 Prephenate dehydratase; Region: PDT; pfam00800 105559000399 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 105559000400 putative L-Phe binding site; other site 105559000401 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 105559000402 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 105559000403 pyridoxal 5'-phosphate binding site; other site 105559000404 homodimer interface; other site 105559000405 catalytic residue; other site 105559000406 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 105559000407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000408 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 105559000409 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 105559000410 hinge; other site 105559000411 active site 105559000412 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 105559000413 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 105559000414 motif II; other site 105559000415 cytidylate kinase; Provisional; Region: cmk; PRK00023 105559000416 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 105559000417 CMP-binding site; other site 105559000418 The sites determining sugar specificity; other site 105559000419 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 105559000420 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 105559000421 RNA binding site; other site 105559000422 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 105559000423 RNA binding site; other site 105559000424 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 105559000425 RNA binding site; other site 105559000426 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 105559000427 RNA binding site; other site 105559000428 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 105559000429 RNA binding site; other site 105559000430 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 105559000431 RNA binding site; other site 105559000432 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 higher-...; Region: HU_IHF; cd00591 105559000433 IHF dimer interface; other site 105559000434 IHF - DNA interface; other site 105559000435 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome...; Region: Xcc1710_like; cd05560 105559000436 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 105559000437 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 105559000438 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559000439 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 105559000440 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...; Region: Sigma70_r4; cd06171 105559000441 DNA binding residues 105559000442 Ferredoxin [Energy production and conversion]; Region: COG1146 105559000443 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 105559000444 tetratricopeptide repeat protein; Provisional; Region: PRK11788 105559000445 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 105559000446 binding surface 105559000447 TPR motif; other site 105559000448 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 105559000449 catalytic residues; other site 105559000450 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 105559000451 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 105559000452 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 105559000453 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 105559000454 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 105559000455 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 105559000456 Domain of unknown function DUF20; Region: UPF0118; cl00465 105559000457 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 105559000458 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...; Region: TST_Repeat_1; cd01448 105559000459 active site residue 105559000460 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 105559000461 active site residue 105559000462 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional; Region: PRK11148 105559000463 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 105559000464 active site 105559000465 metal-binding site 105559000466 hexamer interface; other site 105559000467 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_39; cd04699 105559000468 nudix motif; other site 105559000469 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 105559000470 HsdM N-terminal domain; Region: HsdM_N; pfam12161 105559000471 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 105559000472 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 105559000473 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 105559000474 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 105559000475 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 105559000476 ATP binding site; other site 105559000477 putative Mg++ binding site; other site 105559000478 Peptidase family M54; Region: Peptidase_M54; cl00835 105559000479 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 105559000480 Urea transporter; Region: UT; cl01829 105559000481 UreD urease accessory protein; Region: UreD; cl00530 105559000482 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 105559000483 alpha-gamma subunit interface; other site 105559000484 beta-gamma subunit interface; other site 105559000485 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_beta; cd00407 105559000486 gamma-beta subunit interface; other site 105559000487 alpha-beta subunit interface; other site 105559000488 urease subunit alpha; Reviewed; Region: ureC; PRK13207 105559000489 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 105559000490 subunit interactions; other site 105559000491 active site 105559000492 flap region; other site 105559000493 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The C-...; Region: UreE; cd00571 105559000494 dimer interface; other site 105559000495 catalytic residues; other site 105559000496 UreF; Region: UreF; cl00531 105559000497 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 105559000498 HupE / UreJ protein; Region: HupE_UreJ; cl01011 105559000499 Cation efflux family; Region: Cation_efflux; cl00316 105559000500 cell division protein MraZ; Reviewed; Region: PRK00326 105559000501 MraZ protein; Region: MraZ; pfam02381 105559000502 MraZ protein; Region: MraZ; pfam02381 105559000503 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 105559000504 Septum formation initiator; Region: DivIC; cl11433 105559000505 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 105559000506 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 105559000507 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 105559000508 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 105559000509 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 105559000510 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559000511 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559000512 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 105559000513 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 105559000514 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559000515 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559000516 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 105559000517 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 105559000518 Mg++ binding site; other site 105559000519 putative catalytic motif; other site 105559000520 putative substrate binding site; other site 105559000521 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 105559000522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559000523 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559000524 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 105559000525 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 105559000526 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...; Region: GT1_MurG; cd03785 105559000527 active site 105559000528 homodimer interface; other site 105559000529 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 105559000530 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 105559000531 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559000532 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559000533 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 105559000534 FAD binding domain; Region: FAD_binding_4; cl10516 105559000535 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 105559000536 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 105559000537 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 105559000538 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559000539 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 105559000540 Cell division protein FtsQ; Region: FtsQ; pfam03799 105559000541 cell division protein FtsA; Region: ftsA; TIGR01174 105559000542 Cell division protein FtsA; Region: FtsA; cl11496 105559000543 Cell division protein FtsA; Region: FtsA; cl11496 105559000544 cell division protein FtsZ; Validated; Region: PRK09330 105559000545 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...; Region: FtsZ_type1; cd02201 105559000546 nucleotide binding site; other site 105559000547 SulA interaction site; other site 105559000548 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 105559000549 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 105559000550 Protein of unknown function (DUF721); Region: DUF721; cl02324 105559000551 Peptidase family M23; Region: Peptidase_M23; pfam01551 105559000552 SecA DEAD-like domain; Region: SecA_DEAD; pfam07517 105559000553 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 105559000554 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 105559000555 nucleotide binding region; other site 105559000556 ATP-binding site; other site 105559000557 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 105559000558 hypothetical protein; Provisional; Region: PRK02250 105559000559 SEC-C motif; Region: SEC-C; cl12132 105559000560 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group...; Region: OAT; cd02152 105559000561 heterotetramer interface; other site 105559000562 active site pocket 105559000563 cleavage site 105559000564 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1)...; Region: Rieske; cd03467 105559000565 iron-sulfur cluster; other site 105559000566 [2Fe-2S] cluster binding site; other site 105559000567 Ketohexokinase (fructokinase, KHK) catalyzes the phosphorylation of fructose to fructose-1-phosphate (F1P), the first step in the metabolism of dietary fructose. KHK can also phosphorylate several other furanose sugars. It is found in higher...; Region: Ketohexokinase; cd01939 105559000568 substrate binding site; other site 105559000569 ATP binding site; other site 105559000570 adenylate kinase; Reviewed; Region: adk; PRK00279 105559000571 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 105559000572 AMP-binding site; other site 105559000573 ATP-AMP (Ap5A)-binding site; other site 105559000574 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 105559000575 6-phosphofructokinase; Provisional; Region: PRK03202 105559000576 active site 105559000577 ADP/pyrophosphate binding site; other site 105559000578 dimerization interface; other site 105559000579 allosteric effector site; other site 105559000580 fructose-1,6-bisphosphate binding site; other site 105559000581 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 105559000582 tandem repeat interface; other site 105559000583 oligomer interface; other site 105559000584 active site residues 105559000585 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 105559000586 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 105559000587 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 105559000588 active site 105559000589 ribonuclease E; Reviewed; Region: rne; PRK10811 105559000590 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 105559000591 homodimer interface; other site 105559000592 oligonucleotide binding site; other site 105559000593 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 105559000594 Low molecular weight phosphatase family; Region: LMWPc; cd00115 105559000595 active site 105559000596 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 105559000597 Ligand binding site; other site 105559000598 oligomer interface; other site 105559000599 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 105559000600 Nitroreductase-like family 2. 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_2; cd02138 105559000601 putative FMN binding site; other site 105559000602 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 105559000603 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 105559000604 23S rRNA interface; other site 105559000605 L3 interface; other site 105559000606 Bacitracin resistance protein BacA; Region: BacA; cl00858 105559000607 ABC-2 type transporter; Region: ABC2_membrane; cl11417 105559000608 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 105559000609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559000610 Walker A/P-loop; other site 105559000611 ATP binding site; other site 105559000612 Q-loop/lid; other site 105559000613 ABC transporter signature motif; other site 105559000614 Walker B; other site 105559000615 D-loop; other site 105559000616 H-loop/switch region; other site 105559000617 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex...; Region: MutH_Sau3AI; cd00583 105559000618 putative DNA-binding cleft; other site 105559000619 putative DNA clevage site; other site 105559000620 molecular lever; other site 105559000621 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 105559000622 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 105559000623 active site 105559000624 signature motif; other site 105559000625 ThiC family; Region: ThiC; cl08031 105559000626 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 105559000627 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 105559000628 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559000629 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 105559000630 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 105559000631 active site 105559000632 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 105559000633 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 105559000634 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 105559000635 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 105559000636 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 105559000637 heterodimer interface; other site 105559000638 active site 105559000639 FMN binding site; other site 105559000640 homodimer interface; other site 105559000641 substrate binding site; other site 105559000642 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 105559000643 Uncharacterized conserved protein [Function unknown]; Region: COG5590 105559000644 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 105559000645 Surface antigen; Region: Surface_Ag_2; cl01155 105559000646 Surface antigen; Region: Surface_Ag_2; cl01155 105559000647 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 105559000648 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 105559000649 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 105559000650 RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack...; Region: RnaseH; cd06222 105559000651 RNA/DNA hybrid binding site; other site 105559000652 active site 105559000653 Proteobacterial; Region: dnaQ_proteo; TIGR01406 105559000654 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 105559000655 active site 105559000656 substrate binding site; other site 105559000657 catalytic site; other site 105559000658 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 105559000659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559000660 HrcA protein C terminal domain; Region: HrcA; pfam01628 105559000661 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 105559000662 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 105559000663 dimer interface; other site 105559000664 hsp70 (ATPase domain) interactions; other site 105559000665 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 105559000666 chaperone protein DnaJ; Provisional; Region: PRK10767 105559000667 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...; Region: DnaJ; cd06257 105559000668 HSP70 interaction site; other site 105559000669 DnaJ C terminal region; Region: DnaJ_C; pfam01556 105559000670 dihydrodipicolinate reductase; Provisional; Region: PRK00048 105559000671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559000672 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 105559000673 transketolase; Reviewed; Region: PRK12753 105559000674 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 105559000675 TPP-binding site; other site 105559000676 dimer interface; other site 105559000677 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 105559000678 PYR/PP interface; other site 105559000679 dimer interface; other site 105559000680 TPP binding site; other site 105559000681 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 105559000682 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 105559000683 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 105559000684 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 105559000685 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 105559000686 substrate binding site; other site 105559000687 hinge regions; other site 105559000688 ADP binding site; other site 105559000689 catalytic site; other site 105559000690 pyruvate kinase; Provisional; Region: PRK05826 105559000691 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; cl10032 105559000692 domain interfaces; other site 105559000693 active site 105559000694 tagatose-bisphosphate aldolase; Reviewed; Region: gatY; PRK09195 105559000695 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...; Region: TBP_aldolase_IIB; cd00947 105559000696 intersubunit interface; other site 105559000697 active site 105559000698 zinc binding site; other site 105559000699 Na+ binding site; other site 105559000700 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128; cl11521 105559000701 malate dehydrogenase; Reviewed; Region: PRK06223 105559000702 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 105559000703 NAD(P) binding site; other site 105559000704 dimer interface; other site 105559000705 tetramer (dimer of dimers) interface; other site 105559000706 substrate binding site; other site 105559000707 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 105559000708 MgtE intracellular N domain; Region: MgtE_N; pfam03448 105559000709 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 105559000710 Divalent cation transporter; Region: MgtE; cl00786 105559000711 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 105559000712 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 105559000713 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 105559000714 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 105559000715 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 105559000716 dimerization domain swap beta strand; other site 105559000717 regulatory protein interface; other site 105559000718 active site 105559000719 regulatory phosphorylation site; other site 105559000720 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...; Region: PTS_IIA_man; cd00006 105559000721 active pocket/dimerization site; other site 105559000722 active site 105559000723 phosphorylation site 105559000724 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 105559000725 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-...; Region: HprK_C; cd01918 105559000726 Hpr binding site; other site 105559000727 active site 105559000728 homohexamer subunit interaction site; other site 105559000729 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 105559000730 active site 105559000731 phosphorylation site 105559000732 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 105559000733 30S subunit binding site; other site 105559000734 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 105559000735 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 105559000736 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 105559000737 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 105559000738 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 105559000739 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 105559000740 Walker A/P-loop; other site 105559000741 ATP binding site; other site 105559000742 Q-loop/lid; other site 105559000743 ABC transporter signature motif; other site 105559000744 Walker B; other site 105559000745 D-loop; other site 105559000746 H-loop/switch region; other site 105559000747 OstA-like protein; Region: OstA; cl00844 105559000748 Bacterial SH3 domain; Region: SH3_3; cl02551 105559000749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 105559000750 Protein of unknown function (DUF1239); Region: DUF1239; pfam06835 105559000751 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 105559000752 active site 105559000753 motif I; other site 105559000754 motif II; other site 105559000755 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 105559000756 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-...; Region: SIS_Kpsf; cd05014 105559000757 putative active site; other site 105559000758 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 105559000759 VacJ like lipoprotein; Region: VacJ; cl01073 105559000760 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 105559000761 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 105559000762 Walker A/P-loop; other site 105559000763 ATP binding site; other site 105559000764 Q-loop/lid; other site 105559000765 ABC transporter signature motif; other site 105559000766 Walker B; other site 105559000767 D-loop; other site 105559000768 H-loop/switch region; other site 105559000769 Domain of unknown function DUF140; Region: DUF140; cl00510 105559000770 mce related protein; Region: MCE; pfam02470 105559000771 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 105559000772 anti sigma factor interaction site; other site 105559000773 regulatory phosphorylation site; other site 105559000774 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 105559000775 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 105559000776 BolA-like protein; Region: BolA; cl00386 105559000777 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 105559000778 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 105559000779 hinge; other site 105559000780 active site 105559000781 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 105559000782 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 105559000783 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 105559000784 NAD binding site; other site 105559000785 dimerization interface; other site 105559000786 product binding site; other site 105559000787 substrate binding site; other site 105559000788 zinc binding site; other site 105559000789 catalytic residues; other site 105559000790 histidinol-phosphate aminotransferase; Validated; Region: PRK00950 105559000791 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 105559000792 pyridoxal 5'-phosphate binding site; other site 105559000793 homodimer interface; other site 105559000794 catalytic residue; other site 105559000795 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 105559000796 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 105559000797 Di-iron ligands; other site 105559000798 Predicted amidohydrolase [General function prediction only]; Region: COG0388 105559000799 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 105559000800 putative active site; other site 105559000801 catalytic triad; other site 105559000802 putative dimer interface; other site 105559000803 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 105559000804 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 105559000805 Walker A/P-loop; other site 105559000806 ATP binding site; other site 105559000807 Q-loop/lid; other site 105559000808 ABC transporter signature motif; other site 105559000809 Walker B; other site 105559000810 D-loop; other site 105559000811 H-loop/switch region; other site 105559000812 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 105559000813 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 105559000814 Walker A/P-loop; other site 105559000815 ATP binding site; other site 105559000816 Q-loop/lid; other site 105559000817 ABC transporter signature motif; other site 105559000818 Walker B; other site 105559000819 D-loop; other site 105559000820 H-loop/switch region; other site 105559000821 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 105559000822 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559000823 putative PBP binding loops; other site 105559000824 dimer interface; other site 105559000825 ABC-ATPase subunit interface; other site 105559000826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 105559000827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559000828 ABC-ATPase subunit interface; other site 105559000829 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 105559000830 peptide binding site; other site 105559000831 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 105559000832 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 105559000833 pyridoxal 5'-phosphate binding pocket; other site 105559000834 catalytic residue; other site 105559000835 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 105559000836 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 105559000837 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 105559000838 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 105559000839 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 105559000840 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...; Region: metallo-dependent_hydrolases; cl00281 105559000841 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559000842 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...; Region: AAA; cd00009 105559000843 Walker A motif; other site 105559000844 ATP binding site; other site 105559000845 Walker B motif; other site 105559000846 arginine finger; other site 105559000847 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 105559000848 RNA/DNA binding site; other site 105559000849 RRM dimerization site; other site 105559000850 Kelch motif; Region: Kelch_1; cl02701 105559000851 Kelch motif; Region: Kelch_1; cl02701 105559000852 Kelch motif; Region: Kelch_1; cl02701 105559000853 Kelch motif; Region: Kelch_1; cl02701 105559000854 Kelch motif; Region: Kelch_1; cl02701 105559000855 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 105559000856 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 105559000857 dimerization interface; other site 105559000858 active site 105559000859 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cd00209 105559000860 folate binding site; other site 105559000861 NADP+ binding site; other site 105559000862 DNA repair protein RadC; Reviewed; Region: radC; PRK00024 105559000863 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 105559000864 MPN+ (JAMM) motif; other site 105559000865 Zinc-binding site; other site 105559000866 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 105559000867 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 105559000868 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 105559000869 FeS/SAM binding site; other site 105559000870 TRAM domain; Region: TRAM; cl01282 105559000871 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 105559000872 PhoH-like protein; Region: PhoH; cl12134 105559000873 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 105559000874 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 105559000875 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 105559000876 Transporter associated domain; Region: CorC_HlyC; pfam03471 105559000877 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 105559000878 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 105559000879 putative active site; other site 105559000880 catalytic triad; other site 105559000881 putative dimer interface; other site 105559000882 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 105559000883 Cation transport protein; Region: TrkH; cl10514 105559000884 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 105559000885 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 105559000886 Malic enzyme, N-terminal domain; Region: malic; pfam00390 105559000887 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 105559000888 putative NAD(P) binding site; other site 105559000889 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 105559000890 Transglycosylase; Region: Transgly; cl07896 105559000891 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 105559000892 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 105559000893 Cell division protein FtsA; Region: FtsA; cl11496 105559000894 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 105559000895 Pilus assembly protein, PilO; Region: PilO; cl01234 105559000896 Pilus assembly protein, PilP; Region: PilP; cl01235 105559000897 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 105559000898 Secretin and TonB N terminus short domain; Region: STN; pfam07660 105559000899 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559000900 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 105559000901 shikimate kinase; Reviewed; Region: aroK; PRK00131 105559000902 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...; Region: SK; cd00464 105559000903 ADP binding site; other site 105559000904 magnesium binding site; other site 105559000905 putative shikimate binding site; other site 105559000906 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 105559000907 active site 105559000908 dimer interface; other site 105559000909 metal-binding site 105559000910 AAK_UC: Uncharacterized (UC) amino acid kinase-like proteins found mainly in archaea and a few bacteria. Sequences in this CD are members of the Amino Acid Kinase (AAK) superfamily; Region: AAK_UC; cd04240 105559000911 putative nucleotide binding site; other site 105559000912 putative substrate binding site; other site 105559000913 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 105559000914 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 105559000915 chorismate binding enzyme; Region: Chorismate_bind; cl10555 105559000916 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 105559000917 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559000918 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 105559000919 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 105559000920 active site 105559000921 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 105559000922 salt bridge; other site 105559000923 non-specific DNA binding site; other site 105559000924 sequence-specific DNA binding site; other site 105559000925 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 105559000926 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559000927 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 105559000928 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559000929 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 105559000930 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 105559000931 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 105559000932 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 105559000933 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559000934 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 105559000935 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 105559000936 active site 105559000937 HIGH motif; other site 105559000938 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 105559000939 KMSKS motif; other site 105559000940 Transaldolase-like proteins from plants and bacteria. Transaldolase is found in the non-oxidative branch of the pentose phosphate pathway, that catalyze the reversible transfer of a dihydroxyacetone group from fructose-6-phosphate to erythrose-4-...; Region: Transaldolase_like; cd00955 105559000941 putative active site; other site 105559000942 catalytic residue; other site 105559000943 transketolase; Reviewed; Region: PRK05899 105559000944 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 105559000945 TPP-binding site; other site 105559000946 dimer interface; other site 105559000947 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 105559000948 PYR/PP interface; other site 105559000949 dimer interface; other site 105559000950 TPP binding site; other site 105559000951 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 105559000952 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 105559000953 active site 105559000954 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 105559000955 catalytic triad; other site 105559000956 metal-binding site 105559000957 conserved cis-peptide bond; other site 105559000958 FtsH Extracellular; Region: FtsH_ext; pfam06480 105559000959 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 105559000960 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...; Region: AAA; cd00009 105559000961 Walker A motif; other site 105559000962 ATP binding site; other site 105559000963 Walker B motif; other site 105559000964 arginine finger; other site 105559000965 Peptidase family M41; Region: Peptidase_M41; pfam01434 105559000966 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 105559000967 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...; Region: AAA; cd00009 105559000968 Walker A motif; other site 105559000969 ATP binding site; other site 105559000970 Walker B motif; other site 105559000971 arginine finger; other site 105559000972 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 105559000973 CsbD-like; Region: CsbD; cl01272 105559000974 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559000975 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 105559000976 active site 105559000977 phosphorylation site 105559000978 intermolecular recognition site; other site 105559000979 dimerization interface; other site 105559000980 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...; Region: LuxR_C_like; cd06170 105559000981 DNA binding residues 105559000982 dimerization interface; other site 105559000983 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 105559000984 Putative phospholipid-binding domain; Region: BON; cl02771 105559000985 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 105559000986 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 105559000987 Walker A/P-loop; other site 105559000988 ATP binding site; other site 105559000989 Q-loop/lid; other site 105559000990 ABC transporter signature motif; other site 105559000991 Walker B; other site 105559000992 D-loop; other site 105559000993 H-loop/switch region; other site 105559000994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559000995 dimer interface; other site 105559000996 conserved gate region; other site 105559000997 putative PBP binding loops; other site 105559000998 ABC-ATPase subunit interface; other site 105559000999 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559001000 dimer interface; other site 105559001001 conserved gate region; other site 105559001002 putative PBP binding loops; other site 105559001003 ABC-ATPase subunit interface; other site 105559001004 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 105559001005 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 105559001006 Bacterial SH3 domain; Region: SH3_3; cl02551 105559001007 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 105559001008 leucyl aminopeptidase; Provisional; Region: PRK00913 105559001009 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein...; Region: Peptidase_M17; cd00433 105559001010 interface (dimer of trimers); other site 105559001011 Substrate-binding/catalytic site; other site 105559001012 Zn-binding sites; other site 105559001013 Stringent starvation protein B; Region: SspB; cl01120 105559001014 stringent starvation protein A; Provisional; Region: sspA; PRK09481 105559001015 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 105559001016 C-terminal domain interface; other site 105559001017 putative GSH binding site (G-site); other site 105559001018 dimer interface; other site 105559001019 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_C_SspA; cd03186 105559001020 dimer interface; other site 105559001021 N-terminal domain interface; other site 105559001022 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 105559001023 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 105559001024 Qi binding site; other site 105559001025 intrachain domain interface; other site 105559001026 interchain domain interface; other site 105559001027 cytochrome b; Provisional; Region: CYTB; MTH00191 105559001028 heme bH binding site; other site 105559001029 heme bL binding site; other site 105559001030 Qo binding site; other site 105559001031 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: cytochrome_b_C; cd00290 105559001032 interchain domain interface; other site 105559001033 intrachain domain interface; other site 105559001034 Qi binding site; other site 105559001035 Qo binding site; other site 105559001036 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 105559001037 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 105559001038 [2Fe-2S] cluster binding site; other site 105559001039 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 105559001040 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 105559001041 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 105559001042 dimer interface; other site 105559001043 anticodon binding site; other site 105559001044 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 105559001045 motif 1; other site 105559001046 dimer interface; other site 105559001047 active site 105559001048 motif 2; other site 105559001049 GAD domain; Region: GAD; pfam02938 105559001050 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 105559001051 motif 3; other site 105559001052 Quinolinate synthetase A protein; Region: NadA; cl00420 105559001053 Zinc-finger domain; Region: zf-CHCC; cl01821 105559001054 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 105559001055 hypothetical protein; Provisional; Region: PRK08999 105559001056 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 105559001057 active site 105559001058 8-oxo-dGMP binding site; other site 105559001059 nudix motif; other site 105559001060 metal-binding site 105559001061 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- (beta-...; Region: TMP_TenI; cd00564 105559001062 thiamine phosphate binding site; other site 105559001063 active site 105559001064 pyrophosphate binding site; other site 105559001065 Domain of unknown function (DUF329); Region: DUF329; cl01144 105559001066 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 105559001067 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 105559001068 CoA-binding site; other site 105559001069 ATP-binding; other site 105559001070 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 105559001071 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 105559001072 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 105559001073 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 105559001074 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 105559001075 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 105559001076 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 105559001077 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 105559001078 Walker A motif; other site 105559001079 ATP binding site; other site 105559001080 Walker B motif; other site 105559001081 diaminopimelate decarboxylase; Region: lysA; TIGR01048 105559001082 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 105559001083 active site 105559001084 pyridoxal 5'-phosphate (PLP) binding site; other site 105559001085 substrate binding site; other site 105559001086 catalytic residues; other site 105559001087 dimer interface; other site 105559001088 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 105559001089 S-adenosylmethionine binding site; other site 105559001090 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 105559001091 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 105559001092 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 105559001093 Protein of unknown function, DUF484; Region: DUF484; cl01228 105559001094 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 105559001095 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 105559001096 Int/Topo IB signature motif; other site 105559001097 active site 105559001098 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 105559001099 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 105559001100 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 105559001101 active site 105559001102 phosphorylation site 105559001103 intermolecular recognition site; other site 105559001104 dimerization interface; other site 105559001105 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559001106 metal-binding site 105559001107 active site 105559001108 I-site; other site 105559001109 Integrase core domain; Region: rve; cl01316 105559001110 Transposase; Region: Transposase_14; pfam01710 105559001111 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 105559001112 Fructose-1,6-bisphosphate aldolase. The enzyme catalyzes the cleavage of fructose 1,6-bisphosphate to glyceraldehyde 3-phosphate and dihydroxyacetone phosphate (DHAP). This family includes proteins found in vertebrates, plants, and bacterial plant...; Region: FBP_aldolase_I_a; cd00948 105559001113 active site 105559001114 intersubunit interface; other site 105559001115 catalytic residue; other site 105559001116 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 105559001117 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 105559001118 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 105559001119 motif II; other site 105559001120 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 105559001121 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 105559001122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001123 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 105559001124 NTP binding site; other site 105559001125 active site 105559001126 metal binding triad; metal-binding site 105559001127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001128 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 105559001129 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 105559001130 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; cl12029 105559001131 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 105559001132 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 105559001133 HsdM N-terminal domain; Region: HsdM_N; pfam12161 105559001134 FlgN protein; Region: FlgN; cl09176 105559001135 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 105559001136 SAF domain; Region: SAF; cl00555 105559001137 sensory histidine kinase AtoS; Provisional; Region: PRK11360 105559001138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559001139 metal-binding site 105559001140 active site 105559001141 I-site; other site 105559001142 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 105559001143 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 105559001144 dimer interface; other site 105559001145 active site 105559001146 metal-binding site 105559001147 glutathione binding site; other site 105559001148 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...; Region: MTHFR; cd00537 105559001149 FAD binding site; other site 105559001150 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 105559001151 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado...; Region: AdoHcyase; cd00401 105559001152 oligomerization interface; other site 105559001153 active site 105559001154 NAD+ binding site; other site 105559001155 S-adenosylmethionine synthetase; Validated; Region: PRK05250 105559001156 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 105559001157 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 105559001158 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 105559001159 Trm112p-like protein; Region: Trm112p; cl01066 105559001160 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 105559001161 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 105559001162 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 105559001163 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 105559001164 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 105559001165 Walker A/P-loop; other site 105559001166 ATP binding site; other site 105559001167 Q-loop/lid; other site 105559001168 ABC transporter signature motif; other site 105559001169 Walker B; other site 105559001170 D-loop; other site 105559001171 H-loop/switch region; other site 105559001172 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 105559001173 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 105559001174 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 105559001175 Competence protein; Region: Competence; cl00471 105559001176 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559001177 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 105559001178 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 105559001179 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 105559001180 Walker A/P-loop; other site 105559001181 ATP binding site; other site 105559001182 Q-loop/lid; other site 105559001183 ABC transporter signature motif; other site 105559001184 Walker B; other site 105559001185 D-loop; other site 105559001186 H-loop/switch region; other site 105559001187 LolC/E family; Region: lolCE; TIGR02212 105559001188 Predicted permease; Region: FtsX; cl11418 105559001189 PilZ domain; Region: PilZ; cl01260 105559001190 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 105559001191 tetramer (dimer of dimers) interface; other site 105559001192 active site 105559001193 dimer interface; other site 105559001194 threonine dehydratase; Reviewed; Region: PRK09224 105559001195 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 105559001196 tetramer interface; other site 105559001197 pyridoxal 5'-phosphate binding site; other site 105559001198 catalytic residue; other site 105559001199 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 105559001200 putative Ile/Val binding site; other site 105559001201 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 105559001202 putative Ile/Val binding site; other site 105559001203 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 105559001204 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 105559001205 HIGH motif; other site 105559001206 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 105559001207 active site 105559001208 KMSKS motif; other site 105559001209 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 105559001210 tRNA binding surface; other site 105559001211 Rare lipoprotein B family; Region: RplB; cl01125 105559001212 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 105559001213 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 105559001214 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 105559001215 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 105559001216 putative catalytic cysteine; other site 105559001217 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 105559001218 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 105559001219 active site 105559001220 substrate binding site; other site 105559001221 Domain of unknown function DUF143; Region: DUF143; cl00519 105559001222 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 105559001223 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 105559001224 active site 105559001225 dimer interface; other site 105559001226 ribonuclease G; Provisional; Region: PRK11712 105559001227 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 105559001228 homodimer interface; other site 105559001229 oligonucleotide binding site; other site 105559001230 conserved hypothetical protein TIGR02099; Region: TIGR02099 105559001231 hypothetical protein; Provisional; Region: PRK10899 105559001232 Predicted amidohydrolase [General function prediction only]; Region: COG0388 105559001233 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 105559001234 putative active site; other site 105559001235 catalytic triad; other site 105559001236 dimer interface; other site 105559001237 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 105559001238 Ligand Binding Site; other site 105559001239 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 two-...; Region: SirA_YedF_YeeD; cd00291 105559001240 CPxP motif; other site 105559001241 glutamine synthetase; Provisional; Region: glnA; PRK09469 105559001242 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 105559001243 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 105559001244 formamidopyrimidine-DNA glycosylase; Validated; Region: PRK01103 105559001245 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 105559001246 DNA binding site 105559001247 catalytic residue; other site 105559001248 H2TH interface; other site 105559001249 putative catalytic residues; other site 105559001250 turnover-facilitating residue; other site 105559001251 intercalation triad; other site 105559001252 8OG recognition residue; other site 105559001253 putative reading head residues; other site 105559001254 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 105559001255 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 105559001256 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 105559001257 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 105559001258 ABC-2 type transporter; Region: ABC2_membrane; cl11417 105559001259 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 105559001260 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 105559001261 Walker A/P-loop; other site 105559001262 ATP binding site; other site 105559001263 Q-loop/lid; other site 105559001264 ABC transporter signature motif; other site 105559001265 Walker B; other site 105559001266 D-loop; other site 105559001267 H-loop/switch region; other site 105559001268 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...; Region: Nudix_Hydrolase; cd02883 105559001269 nudix motif; other site 105559001270 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 105559001271 Di-iron ligands; other site 105559001272 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 105559001273 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 105559001274 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 105559001275 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 105559001276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001277 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 105559001278 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 105559001279 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 105559001280 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 105559001281 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 105559001282 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 105559001283 lytic murein transglycosylase; Region: MltB_2; TIGR02283 105559001284 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 105559001285 N-acetyl-D-glucosamine binding site; other site 105559001286 catalytic residue; other site 105559001287 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 105559001288 Sporulation related domain; Region: SPOR; cl10051 105559001289 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 105559001290 Beta-lactamase; Region: Beta-lactamase; cl01009 105559001291 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 105559001292 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and D-...; Region: D-AAT_like; cd01558 105559001293 homodimer interface; other site 105559001294 substrate-cofactor binding pocket; other site 105559001295 pyridoxal 5'-phosphate binding site; other site 105559001296 Aminotransferase class IV; Region: Aminotran_4; pfam01063 105559001297 catalytic residue; other site 105559001298 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 105559001299 lipoyl synthase; Provisional; Region: PRK05481 105559001300 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; cl14056 105559001301 citrate synthase; Provisional; Region: PRK14036 105559001302 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the...; Region: citrate_synt_like_1_1; cd06112 105559001303 dimer interface; other site 105559001304 active site 105559001305 citrylCoA binding site; other site 105559001306 oxalacetate/citrate binding site; other site 105559001307 coenzyme A binding site; other site 105559001308 catalytic triad; other site 105559001309 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 105559001310 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 105559001311 FeS/SAM binding site; other site 105559001312 elongation factor P; Validated; Region: PRK00529 105559001313 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 105559001314 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 105559001315 RNA binding site; other site 105559001316 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 105559001317 RNA binding site; other site 105559001318 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 105559001319 lysyl-tRNA synthetase-like protein GenX; Region: genX; TIGR00462 105559001320 motif 1; other site 105559001321 dimer interface; other site 105559001322 active site 105559001323 motif 2; other site 105559001324 motif 3; other site 105559001325 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 105559001326 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 105559001327 FeS/SAM binding site; other site 105559001328 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 105559001329 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl00527 105559001330 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559001331 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; cl14189 105559001332 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 105559001333 Peptidase family M48; Region: Peptidase_M48; cl12018 105559001334 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 105559001335 binding surface 105559001336 TPR motif; other site 105559001337 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 two-...; Region: SirA_YedF_YeeD; cd00291 105559001338 CPxP motif; other site 105559001339 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 105559001340 S-adenosylmethionine binding site; other site 105559001341 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 105559001342 Outer membrane efflux protein; Region: OEP; pfam02321 105559001343 Outer membrane efflux protein; Region: OEP; pfam02321 105559001344 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 105559001345 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 105559001346 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 105559001347 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 105559001348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001349 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 105559001350 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 105559001351 putative ribose interaction site; other site 105559001352 putative ADP binding site; other site 105559001353 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559001354 HIGH motif; other site 105559001355 active site 105559001356 nucleotide binding site; other site 105559001357 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559001358 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559001359 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 105559001360 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 105559001361 ATP binding site; other site 105559001362 Mg++ binding site; other site 105559001363 motif III; other site 105559001364 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 105559001365 nucleotide binding region; other site 105559001366 ATP-binding site; other site 105559001367 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 105559001368 RNA/DNA binding site; other site 105559001369 RRM dimerization site; other site 105559001370 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 105559001371 DNA binding site 105559001372 RNA-binding motif; other site 105559001373 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 105559001374 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 105559001375 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...; Region: APP_MetAP; cd01066 105559001376 active site 105559001377 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 105559001378 Peptidase dimerization domain; Region: M20_dimer; cl09126 105559001379 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 105559001380 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 105559001381 tetramer interface; other site 105559001382 pyridoxal 5'-phosphate binding site; other site 105559001383 catalytic residue; other site 105559001384 ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins; Region: ALDH_F1-2_Ald2-like; cd07091 105559001385 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 105559001386 NAD(P) binding site; other site 105559001387 catalytic residues; other site 105559001388 cysteine synthases; Region: cysKM; TIGR01136 105559001389 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 105559001390 dimer interface; other site 105559001391 pyridoxal 5'-phosphate binding site; other site 105559001392 catalytic residue; other site 105559001393 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 105559001394 nucleoside/Zn binding site; other site 105559001395 dimer interface; other site 105559001396 catalytic motif; other site 105559001397 hypothetical protein; Provisional; Region: PRK11032 105559001398 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 105559001399 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 105559001400 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 105559001401 rRNA binding site; other site 105559001402 predicted 30S ribosome binding site; other site 105559001403 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 105559001404 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 105559001405 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 105559001406 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 105559001407 recombination protein RecR; Reviewed; Region: recR; PRK00076 105559001408 RecR protein; Region: RecR; pfam02132 105559001409 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 105559001410 putative active site; other site 105559001411 putative metal-binding site; other site 105559001412 tetramer interface; other site 105559001413 Uncharacterized BCR, YbaB family COG0718; Region: DUF149; cl00494 105559001414 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 105559001415 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...; Region: AAA; cd00009 105559001416 Walker A motif; other site 105559001417 ATP binding site; other site 105559001418 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559001419 Walker B motif; other site 105559001420 arginine finger; other site 105559001421 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 105559001422 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 105559001423 transcription termination factor Rho; Provisional; Region: rho; PRK09376 105559001424 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 105559001425 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...; Region: Rho_CSD; cd04459 105559001426 RNA binding site; other site 105559001427 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of...; Region: rho_factor; cd01128 105559001428 multimer interface; other site 105559001429 Walker A motif; other site 105559001430 ATP binding site; other site 105559001431 Walker B motif; other site 105559001432 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 105559001433 IPP transferase; Region: IPPT; cl00403 105559001434 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 105559001435 Sm1 motif; other site 105559001436 intra - hexamer interaction site; other site 105559001437 inter - hexamer interaction site; other site 105559001438 nucleotide binding pocket; other site 105559001439 Sm2 motif; other site 105559001440 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 105559001441 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 105559001442 G1 box; other site 105559001443 GTP/Mg2+ binding site; other site 105559001444 Switch I region; other site 105559001445 G2 box; other site 105559001446 G3 box; other site 105559001447 Switch II region; other site 105559001448 G4 box; other site 105559001449 G5 box; other site 105559001450 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 105559001451 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 105559001452 HflK protein; Region: hflK; TIGR01933 105559001453 FtsH protease regulator HflC; Provisional; Region: PRK11029 105559001454 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 105559001455 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 105559001456 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 105559001457 dimer interface; other site 105559001458 motif 1; other site 105559001459 active site 105559001460 motif 2; other site 105559001461 motif 3; other site 105559001462 adenylosuccinate synthetase; Provisional; Region: PRK01117 105559001463 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 r-...; Region: AdSS; cd03108 105559001464 GDP-binding site; other site 105559001465 ACT binding site; other site 105559001466 IMP binding site; other site 105559001467 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 105559001468 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 105559001469 catalytic residues; other site 105559001470 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 105559001471 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 105559001472 ATP binding site; other site 105559001473 Mg++ binding site; other site 105559001474 motif III; other site 105559001475 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 105559001476 nucleotide binding region; other site 105559001477 ATP-binding site; other site 105559001478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001479 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 105559001480 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK07364 105559001481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001482 proline aminopeptidase P II; Provisional; Region: PRK10879 105559001483 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 105559001484 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...; Region: Prolidase; cd01087 105559001485 active site 105559001486 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 105559001487 conserved hypothetical protein TIGR02449; Region: TIGR02449 105559001488 Cell division protein ZapA; Region: ZapA; cl01146 105559001489 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 105559001490 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 105559001491 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 105559001492 shikimate binding site; other site 105559001493 NAD(P) binding site; other site 105559001494 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 105559001495 dimer interface; other site 105559001496 active site 105559001497 aspartate-rich active site metal binding site; other site 105559001498 allosteric magnesium binding site; other site 105559001499 Schiff base residues; other site 105559001500 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 105559001501 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 105559001502 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 105559001503 catalytic site; other site 105559001504 subunit interface; other site 105559001505 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 105559001506 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 105559001507 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559001508 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 105559001509 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 105559001510 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559001511 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 105559001512 IMP binding site; other site 105559001513 dimer interface; other site 105559001514 interdomain contacts; other site 105559001515 partial ornithine binding site; other site 105559001516 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 105559001517 domain; Region: GreA_GreB_N; pfam03449 105559001518 C-term; Region: GreA_GreB; pfam01272 105559001519 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 105559001520 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 105559001521 FtsH Extracellular; Region: FtsH_ext; pfam06480 105559001522 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...; Region: AAA; cd00009 105559001523 Walker A motif; other site 105559001524 ATP binding site; other site 105559001525 Walker B motif; other site 105559001526 arginine finger; other site 105559001527 Peptidase family M41; Region: Peptidase_M41; pfam01434 105559001528 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 105559001529 substrate binding pocket; other site 105559001530 dimer interface; other site 105559001531 inhibitor binding site; inhibition site 105559001532 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 105559001533 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 UDP-N-...; Region: GlmM; cd05802 105559001534 active site 105559001535 substrate binding site; other site 105559001536 metal-binding site 105559001537 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 105559001538 substrate binding site; other site 105559001539 dimer interface; other site 105559001540 catalytic triad; other site 105559001541 Preprotein translocase SecG subunit; Region: SecG; cl09123 105559001542 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 105559001543 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 105559001544 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 105559001545 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 105559001546 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 105559001547 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...; Region: TRX_Fd_NuoE; cd03064 105559001548 putative dimer interface; other site 105559001549 [2Fe-2S] cluster binding site; other site 105559001550 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 105559001551 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 105559001552 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 105559001553 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 105559001554 NADH dehydrogenase subunit G; Validated; Region: PRK09129 105559001555 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 105559001556 catalytic loop; other site 105559001557 iron binding site; other site 105559001558 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 105559001559 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions...; Region: MopB_NDH-1_NuoG2; cd02772 105559001560 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-; Region: MopB_CT; cl09929 105559001561 NADH dehydrogenase; Region: NADHdh; cl00469 105559001562 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 105559001563 NADH dehydrogenase subunit J; Provisional; Region: PRK06638 105559001564 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 105559001565 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 105559001566 NADH dehydrogenase subunit L; Reviewed; Region: PRK06590 105559001567 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 105559001568 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559001569 NADH dehydrogenase subunit M; Reviewed; Region: PRK05846 105559001570 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559001571 NADH dehydrogenase subunit N; Provisional; Region: PRK05777 105559001572 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559001573 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 105559001574 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 105559001575 putative NAD(P) binding site; other site 105559001576 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 105559001577 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 105559001578 RNA binding surface; other site 105559001579 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 105559001580 active site 105559001581 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 105559001582 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 105559001583 catalytic residues; other site 105559001584 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 105559001585 substrate binding site; other site 105559001586 ATP binding site; other site 105559001587 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 105559001588 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...; Region: GDC-P; cd00613 105559001589 tetramer interface; other site 105559001590 pyridoxal 5'-phosphate binding site; other site 105559001591 catalytic residue; other site 105559001592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 105559001593 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 105559001594 catalytic residues; other site 105559001595 hinge region; other site 105559001596 alpha helical domain; other site 105559001597 Cytochrome c; Region: Cytochrom_C; cl11414 105559001598 Cytochrome c; Region: Cytochrom_C; cl11414 105559001599 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 105559001600 G1 box; other site 105559001601 GTP/Mg2+ binding site; other site 105559001602 Switch I region; other site 105559001603 G2 box; other site 105559001604 G3 box; other site 105559001605 Switch II region; other site 105559001606 G4 box; other site 105559001607 G5 box; other site 105559001608 DNA polymerase I; Provisional; Region: PRK05755 105559001609 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 105559001610 metal binding site I; metal-binding site 105559001611 putative ssDNA interaction site; other site 105559001612 metal binding site II; metal-binding site 105559001613 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 105559001614 active site 105559001615 catalytic site; other site 105559001616 substrate binding site; other site 105559001617 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 105559001618 active site 105559001619 DNA binding site 105559001620 catalytic site; other site 105559001621 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 105559001622 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 105559001623 arginine decarboxylase; Provisional; Region: PRK05354 105559001624 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 105559001625 dimer interface; other site 105559001626 active site 105559001627 pyridoxal 5'-phosphate (PLP) binding site; other site 105559001628 catalytic residues; other site 105559001629 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 105559001630 spermidine synthase; Provisional; Region: PRK00811 105559001631 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 105559001632 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 105559001633 Protein of unknown function (DUF1022); Region: DUF1022; pfam06258 105559001634 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559001635 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 105559001636 putative ADP-binding pocket; other site 105559001637 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 105559001638 putative active site; other site 105559001639 O-Antigen ligase; Region: Wzy_C; cl04850 105559001640 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 105559001641 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 105559001642 MatE; Region: MatE; pfam01554 105559001643 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559001644 ligand binding site; other site 105559001645 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 105559001646 N-acetyl-D-glucosamine binding site; other site 105559001647 catalytic residue; other site 105559001648 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 105559001649 dimer interface; other site 105559001650 putative radical transfer pathway; other site 105559001651 diiron center; other site 105559001652 tyrosyl radical; other site 105559001653 ATP cone domain; Region: ATP-cone; pfam03477 105559001654 ATP cone domain; Region: ATP-cone; pfam03477 105559001655 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 105559001656 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cd00081 105559001657 thioester formation/cholesterol transfer; other site 105559001658 protein-splicing catalytic site; other site 105559001659 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 105559001660 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 105559001661 Class I ribonucleotide reductase; Region: RNR_I; cd01679 105559001662 R2 peptide binding site; other site 105559001663 catalytic residues; other site 105559001664 active site 105559001665 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by...; Region: PRX_BCP; cd03017 105559001666 catalytic triad; other site 105559001667 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 105559001668 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 105559001669 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 105559001670 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 105559001671 dihydrodipicolinate synthase; Region: dapA; TIGR00674 105559001672 dimer interface; other site 105559001673 active site 105559001674 catalytic residue; other site 105559001675 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 105559001676 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 105559001677 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 105559001678 ATP binding site; other site 105559001679 active site 105559001680 substrate binding site; other site 105559001681 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 105559001682 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 105559001683 active site 105559001684 substrate binding pocket; other site 105559001685 dimer interface; other site 105559001686 acetolactate synthase catalytic subunit; Reviewed; Region: PRK06276 105559001687 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 105559001688 PYR/PP interface; other site 105559001689 dimer interface; other site 105559001690 TPP binding site; other site 105559001691 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 105559001692 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 105559001693 TPP-binding site; other site 105559001694 dimer interface; other site 105559001695 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 105559001696 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 105559001697 putative valine binding site; other site 105559001698 dimer interface; other site 105559001699 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 105559001700 ketol-acid reductoisomerase; Provisional; Region: PRK05479 105559001701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001702 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 105559001703 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 105559001704 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 105559001705 2-isopropylmalate synthase; Validated; Region: PRK00915 105559001706 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 105559001707 active site 105559001708 catalytic residues; other site 105559001709 metal-binding site 105559001710 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 105559001711 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 105559001712 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 105559001713 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 105559001714 Coenzyme A binding pocket; other site 105559001715 Predicted membrane protein [Function unknown]; Region: COG3174 105559001716 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...; Region: ADPRase_NUDT5; cd03424 105559001717 dimer interface; other site 105559001718 ADP-ribose binding site; other site 105559001719 active site 105559001720 nudix motif; other site 105559001721 metal-binding site 105559001722 Sulfite exporter TauE/SafE; Region: TauE; cl00498 105559001723 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 105559001724 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559001725 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 105559001726 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 105559001727 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; cl01044 105559001728 SpoVR like protein; Region: SpoVR; pfam04293 105559001729 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 105559001730 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559001731 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559001732 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559001733 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 105559001734 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 105559001735 motif II; other site 105559001736 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; cl04829 105559001737 Ammonia monooxygenase; Region: AMO; cl03602 105559001738 Monooxygenase subunit B protein; Region: Monooxygenase_B; cl04718 105559001739 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 105559001740 active site 105559001741 ribulose/triose binding site; other site 105559001742 phosphate binding site; other site 105559001743 substrate (anthranilate) binding pocket; other site 105559001744 product (indole) binding pocket; other site 105559001745 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 105559001746 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 105559001747 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 105559001748 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 105559001749 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 105559001750 glutamine binding; other site 105559001751 catalytic triad; other site 105559001752 anthranilate synthase component I; Provisional; Region: PRK13565 105559001753 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 105559001754 chorismate binding enzyme; Region: Chorismate_bind; cl10555 105559001755 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 105559001756 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 105559001757 motif II; other site 105559001758 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...; Region: RPE; cd00429 105559001759 substrate binding site; other site 105559001760 hexamer interface; other site 105559001761 metal-binding site 105559001762 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 105559001763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559001764 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 105559001765 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 105559001766 FeS assembly ATPase SufC; Region: sufC; TIGR01978 105559001767 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 105559001768 Walker A/P-loop; other site 105559001769 ATP binding site; other site 105559001770 Q-loop/lid; other site 105559001771 ABC transporter signature motif; other site 105559001772 Walker B; other site 105559001773 D-loop; other site 105559001774 H-loop/switch region; other site 105559001775 FeS assembly protein SufD, group 1; Region: sufD; TIGR01981 105559001776 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 105559001777 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 105559001778 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 105559001779 pyridoxal 5'-phosphate binding pocket; other site 105559001780 catalytic residue; other site 105559001781 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 105559001782 trimerization site; other site 105559001783 active site 105559001784 Domain of unknown function DUF59; Region: DUF59; cl00941 105559001785 Transcription termination factor nusG; Region: NusG; cl02766 105559001786 transcriptional activator RfaH; Region: RfaH; TIGR01955 105559001787 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 105559001788 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 105559001789 Substrate binding site; other site 105559001790 Cupin domain; Region: Cupin_2; cl09118 105559001791 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation...; Region: APSK; cd02027 105559001792 ligand-binding site; other site 105559001793 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 105559001794 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 105559001795 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559001796 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 105559001797 putative ADP-binding pocket; other site 105559001798 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559001799 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 105559001800 putative ADP-binding pocket; other site 105559001801 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 105559001802 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 105559001803 active site 105559001804 dimer interface; other site 105559001805 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 105559001806 Ligand Binding Site; other site 105559001807 Molecular Tunnel; other site 105559001808 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 105559001809 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559001810 putative ADP-binding pocket; other site 105559001811 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 105559001812 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine...; Region: GT_WbpL_WbcO_like; cd06854 105559001813 Mg++ binding site; other site 105559001814 putative catalytic motif; other site 105559001815 putative substrate binding site; other site 105559001816 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 higher-...; Region: HU_IHF; cd00591 105559001817 IHF - DNA interface; other site 105559001818 IHF dimer interface; other site 105559001819 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 105559001820 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 105559001821 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 105559001822 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 105559001823 Iron-sulfur protein interface; other site 105559001824 proximal quinone binding site; other site 105559001825 SdhD (CybS) interface; other site 105559001826 proximal heme binding site; other site 105559001827 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 105559001828 SdhC subunit interface; other site 105559001829 proximal heme binding site; other site 105559001830 cardiolipin binding site; other site 105559001831 Iron-sulfur protein interface; other site 105559001832 proximal quinone binding site; other site 105559001833 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 105559001834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001835 domain; Region: Succ_DH_flav_C; pfam02910 105559001836 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 105559001837 Protein of unknown function (DUF339); Region: Sdh5; cl01110 105559001838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001839 L-aspartate oxidase; Provisional; Region: PRK09077 105559001840 domain; Region: Succ_DH_flav_C; pfam02910 105559001841 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 105559001842 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559001843 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...; Region: Sigma70_r4; cd06171 105559001844 DNA binding residues 105559001845 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 105559001846 MucB/RseB family; Region: MucB_RseB; cl01145 105559001847 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 105559001848 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 105559001849 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 105559001850 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 C-...; Region: PDZ_serine_protease; cd00987 105559001851 protein binding site; other site 105559001852 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 C-...; Region: PDZ_serine_protease; cd00987 105559001853 protein binding site; other site 105559001854 GTP-binding protein LepA; Provisional; Region: PRK05433 105559001855 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 105559001856 G1 box; other site 105559001857 putative GEF interaction site; other site 105559001858 GTP/Mg2+ binding site; other site 105559001859 Switch I region; other site 105559001860 G2 box; other site 105559001861 G3 box; other site 105559001862 Switch II region; other site 105559001863 G4 box; other site 105559001864 G5 box; other site 105559001865 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-...; Region: lepA_II; cd03699 105559001866 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 105559001867 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 105559001868 signal peptidase I; Provisional; Region: PRK10861 105559001869 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 105559001870 Catalytic site; other site 105559001871 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 105559001872 ribonuclease III; Reviewed; Region: rnc; PRK00102 105559001873 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 post-...; Region: RIBOc; cd00593 105559001874 dimerization interface; other site 105559001875 active site 105559001876 metal-binding site 105559001877 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...; Region: DSRM; cd00048 105559001878 dsRNA binding site; other site 105559001879 GTP-binding protein Era; Reviewed; Region: era; PRK00089 105559001880 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 105559001881 G1 box; other site 105559001882 GTP/Mg2+ binding site; other site 105559001883 Switch I region; other site 105559001884 G2 box; other site 105559001885 Switch II region; other site 105559001886 G3 box; other site 105559001887 G4 box; other site 105559001888 G5 box; other site 105559001889 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 105559001890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 105559001891 aspartate aminotransferase; Provisional; Region: PRK07681 105559001892 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 105559001893 pyridoxal 5'-phosphate binding site; other site 105559001894 homodimer interface; other site 105559001895 catalytic residue; other site 105559001896 homoserine dehydrogenase; Provisional; Region: PRK06349 105559001897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001898 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 105559001899 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 105559001900 threonine synthase; Reviewed; Region: PRK06721 105559001901 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants...; Region: Thr-synth_1; cd01563 105559001902 homodimer interface; other site 105559001903 pyridoxal 5'-phosphate binding site; other site 105559001904 catalytic residue; other site 105559001905 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 105559001906 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 105559001907 active site 105559001908 phosphorylation site 105559001909 intermolecular recognition site; other site 105559001910 dimerization interface; other site 105559001911 GAF domain; Region: GAF; cl00853 105559001912 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 trans-...; Region: HisKA; cl00080 105559001913 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 105559001914 ATP binding site; other site 105559001915 Mg2+ binding site; other site 105559001916 G-X-G motif; other site 105559001917 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 105559001918 active site 105559001919 phosphorylation site 105559001920 intermolecular recognition site; other site 105559001921 dimerization interface; other site 105559001922 PAS domain S-box; Region: sensory_box; TIGR00229 105559001923 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 105559001924 putative active site; other site 105559001925 heme pocket; other site 105559001926 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 105559001927 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 105559001928 putative active site; other site 105559001929 heme pocket; other site 105559001930 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 trans-...; Region: HisKA; cd00082 105559001931 dimer interface; other site 105559001932 phosphorylation site 105559001933 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 105559001934 ATP binding site; other site 105559001935 Mg2+ binding site; other site 105559001936 G-X-G motif; other site 105559001937 Predicted amidohydrolase [General function prediction only]; Region: COG0388 105559001938 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 105559001939 putative active site; other site 105559001940 catalytic triad; other site 105559001941 putative dimer interface; other site 105559001942 agmatine deiminase; Region: agmatine_aguA; TIGR03380 105559001943 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 105559001944 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 105559001945 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559001946 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559001947 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559001948 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 105559001949 active site 105559001950 phosphorylation site 105559001951 intermolecular recognition site; other site 105559001952 dimerization interface; other site 105559001953 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...; Region: LuxR_C_like; cd06170 105559001954 DNA binding residues 105559001955 dimerization interface; other site 105559001956 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 105559001957 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 105559001958 FeS/SAM binding site; other site 105559001959 HemN C-terminal region; Region: HemN_C; pfam06969 105559001960 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 Ham1-...; Region: HAM1; cd00515 105559001961 active site 105559001962 dimerization interface; other site 105559001963 ribonuclease PH; Reviewed; Region: rph; PRK00173 105559001964 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 105559001965 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 105559001966 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II)...; Region: Aldolase_II; cl00214 105559001967 intersubunit interface; other site 105559001968 active site 105559001969 Zn2+ binding site; other site 105559001970 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 105559001971 Cupin domain; Region: Cupin_2; cl09118 105559001972 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; cl11391 105559001973 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 105559001974 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 105559001975 30S subunit binding site; other site 105559001976 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 105559001977 DNA binding site 105559001978 RNA-binding motif; other site 105559001979 Domain of unknown function DUF37; Region: DUF37; cl00506 105559001980 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 105559001981 Peptidase family M23; Region: Peptidase_M23; pfam01551 105559001982 Phosphotransferase enzyme family; Region: APH; pfam01636 105559001983 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 105559001984 active site 105559001985 ATP binding site; other site 105559001986 substrate binding site; other site 105559001987 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 105559001988 Substrate binding site; other site 105559001989 metal-binding site 105559001990 ornithine carbamoyltransferase; Provisional; Region: PRK00779 105559001991 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 105559001992 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 105559001993 acetylornithine aminotransferase; Provisional; Region: PRK02627 105559001994 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 105559001995 inhibitor-cofactor binding pocket; inhibition site 105559001996 pyridoxal 5'-phosphate binding site; other site 105559001997 catalytic residue; other site 105559001998 superoxide dismutase; Provisional; Region: PRK10543 105559001999 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 105559002000 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 105559002001 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 105559002002 putative GSH binding site; other site 105559002003 catalytic residues; other site 105559002004 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 105559002005 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 105559002006 Clp amino terminal domain; Region: Clp_N; pfam02861 105559002007 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...; Region: AAA; cd00009 105559002008 Walker A motif; other site 105559002009 ATP binding site; other site 105559002010 Walker B motif; other site 105559002011 arginine finger; other site 105559002012 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...; Region: AAA; cd00009 105559002013 Walker A motif; other site 105559002014 ATP binding site; other site 105559002015 Walker B motif; other site 105559002016 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 105559002017 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 105559002018 metal binding site 2; metal-binding site 105559002019 putative DNA binding helix; other site 105559002020 metal binding site 1; metal-binding site 105559002021 dimer interface; other site 105559002022 structural Zn2+ binding site; other site 105559002023 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 105559002024 putative metal binding residues; other site 105559002025 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 105559002026 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 105559002027 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...; Region: TM_ABC_iron-siderophores_like; cd06550 105559002028 ABC-ATPase subunit interface; other site 105559002029 dimer interface; other site 105559002030 putative PBP binding regions; other site 105559002031 ADP-ribose diphosphatase NudE; Provisional; Region: nudE; PRK11762 105559002032 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...; Region: ADPRase_NUDT5; cd03424 105559002033 dimer interface; other site 105559002034 ADP-ribose binding site; other site 105559002035 active site 105559002036 nudix motif; other site 105559002037 metal-binding site 105559002038 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 105559002039 active site 105559002040 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 105559002041 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 105559002042 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 105559002043 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 105559002044 active site 105559002045 phosphorylation site 105559002046 intermolecular recognition site; other site 105559002047 dimerization interface; other site 105559002048 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...; Region: trans_reg_C; cd00383 105559002049 DNA binding site 105559002050 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 105559002051 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 105559002052 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 trans-...; Region: HisKA; cd00082 105559002053 dimer interface; other site 105559002054 phosphorylation site 105559002055 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 105559002056 ATP binding site; other site 105559002057 Mg2+ binding site; other site 105559002058 G-X-G motif; other site 105559002059 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 105559002060 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 105559002061 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 105559002062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559002063 ABC-ATPase subunit interface; other site 105559002064 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 105559002065 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 105559002066 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559002067 dimer interface; other site 105559002068 conserved gate region; other site 105559002069 putative PBP binding loops; other site 105559002070 ABC-ATPase subunit interface; other site 105559002071 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 105559002072 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 105559002073 Walker A/P-loop; other site 105559002074 ATP binding site; other site 105559002075 Q-loop/lid; other site 105559002076 ABC transporter signature motif; other site 105559002077 Walker B; other site 105559002078 D-loop; other site 105559002079 H-loop/switch region; other site 105559002080 transcriptional regulator PhoU; Provisional; Region: PRK11115 105559002081 PhoU domain; Region: PhoU; pfam01895 105559002082 PhoU domain; Region: PhoU; pfam01895 105559002083 exopolyphosphatase; Provisional; Region: PRK10854 105559002084 exopolyphosphatase; Region: exo_poly_only; TIGR03706 105559002085 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 105559002086 putative active site; other site 105559002087 putative metal binding residues; other site 105559002088 signature motif; other site 105559002089 putative triphosphate binding site; other site 105559002090 DsrE/DsrF-like family; Region: DrsE; cl00672 105559002091 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 105559002092 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 105559002093 Cytochrome c; Region: Cytochrom_C; cl11414 105559002094 Cytochrome c; Region: Cytochrom_C; cl11414 105559002095 Cytochrome c [Energy production and conversion]; Region: COG3258 105559002096 Cytochrome c; Region: Cytochrom_C; cl11414 105559002097 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 105559002098 RNA binding surface; other site 105559002099 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 105559002100 putative hydrolase; Provisional; Region: PRK10985 105559002101 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559002102 acetyl-CoA synthetase; Provisional; Region: PRK00174 105559002103 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 105559002104 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 105559002105 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559002106 ligand binding site; other site 105559002107 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 105559002108 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic...; Region: PRX_Typ2cys; cd03015 105559002109 dimer interface; other site 105559002110 decamer (pentamer of dimers) interface; other site 105559002111 catalytic triad; other site 105559002112 peroxidatic and resolving cysteines; other site 105559002113 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 105559002114 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 105559002115 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 105559002116 motif II; other site 105559002117 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 105559002118 aspartate aminotransferase; Provisional; Region: PRK06108 105559002119 pyridoxal 5'-phosphate binding site; other site 105559002120 homodimer interface; other site 105559002121 catalytic residue; other site 105559002122 Cytochrome c; Region: Cytochrom_C; cl11414 105559002123 poly(A) polymerase; Region: pcnB; TIGR01942 105559002124 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 105559002125 active site 105559002126 NTP binding site; other site 105559002127 metal binding triad; metal-binding site 105559002128 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 105559002129 catalytic center binding site; other site 105559002130 ATP binding site; other site 105559002131 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 105559002132 oligomerization interface; other site 105559002133 active site 105559002134 metal-binding site 105559002135 Pantoate-beta-alanine ligase; Region: PanC; cd00560 105559002136 pantoate--beta-alanine ligase; Region: panC; TIGR00018 105559002137 active site 105559002138 ATP-binding site; other site 105559002139 pantoate-binding site; other site 105559002140 Acylphosphatase; Region: Acylphosphatase; cl00551 105559002141 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559002142 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 105559002143 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 105559002144 DNA binding site 105559002145 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 105559002146 pyridoxal 5'-phosphate binding site; other site 105559002147 homodimer interface; other site 105559002148 catalytic residue; other site 105559002149 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 105559002150 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 105559002151 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 105559002152 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 105559002153 N-acetyl-D-glucosamine binding site; other site 105559002154 catalytic residue; other site 105559002155 prolyl-tRNA synthetase; Provisional; Region: PRK09194 105559002156 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 105559002157 dimer interface; other site 105559002158 motif 1; other site 105559002159 active site 105559002160 motif 2; other site 105559002161 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 single-...; Region: ProRS-INS; cd04334 105559002162 putative deacylase active site; other site 105559002163 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 105559002164 active site 105559002165 motif 3; other site 105559002166 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-...; Region: ProRS_anticodon_short; cd00861 105559002167 anticodon binding site; other site 105559002168 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 105559002169 active site 105559002170 multimer interface; other site 105559002171 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 105559002172 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 105559002173 FeS/SAM binding site; other site 105559002174 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 105559002175 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 105559002176 binding surface 105559002177 TPR motif; other site 105559002178 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 105559002179 binding surface 105559002180 TPR motif; other site 105559002181 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 105559002182 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 105559002183 dimer interface; other site 105559002184 motif 1; other site 105559002185 active site 105559002186 motif 2; other site 105559002187 motif 3; other site 105559002188 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 105559002189 anticodon binding site; other site 105559002190 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 105559002191 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 105559002192 active site 105559002193 dimer interface; other site 105559002194 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 105559002195 dimer interface; other site 105559002196 active site 105559002197 glycogen branching enzyme; Provisional; Region: PRK05402 105559002198 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 105559002199 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 105559002200 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 105559002201 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 105559002202 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 105559002203 ligand binding site; other site 105559002204 oligomer interface; other site 105559002205 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and rate-...; Region: LbH_G1P_AT_C; cd04651 105559002206 dimer interface; other site 105559002207 N-terminal domain interface; other site 105559002208 sulfate 1 binding site; other site 105559002209 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 105559002210 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 L-...; Region: GCS_H; cd06848 105559002211 lipoyl attachment site; other site 105559002212 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 105559002213 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...; Region: GDC-P; cd00613 105559002214 tetramer interface; other site 105559002215 pyridoxal 5'-phosphate binding site; other site 105559002216 catalytic residue; other site 105559002217 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 105559002218 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 105559002219 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 105559002220 hypothetical protein; Provisional; Region: PRK11649 105559002221 Peptidase family M23; Region: Peptidase_M23; pfam01551 105559002222 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 105559002223 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 105559002224 active site 105559002225 HIGH motif; other site 105559002226 dimer interface; other site 105559002227 KMSKS motif; other site 105559002228 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 105559002229 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 105559002230 S-adenosylmethionine binding site; other site 105559002231 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 105559002232 Rhomboid family; Region: Rhomboid; cl11446 105559002233 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 105559002234 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 105559002235 FeS/SAM binding site; other site 105559002236 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 105559002237 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 105559002238 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 105559002239 MutS domain I; Region: MutS_I; pfam01624 105559002240 MutS domain II; Region: MutS_II; pfam05188 105559002241 MutS domain III; Region: MutS_III; cl04977 105559002242 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 105559002243 Walker A/P-loop; other site 105559002244 ATP binding site; other site 105559002245 Q-loop/lid; other site 105559002246 ABC transporter signature motif; other site 105559002247 Walker B; other site 105559002248 D-loop; other site 105559002249 H-loop/switch region; other site 105559002250 Competence-damaged protein; Region: CinA; cl00666 105559002251 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 105559002252 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 105559002253 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 105559002254 recombinase A; Provisional; Region: recA; PRK09354 105559002255 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 105559002256 hexamer interface; other site 105559002257 Walker A motif; other site 105559002258 ATP binding site; other site 105559002259 Walker B motif; other site 105559002260 RecX family; Region: RecX; cl00936 105559002261 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 105559002262 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 105559002263 motif 1; other site 105559002264 active site 105559002265 motif 2; other site 105559002266 motif 3; other site 105559002267 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 105559002268 DHHA1 domain; Region: DHHA1; pfam02272 105559002269 aspartate kinase; Reviewed; Region: PRK06635 105559002270 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 105559002271 putative nucleotide binding site; other site 105559002272 putative catalytic residues; other site 105559002273 putative Mg ion binding site; other site 105559002274 putative aspartate binding site; other site 105559002275 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 105559002276 putative allosteric regulatory site; other site 105559002277 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 105559002278 putative allosteric regulatory residue; other site 105559002279 Global regulator protein family; Region: CsrA; cl00670 105559002280 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 105559002281 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 105559002282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559002283 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 105559002284 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559002285 dimer interface; other site 105559002286 conserved gate region; other site 105559002287 putative PBP binding loops; other site 105559002288 ABC-ATPase subunit interface; other site 105559002289 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559002290 dimer interface; other site 105559002291 conserved gate region; other site 105559002292 putative PBP binding loops; other site 105559002293 ABC-ATPase subunit interface; other site 105559002294 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 105559002295 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 105559002296 Walker A/P-loop; other site 105559002297 ATP binding site; other site 105559002298 Q-loop/lid; other site 105559002299 ABC transporter signature motif; other site 105559002300 Walker B; other site 105559002301 D-loop; other site 105559002302 H-loop/switch region; other site 105559002303 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 105559002304 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 105559002305 Walker A/P-loop; other site 105559002306 ATP binding site; other site 105559002307 Q-loop/lid; other site 105559002308 ABC transporter signature motif; other site 105559002309 Walker B; other site 105559002310 D-loop; other site 105559002311 H-loop/switch region; other site 105559002312 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 105559002313 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 alpha-; Region: HCP_like; cl00255 105559002314 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 105559002315 Cysteine-rich domain; Region: CCG; pfam02754 105559002316 Cysteine-rich domain; Region: CCG; pfam02754 105559002317 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 105559002318 diiron binding motif; other site 105559002319 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 105559002320 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 105559002321 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 105559002322 binding surface 105559002323 TPR motif; other site 105559002324 Cytochrome C biogenesis protein; Region: CcmH; cl01179 105559002325 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 105559002326 catalytic residues; other site 105559002327 central insert; other site 105559002328 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 105559002329 CcmE; Region: CcmE; cl00994 105559002330 Heme exporter protein D (CcmD); Region: CcmD; cl11475 105559002331 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 105559002332 CcmB protein; Region: CcmB; cl01016 105559002333 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559002334 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 105559002335 Walker A/P-loop; other site 105559002336 ATP binding site; other site 105559002337 Q-loop/lid; other site 105559002338 ABC transporter signature motif; other site 105559002339 Walker B; other site 105559002340 D-loop; other site 105559002341 H-loop/switch region; other site 105559002342 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 105559002343 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 105559002344 G1 box; other site 105559002345 GTP/Mg2+ binding site; other site 105559002346 Switch I region; other site 105559002347 G2 box; other site 105559002348 Switch II region; other site 105559002349 G3 box; other site 105559002350 G4 box; other site 105559002351 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 105559002352 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 105559002353 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 105559002354 active site 105559002355 metal-binding site 105559002356 OsmC-like protein; Region: OsmC; cl00767 105559002357 cAMP-regulatory protein; Provisional; Region: PRK11753 105559002358 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 105559002359 ligand binding site; other site 105559002360 flexible hinge region; other site 105559002361 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559002362 Transposase; Region: Transposase_14; pfam01710 105559002363 Integrase core domain; Region: rve; cl01316 105559002364 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559002365 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559002366 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 105559002367 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559002368 Sulfatase; Region: Sulfatase; cl10460 105559002369 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 105559002370 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559002371 Sulfatase; Region: Sulfatase; cl10460 105559002372 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 105559002373 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 105559002374 Family of unknown function (DUF500); Region: DUF500; cl01109 105559002375 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 105559002376 Neurotransmitter-gated ion-channel transmembrane region; Region: Neur_chan_memb; pfam02932 105559002377 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559002378 Sulfatase; Region: Sulfatase; cl10460 105559002379 Protein of unknown function (DUF502); Region: DUF502; cl01107 105559002380 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 105559002381 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 105559002382 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 105559002383 catalytic triad; other site 105559002384 BCCT family transporter; Region: BCCT; cl00569 105559002385 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 105559002386 Integral membrane protein TerC family; Region: TerC; cl10468 105559002387 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 105559002388 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 105559002389 S-adenosylmethionine binding site; other site 105559002390 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 105559002391 substrate binding pocket; other site 105559002392 substrate-Mg2+ binding site; other site 105559002393 aspartate-rich region 1; other site 105559002394 aspartate-rich region 2; other site 105559002395 PilZ domain; Region: PilZ; cl01260 105559002396 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 105559002397 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 105559002398 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559002399 metal-binding site 105559002400 active site 105559002401 I-site; other site 105559002402 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 105559002403 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 105559002404 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 105559002405 aromatic arch; other site 105559002406 DCoH dimer interaction site; other site 105559002407 DCoH /HNF-1 dimer interaction site; other site 105559002408 DCoH tetramer interaction site; other site 105559002409 substrate binding site; other site 105559002410 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 105559002411 metal ion-dependent adhesion site (MIDAS); other site 105559002412 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 105559002413 Protein of unknown function DUF58; Region: DUF58; pfam01882 105559002414 MoxR-like ATPases [General function prediction only]; Region: COG0714 105559002415 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...; Region: AAA; cd00009 105559002416 Walker A motif; other site 105559002417 ATP binding site; other site 105559002418 Walker B motif; other site 105559002419 arginine finger; other site 105559002420 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 105559002421 NfeD-like; Region: NfeD; cl00686 105559002422 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559002423 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 105559002424 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559002425 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 105559002426 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 105559002427 Predicted permease; Region: FtsX; cl11418 105559002428 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 105559002429 Predicted permease; Region: FtsX; cl11418 105559002430 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 105559002431 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 105559002432 Walker A/P-loop; other site 105559002433 ATP binding site; other site 105559002434 Q-loop/lid; other site 105559002435 ABC transporter signature motif; other site 105559002436 Walker B; other site 105559002437 D-loop; other site 105559002438 H-loop/switch region; other site 105559002439 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559002440 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 105559002441 Ligand Binding Site; other site 105559002442 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 105559002443 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 105559002444 tetramer interface; other site 105559002445 active site 105559002446 Mg2+/Mn2+ binding site; other site 105559002447 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 105559002448 dimer interface; other site 105559002449 Citrate synthase; Region: Citrate_synt; pfam00285 105559002450 active site 105559002451 citrylCoA binding site; other site 105559002452 oxalacetate/citrate binding site; other site 105559002453 coenzyme A binding site; other site 105559002454 catalytic triad; other site 105559002455 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 105559002456 2-methylcitrate dehydratase; Region: prpD; TIGR02330 105559002457 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 105559002458 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 105559002459 binding surface 105559002460 TPR motif; other site 105559002461 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 105559002462 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 105559002463 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559002464 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 105559002465 putative cation:proton antiport protein; Provisional; Region: PRK10669 105559002466 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 105559002467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559002468 Integrase core domain; Region: rve; cl01316 105559002469 Transposase; Region: Transposase_14; pfam01710 105559002470 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 105559002471 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 105559002472 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559002473 dimer interface; other site 105559002474 conserved gate region; other site 105559002475 putative PBP binding loops; other site 105559002476 ABC-ATPase subunit interface; other site 105559002477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559002478 dimer interface; other site 105559002479 conserved gate region; other site 105559002480 putative PBP binding loops; other site 105559002481 ABC-ATPase subunit interface; other site 105559002482 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 105559002483 ABC-2 type transporter; Region: ABC2_membrane; cl11417 105559002484 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 105559002485 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 105559002486 Walker A/P-loop; other site 105559002487 ATP binding site; other site 105559002488 Q-loop/lid; other site 105559002489 ABC transporter signature motif; other site 105559002490 Walker B; other site 105559002491 D-loop; other site 105559002492 H-loop/switch region; other site 105559002493 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl00357 105559002494 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-...; Region: LbH_MAT_like; cd04647 105559002495 trimer interface; other site 105559002496 active site 105559002497 substrate binding site; other site 105559002498 CoA binding site; other site 105559002499 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 105559002500 S-adenosylmethionine binding site; other site 105559002501 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 105559002502 Probable Catalytic site; other site 105559002503 metal-binding site 105559002504 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 105559002505 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 105559002506 Ligand binding site; other site 105559002507 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 105559002508 active site 105559002509 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 105559002510 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 105559002511 S-adenosylmethionine binding site; other site 105559002512 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 105559002513 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 105559002514 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; cl11391 105559002515 Viral polyprotein N-terminal; Region: Calici_PP_N; pfam08405 105559002516 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 105559002517 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 105559002518 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 105559002519 putative active site; other site 105559002520 putative catalytic triad; other site 105559002521 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 105559002522 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 105559002523 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 105559002524 Probable Catalytic site; other site 105559002525 metal-binding site 105559002526 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 105559002527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559002528 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 105559002529 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 105559002530 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 105559002531 flagellar motor switch protein; Validated; Region: fliN; PRK05698 105559002532 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 105559002533 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 105559002534 FliP family; Region: FliP; cl00593 105559002535 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 105559002536 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 105559002537 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 105559002538 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 105559002539 FHIPEP family; Region: FHIPEP; cl07980 105559002540 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 105559002541 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 105559002542 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 105559002543 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 105559002544 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 105559002545 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 105559002546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559002547 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 105559002548 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...; Region: Sigma70_r4; cd06171 105559002549 DNA binding residues 105559002550 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 105559002551 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559002552 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559002553 Integral membrane protein TerC family; Region: TerC; cl10468 105559002554 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 105559002555 potassium efflux protein KefA; Provisional; Region: PRK11281 105559002556 potassium efflux protein KefA; Provisional; Region: PRK11281 105559002557 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559002558 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 105559002559 S-adenosylmethionine binding site; other site 105559002560 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...; Region: DnaJ; cd06257 105559002561 HSP70 interaction site; other site 105559002562 Domain of unknown function (DUF336); Region: DUF336; cl01249 105559002563 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 105559002564 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 105559002565 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 105559002566 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 105559002567 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 105559002568 Walker A/P-loop; other site 105559002569 ATP binding site; other site 105559002570 Q-loop/lid; other site 105559002571 ABC transporter signature motif; other site 105559002572 Walker B; other site 105559002573 D-loop; other site 105559002574 H-loop/switch region; other site 105559002575 ABC-2 type transporter; Region: ABC2_membrane; cl11417 105559002576 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 105559002577 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 105559002578 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 105559002579 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 105559002580 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 105559002581 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 C-...; Region: PDZ_serine_protease; cd00987 105559002582 protein binding site; other site 105559002583 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 C-...; Region: PDZ_serine_protease; cd00987 105559002584 protein binding site; other site 105559002585 Domain of unknown function DUF77; Region: DUF77; cl00307 105559002586 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 105559002587 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 105559002588 Protein of unknown function, DUF393; Region: DUF393; cl01136 105559002589 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 105559002590 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559002591 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 105559002592 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 105559002593 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 105559002594 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 105559002595 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 105559002596 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; cl11391 105559002597 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 105559002598 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-...; Region: AGAT_like; cd06451 105559002599 homodimer interface; other site 105559002600 pyridoxal 5'-phosphate binding site; other site 105559002601 catalytic residue; other site 105559002602 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_5; cd06153 105559002603 homotrimer interaction site; other site 105559002604 putative active site; other site 105559002605 Peptidase dimerization domain; Region: M20_dimer; cl09126 105559002606 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 105559002607 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 105559002608 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 105559002609 trimer interface; other site 105559002610 active site 105559002611 substrate binding site; other site 105559002612 CoA binding site; other site 105559002613 aspartate aminotransferase; Provisional; Region: PRK06108 105559002614 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 105559002615 pyridoxal 5'-phosphate binding site; other site 105559002616 homodimer interface; other site 105559002617 catalytic residue; other site 105559002618 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 105559002619 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...; Region: AAA; cd00009 105559002620 Walker A motif; other site 105559002621 ATP binding site; other site 105559002622 Walker B motif; other site 105559002623 hypothetical protein; Reviewed; Region: PRK00092 105559002624 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 105559002625 Sm1 motif; other site 105559002626 predicted subunit interaction site; other site 105559002627 RNA binding pocket; other site 105559002628 Sm2 motif; other site 105559002629 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 105559002630 NusA N-terminal domain; Region: NusA_N; pfam08529 105559002631 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...; Region: S1_NusA; cd04455 105559002632 RNA binding site; other site 105559002633 homodimer interface; other site 105559002634 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 105559002635 G-X-X-G motif; other site 105559002636 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 105559002637 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 105559002638 translation initiation factor IF-2; Validated; Region: infB; PRK05306 105559002639 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 105559002640 translation initiation factor IF-2; Region: IF-2; TIGR00487 105559002641 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 105559002642 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 105559002643 G1 box; other site 105559002644 putative GEF interaction site; other site 105559002645 GTP/Mg2+ binding site; other site 105559002646 Switch I region; other site 105559002647 G2 box; other site 105559002648 G3 box; other site 105559002649 Switch II region; other site 105559002650 G4 box; other site 105559002651 G5 box; other site 105559002652 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...; Region: IF2_mtIF2_II; cd03702 105559002653 Translation-initiation factor 2; Region: IF-2; pfam11987 105559002654 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...; Region: mtIF2_IVc; cd03692 105559002655 Ribosome-binding factor A; Region: RBFA; cl00542 105559002656 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 105559002657 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 105559002658 RNA binding site; other site 105559002659 active site 105559002660 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...; Region: Ribosomal_S15p_S13e; cd00353 105559002661 16S/18S rRNA binding site; other site 105559002662 S13e-L30e interaction site; other site 105559002663 25S rRNA binding site; other site 105559002664 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 105559002665 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 105559002666 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 105559002667 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 105559002668 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 105559002669 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 105559002670 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 105559002671 putative nucleic acid binding region; other site 105559002672 G-X-X-G motif; other site 105559002673 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 105559002674 RNA binding site; other site 105559002675 domain interface; other site 105559002676 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 105559002677 homodimer interface; other site 105559002678 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 105559002679 active site pocket 105559002680 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 105559002681 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 105559002682 active site 1 105559002683 dimer interface; other site 105559002684 active site 2 105559002685 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 105559002686 dinuclear metal binding motif; other site 105559002687 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 105559002688 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 105559002689 tetramer interface; other site 105559002690 TPP-binding site; other site 105559002691 heterodimer interface; other site 105559002692 phosphorylation loop region 105559002693 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 105559002694 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 105559002695 alpha subunit interface; other site 105559002696 TPP binding site; other site 105559002697 heterodimer interface; other site 105559002698 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 105559002699 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 105559002700 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 105559002701 E3 interaction surface; other site 105559002702 lipoyl attachment site; other site 105559002703 e3 binding domain; Region: E3_binding; pfam02817 105559002704 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 105559002705 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 105559002706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559002707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559002708 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 105559002709 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 105559002710 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 105559002711 ANP binding site; other site 105559002712 Substrate Binding Site II; other site 105559002713 Substrate Binding Site I; other site 105559002714 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559002715 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 105559002716 adenylosuccinate lyase; Provisional; Region: PRK09285 105559002717 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 105559002718 tetramer interface; other site 105559002719 active site 105559002720 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 105559002721 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 105559002722 biotin synthetase; Region: bioB; TIGR00433 105559002723 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 105559002724 FeS/SAM binding site; other site 105559002725 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 105559002726 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 105559002727 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-...; Region: KBL_like; cd06454 105559002728 substrate-cofactor binding pocket; other site 105559002729 pyridoxal 5'-phosphate binding site; other site 105559002730 catalytic residue; other site 105559002731 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 105559002732 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559002733 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 105559002734 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 105559002735 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 105559002736 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 105559002737 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 105559002738 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 105559002739 NAD synthetase; Reviewed; Region: nadE; PRK02628 105559002740 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 105559002741 multimer interface; other site 105559002742 active site 105559002743 catalytic triad; other site 105559002744 protein interface 1; other site 105559002745 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...; Region: NAD_synthase; cd00553 105559002746 homodimer interface; other site 105559002747 NAD binding pocket; other site 105559002748 ATP binding pocket; other site 105559002749 Mg binding site; other site 105559002750 active-site loop 105559002751 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002752 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002753 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002754 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002755 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002756 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002757 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002758 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002759 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002760 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002761 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559002762 conserved hypothetical protein TIGR03032; Region: TIGR03032 105559002763 Protein of unknown function, DUF488; Region: DUF488; cl01246 105559002764 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 105559002765 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; cl00660 105559002766 V-type ATP synthase subunit I; Validated; Region: PRK05771 105559002767 ATP synthase subunit C; Region: ATP-synt_C; cl00466 105559002768 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 105559002769 V-type ATP synthase subunit A; Provisional; Region: PRK04192 105559002770 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 105559002771 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 105559002772 Walker A motif/ATP binding site; other site 105559002773 Walker B motif; other site 105559002774 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 105559002775 V-type ATP synthase subunit B; Provisional; Region: PRK04196 105559002776 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...; Region: V_A-ATPase_B; cd01135 105559002777 Walker A motif homologous position; other site 105559002778 Walker B motif; other site 105559002779 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 105559002780 ATP synthase subunit D; Region: ATP-synt_D; cl00613 105559002781 RDD family; Region: RDD; cl00746 105559002782 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 105559002783 active site 105559002784 catalytic triad; other site 105559002785 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 105559002786 active site 105559002787 phosphorylation site 105559002788 intermolecular recognition site; other site 105559002789 dimerization interface; other site 105559002790 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 105559002791 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 105559002792 active site 105559002793 phosphorylation site 105559002794 intermolecular recognition site; other site 105559002795 dimerization interface; other site 105559002796 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 105559002797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 105559002798 Cache domain; Region: Cache_2; pfam08269 105559002799 Histidine kinase; Region: HisKA_3; pfam07730 105559002800 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 105559002801 ATP binding site; other site 105559002802 Mg2+ binding site; other site 105559002803 G-X-G motif; other site 105559002804 Carbon starvation protein CstA; Region: CstA; cl00856 105559002805 Protein of unknown function (DUF466); Region: DUF466; cl01082 105559002806 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 105559002807 Protein of unknown function (DUF423); Region: DUF423; cl01008 105559002808 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 105559002809 active site 105559002810 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 105559002811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559002812 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 105559002813 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 105559002814 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 105559002815 Peptidase M16C associated; Region: M16C_assoc; pfam08367 105559002816 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 105559002817 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 105559002818 motif II; other site 105559002819 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 105559002820 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 105559002821 dimerization interface; other site 105559002822 domain crossover interface; other site 105559002823 redox-dependent activation switch; other site 105559002824 integron integrase; Region: integrase_gron; TIGR02249 105559002825 Integrase core domain; Region: rve; cl01316 105559002826 Transposase; Region: Transposase_14; pfam01710 105559002827 Protein of unknown function (DUF541); Region: SIMPL; cl01077 105559002828 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 105559002829 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 105559002830 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 105559002831 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559002832 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 105559002833 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...; Region: Sigma70_r4; cd06171 105559002834 DNA binding residues 105559002835 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 105559002836 active site 105559002837 catalytic triad; other site 105559002838 oxyanion hole; other site 105559002839 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 105559002840 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 105559002841 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 105559002842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559002843 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 105559002844 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 105559002845 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559002846 Predicted transcriptional regulator [Transcription]; Region: COG2345 105559002847 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 105559002848 Transaldolase-like proteins from plants and bacteria. Transaldolase is found in the non-oxidative branch of the pentose phosphate pathway, that catalyze the reversible transfer of a dihydroxyacetone group from fructose-6-phosphate to erythrose-4-...; Region: Transaldolase_like; cd00955 105559002849 putative active site; other site 105559002850 catalytic residue; other site 105559002851 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 105559002852 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 105559002853 Domain of unknown function DUF20; Region: UPF0118; cl00465 105559002854 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 105559002855 K+ potassium transporter; Region: K_trans; cl01227 105559002856 glutamate dehydrogenase (NAD(P)+); Region: PLN02477 105559002857 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 105559002858 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 105559002859 NAD(P) binding site; other site 105559002860 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 105559002861 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 105559002862 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559002863 ligand binding site; other site 105559002864 Protein of unknown function (DUF489); Region: DUF489; cl01097 105559002865 tRNA-specific 2-thiouridylase MnmA; Reviewed; Region: mnmA; PRK00143 105559002866 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 105559002867 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 105559002868 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 105559002869 active site 105559002870 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 105559002871 substrate binding pocket; other site 105559002872 chain length determination region; other site 105559002873 substrate-Mg2+ binding site; other site 105559002874 catalytic residues; other site 105559002875 aspartate-rich region 1; other site 105559002876 active site lid residues 105559002877 aspartate-rich region 2; other site 105559002878 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 105559002879 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 105559002880 riboflavin kinase, C-terminal domain of the bifunctional riboflavin biosynthesis protein; Region: Flavokinase_C; cd02064 105559002881 active site 105559002882 Riboflavin kinase; Region: Flavokinase; pfam01687 105559002883 Beta-propeller repeat; Region: SBBP; pfam06739 105559002884 Beta-propeller repeat; Region: SBBP; pfam06739 105559002885 Beta-propeller repeat; Region: SBBP; pfam06739 105559002886 Beta-propeller repeat; Region: SBBP; pfam06739 105559002887 Beta-propeller repeat; Region: SBBP; pfam06739 105559002888 glycerate dehydrogenase; Provisional; Region: PRK06487 105559002889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559002890 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 105559002891 conserved hypothetical protein TIGR03440; Region: unchr_TIGR03440 105559002892 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 105559002893 probable methyltransferase; Region: TIGR03438 105559002894 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 105559002895 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...; Region: SHMT; cd00378 105559002896 dimer interface; other site 105559002897 glycine-pyridoxal phosphate binding site; other site 105559002898 active site 105559002899 folate binding site; other site 105559002900 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 105559002901 ATP cone domain; Region: ATP-cone; pfam03477 105559002902 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 105559002903 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 105559002904 catalytic motif; other site 105559002905 Zn binding site; other site 105559002906 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 105559002907 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 105559002908 Lumazine binding domain; Region: Lum_binding; pfam00677 105559002909 Lumazine binding domain; Region: Lum_binding; pfam00677 105559002910 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 105559002911 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 105559002912 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; cl00522 105559002913 dimerization interface; other site 105559002914 active site 105559002915 bacterial Ribonuclease HII-like; Region: RNaseH_typeII_bacteria_HII_like; cd07182 105559002916 active site 105559002917 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 105559002918 PAS domain S-box; Region: sensory_box; TIGR00229 105559002919 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 105559002920 putative active site; other site 105559002921 heme pocket; other site 105559002922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559002923 metal-binding site 105559002924 active site 105559002925 I-site; other site 105559002926 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 105559002927 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 105559002928 putative active site; other site 105559002929 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 105559002930 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 105559002931 G1 box; other site 105559002932 putative GEF interaction site; other site 105559002933 GTP/Mg2+ binding site; other site 105559002934 Switch I region; other site 105559002935 G2 box; other site 105559002936 G3 box; other site 105559002937 Switch II region; other site 105559002938 G4 box; other site 105559002939 G5 box; other site 105559002940 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 105559002941 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where...; Region: Ap4A_hydrolase_plant_like; cd03671 105559002942 putative active site; other site 105559002943 Ap4A binding site; other site 105559002944 nudix motif; other site 105559002945 putative metal binding site; other site 105559002946 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; cl11391 105559002947 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 105559002948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559002949 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 105559002950 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 105559002951 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 105559002952 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 105559002953 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 105559002954 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 105559002955 GatB domain; Region: GatB_Yqey; cl11497 105559002956 N-acetylglutamate synthase; Validated; Region: PRK05279 105559002957 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an N-...; Region: AAK_NAGS-ABP; cd04237 105559002958 putative feedback inhibition sensing region; other site 105559002959 putative nucleotide binding site; other site 105559002960 putative substrate binding site; other site 105559002961 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 105559002962 Coenzyme A binding pocket; other site 105559002963 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 105559002964 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 105559002965 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 105559002966 substrate binding pocket; other site 105559002967 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 105559002968 B12 binding site; other site 105559002969 cobalt ligand; other site 105559002970 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 105559002971 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 105559002972 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 105559002973 PIN domain; Region: PIN; cl09128 105559002974 PhoH-like protein; Region: PhoH; cl12134 105559002975 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 105559002976 nucleoside/Zn binding site; other site 105559002977 dimer interface; other site 105559002978 catalytic motif; other site 105559002979 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...; Region: GMPK; cd00071 105559002980 catalytic site; other site 105559002981 G-X2-G-X-G-K; other site 105559002982 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl00765 105559002983 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 105559002984 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 105559002985 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 105559002986 synthetase active site; other site 105559002987 NTP binding site; other site 105559002988 metal-binding site 105559002989 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...; Region: TGS_RelA_SpoT; cd01668 105559002990 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 105559002991 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 105559002992 homotrimer interaction site; other site 105559002993 putative active site; other site 105559002994 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 105559002995 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 four-...; Region: RecG_wedge_OBF; cd04488 105559002996 ssDNA binding site; other site 105559002997 generic binding surface II; other site 105559002998 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 105559002999 ATP binding site; other site 105559003000 putative Mg++ binding site; other site 105559003001 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 105559003002 nucleotide binding region; other site 105559003003 ATP-binding site; other site 105559003004 UbiA prenyltransferase family; Region: UbiA; cl00337 105559003005 Staphylococcal nuclease homologues; Region: SNc; smart00318 105559003006 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 105559003007 Catalytic site; other site 105559003008 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 105559003009 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 105559003010 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 105559003011 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...; Region: TlpA_like_family; cd02966 105559003012 catalytic residues; other site 105559003013 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 105559003014 ApbE family; Region: ApbE; cl00643 105559003015 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 105559003016 ABC-2 type transporter; Region: ABC2_membrane; cl11417 105559003017 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 105559003018 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 105559003019 Walker A/P-loop; other site 105559003020 ATP binding site; other site 105559003021 Q-loop/lid; other site 105559003022 ABC transporter signature motif; other site 105559003023 Walker B; other site 105559003024 D-loop; other site 105559003025 H-loop/switch region; other site 105559003026 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 105559003027 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 105559003028 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 105559003029 K-box region; Region: K-box; pfam01486 105559003030 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 105559003031 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 105559003032 metal-binding site 105559003033 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 105559003034 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 105559003035 metal-binding site 105559003036 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 105559003037 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 105559003038 metal-binding site 105559003039 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559003040 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_4; cd03795 105559003041 putative ADP-binding pocket; other site 105559003042 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 105559003043 heme-binding residues; other site 105559003044 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 105559003045 molybdopterin cofactor binding site; other site 105559003046 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 105559003047 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 105559003048 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 105559003049 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 105559003050 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 105559003051 Cytochrome c; Region: Cytochrom_C; cl11414 105559003052 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 105559003053 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 105559003054 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 105559003055 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 105559003056 D-pathway; other site 105559003057 Low-spin heme binding site; other site 105559003058 Putative water exit pathway; other site 105559003059 Binuclear center (active site); other site 105559003060 K-pathway; other site 105559003061 Putative proton exit pathway; other site 105559003062 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits...; Region: NorE_like; cd02862 105559003063 Subunit I/III interface; other site 105559003064 caa(3)-type oxidase, subunit IV; Region: caa3_sub_IV; TIGR02229 105559003065 Cytochrome c; Region: Cytochrom_C; cl11414 105559003066 NAD(P)H-quinone oxidoreductase subunit D4; Validated; Region: PRK06473 105559003067 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559003068 NADH dehydrogenase subunit M; Reviewed; Region: PRK05846 105559003069 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559003070 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 105559003071 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559003072 NADH dehydrogenase subunit L; Reviewed; Region: PRK06590 105559003073 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 105559003074 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 105559003075 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 105559003076 NADH dehydrogenase subunit M; Reviewed; Region: PRK05846 105559003077 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559003078 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 105559003079 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 105559003080 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 105559003081 dimer interface; other site 105559003082 TPP-binding site; other site 105559003083 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 105559003084 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 105559003085 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 105559003086 E3 interaction surface; other site 105559003087 lipoyl attachment site; other site 105559003088 e3 binding domain; Region: E3_binding; pfam02817 105559003089 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 105559003090 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 105559003091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559003092 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 105559003093 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...; Region: HNHc; cd00085 105559003094 active site 105559003095 universal stress protein UspE; Provisional; Region: PRK11175 105559003096 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 105559003097 Ligand Binding Site; other site 105559003098 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 105559003099 Ligand Binding Site; other site 105559003100 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 105559003101 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 105559003102 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 105559003103 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 105559003104 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 105559003105 active site 105559003106 metal-binding site 105559003107 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 105559003108 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 105559003109 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 105559003110 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 105559003111 peptide chain release factor 1; Validated; Region: prfA; PRK00591 105559003112 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 105559003113 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 105559003114 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 105559003115 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 105559003116 S-adenosylmethionine binding site; other site 105559003117 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 105559003118 dimer interface; other site 105559003119 substrate binding site; other site 105559003120 ATP binding site; other site 105559003121 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 105559003122 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 105559003123 PYR/PP interface; other site 105559003124 dimer interface; other site 105559003125 TPP binding site; other site 105559003126 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 105559003127 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cd00568 105559003128 TPP-binding site; other site 105559003129 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA)...; Region: CCL_ACL-C; cd06100 105559003130 active site 105559003131 citrylCoA binding site; other site 105559003132 oxalacetate binding site; other site 105559003133 coenzyme A binding site; other site 105559003134 catalytic triad; other site 105559003135 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A (...; Region: CS_ACL-C_CCL; cl00416 105559003136 citrylCoA binding site; other site 105559003137 oxalacetate binding site; other site 105559003138 coenzyme A binding site; other site 105559003139 catalytic triad; other site 105559003140 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 105559003141 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel...; Region: ligand_gated_channel; cd01347 105559003142 N-terminal plug; other site 105559003143 ligand-binding site; other site 105559003144 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 105559003145 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 trans-...; Region: HisKA; cd00082 105559003146 dimer interface; other site 105559003147 phosphorylation site 105559003148 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 105559003149 ATP binding site; other site 105559003150 Mg2+ binding site; other site 105559003151 G-X-G motif; other site 105559003152 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 105559003153 active site 105559003154 phosphorylation site 105559003155 intermolecular recognition site; other site 105559003156 dimerization interface; other site 105559003157 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 105559003158 active site 105559003159 phosphorylation site 105559003160 intermolecular recognition site; other site 105559003161 dimerization interface; other site 105559003162 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 105559003163 putative binding surface; other site 105559003164 active site 105559003165 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 105559003166 active site 105559003167 phosphorylation site 105559003168 intermolecular recognition site; other site 105559003169 dimerization interface; other site 105559003170 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559003171 metal-binding site 105559003172 active site 105559003173 I-site; other site 105559003174 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 105559003175 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 105559003176 Predicted permease; Region: FtsX; cl11418 105559003177 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 105559003178 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 105559003179 Walker A/P-loop; other site 105559003180 ATP binding site; other site 105559003181 Q-loop/lid; other site 105559003182 ABC transporter signature motif; other site 105559003183 Walker B; other site 105559003184 D-loop; other site 105559003185 H-loop/switch region; other site 105559003186 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 105559003187 nucleoside/Zn binding site; other site 105559003188 dimer interface; other site 105559003189 catalytic motif; other site 105559003190 NodT family; Region: outer_NodT; TIGR01845 105559003191 Outer membrane efflux protein; Region: OEP; pfam02321 105559003192 Outer membrane efflux protein; Region: OEP; pfam02321 105559003193 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559003194 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 105559003195 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 105559003196 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559003197 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559003198 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 105559003199 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559003200 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 105559003201 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 105559003202 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 105559003203 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 105559003204 universal stress protein UspE; Provisional; Region: PRK11175 105559003205 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 105559003206 Ligand Binding Site; other site 105559003207 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 105559003208 Ligand Binding Site; other site 105559003209 hypothetical protein; Provisional; Region: PRK11295 105559003210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 105559003211 SEC-C motif; Region: SEC-C; cl12132 105559003212 SEC-C motif; Region: SEC-C; cl12132 105559003213 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 105559003214 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 105559003215 synthetase active site; other site 105559003216 NTP binding site; other site 105559003217 metal-binding site 105559003218 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...; Region: TGS_RelA_SpoT; cd01668 105559003219 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 105559003220 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 105559003221 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 105559003222 ATP binding site; other site 105559003223 putative Mg++ binding site; other site 105559003224 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 105559003225 nucleotide binding region; other site 105559003226 ATP-binding site; other site 105559003227 Helicase associated domain (HA2); Region: HA2; cl04503 105559003228 Domain of unknown function (DUF1605); Region: DUF1605; pfam07717 105559003229 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 105559003230 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 105559003231 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 105559003232 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 105559003233 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 105559003234 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...; Region: S1_Tex; cd05685 105559003235 RNA binding site; other site 105559003236 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 105559003237 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 105559003238 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 105559003239 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 105559003240 FAD binding pocket; other site 105559003241 FAD binding motif; other site 105559003242 catalytic residues; other site 105559003243 NAD binding pocket; other site 105559003244 phosphate binding motif; other site 105559003245 beta-alpha-beta structure motif; other site 105559003246 sulfite reductase subunit beta; Provisional; Region: PRK13504 105559003247 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 105559003248 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 105559003249 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 105559003250 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 105559003251 dimer interface; other site 105559003252 decamer (pentamer of dimers) interface; other site 105559003253 catalytic triad; other site 105559003254 Peptidase family M48; Region: Peptidase_M48; cl12018 105559003255 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559003256 aminopeptidase N; Provisional; Region: pepN; PRK14015 105559003257 Peptidase family M1; Region: Peptidase_M1; pfam01433 105559003258 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 105559003259 pyridoxal 5'-phosphate binding pocket; other site 105559003260 catalytic residue; other site 105559003261 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 105559003262 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 105559003263 PYR/PP interface; other site 105559003264 dimer interface; other site 105559003265 TPP binding site; other site 105559003266 TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as bialaphos tripeptide in Streptomyces hygroscopicus...; Region: TPP_PpyrDC; cd03371 105559003267 TPP-binding site; other site 105559003268 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 105559003269 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 105559003270 tetramer interface; other site 105559003271 active site 105559003272 Mg2+/Mn2+ binding site; other site 105559003273 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 105559003274 active site 105559003275 metal-binding site 105559003276 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 105559003277 active site 105559003278 metal-binding site 105559003279 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 105559003280 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 105559003281 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 105559003282 Active site cavity; active site 105559003283 catalytic acid; other site 105559003284 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 105559003285 active site lid residues 105559003286 substrate binding pocket; other site 105559003287 catalytic residues; other site 105559003288 substrate-Mg2+ binding site; other site 105559003289 aspartate-rich region 1; other site 105559003290 aspartate-rich region 2; other site 105559003291 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 105559003292 catalytic triad; other site 105559003293 dimer interface; other site 105559003294 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 105559003295 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 105559003296 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 105559003297 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 105559003298 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 105559003299 active site clefts 105559003300 zinc binding site; other site 105559003301 dimer interface; other site 105559003302 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 105559003303 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 105559003304 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 105559003305 putative peptidoglycan binding site; other site 105559003306 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 105559003307 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 105559003308 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 105559003309 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 105559003310 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 105559003311 active site 105559003312 metal-binding site 105559003313 Protein of unknown function (DUF525); Region: DUF525; cl01119 105559003314 ROK family; Region: ROK; cl09121 105559003315 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 105559003316 putative active site; other site 105559003317 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 105559003318 Predicted membrane protein [Function unknown]; Region: COG3212 105559003319 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 105559003320 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 105559003321 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 105559003322 active site 105559003323 phosphorylation site 105559003324 intermolecular recognition site; other site 105559003325 dimerization interface; other site 105559003326 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...; Region: trans_reg_C; cd00383 105559003327 DNA binding site 105559003328 sensor protein PhoQ; Provisional; Region: PRK10815 105559003329 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 105559003330 ATP binding site; other site 105559003331 Mg2+ binding site; other site 105559003332 G-X-G motif; other site 105559003333 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 105559003334 Protein of unknown function, DUF399; Region: DUF399; cl01139 105559003335 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 C-...; Region: PDZ_serine_protease; cd00987 105559003336 Uncharacterized protein family (UPF0153); Region: UPF0153; cl00497 105559003337 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 105559003338 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 105559003339 Walker A motif; other site 105559003340 ATP binding site; other site 105559003341 Walker B motif; other site 105559003342 Membrane transport protein; Region: Mem_trans; cl09117 105559003343 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 105559003344 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 105559003345 putative MPT binding site; other site 105559003346 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 105559003347 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; cl12029 105559003348 helicase superfamily c-terminal domain; Region: HELICc2; cl09250 105559003349 Membrane transport protein; Region: Mem_trans; cl09117 105559003350 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 105559003351 Protein of unknown function (DUF989); Region: DUF989; pfam06181 105559003352 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 105559003353 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 105559003354 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 105559003355 Ycf46; Provisional; Region: ycf46; CHL00195 105559003356 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...; Region: AAA; cd00009 105559003357 Walker A motif; other site 105559003358 ATP binding site; other site 105559003359 Walker B motif; other site 105559003360 arginine finger; other site 105559003361 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 105559003362 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559003363 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559003364 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 105559003365 hypothetical protein; Provisional; Region: PRK06847 105559003366 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 105559003367 isocitrate dehydrogenase; Validated; Region: PRK07362 105559003368 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 105559003369 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 105559003370 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 105559003371 Domain of unknown function DUF20; Region: UPF0118; cl00465 105559003372 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 105559003373 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...; Region: DnaJ; cd06257 105559003374 HSP70 interaction site; other site 105559003375 DnaJ C terminal region; Region: DnaJ_C; pfam01556 105559003376 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 105559003377 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 105559003378 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 105559003379 NAD(P) binding site; other site 105559003380 catalytic residues; other site 105559003381 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559003382 Cytochrome c; Region: Cytochrom_C; cl11414 105559003383 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 105559003384 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 105559003385 Binuclear center (active site); other site 105559003386 K-pathway; other site 105559003387 Putative proton exit pathway; other site 105559003388 Putative water exit pathway; other site 105559003389 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...; Region: AAA; cd00009 105559003390 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 105559003391 Walker A motif; other site 105559003392 ATP binding site; other site 105559003393 Walker B motif; other site 105559003394 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 105559003395 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 105559003396 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 105559003397 metal ion-dependent adhesion site (MIDAS); other site 105559003398 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 105559003399 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 105559003400 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 105559003401 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 105559003402 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 105559003403 Trp docking motif; other site 105559003404 active site 105559003405 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 105559003406 MgtE intracellular N domain; Region: MgtE_N; pfam03448 105559003407 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 105559003408 Divalent cation transporter; Region: MgtE; cl00786 105559003409 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1,6-; Region: IMPase_like; cd01637 105559003410 active site 105559003411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 105559003412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559003413 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 105559003414 putative dimerization interface; other site 105559003415 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559003416 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 105559003417 Walker A/P-loop; other site 105559003418 ATP binding site; other site 105559003419 Q-loop/lid; other site 105559003420 ABC transporter signature motif; other site 105559003421 Walker B; other site 105559003422 D-loop; other site 105559003423 H-loop/switch region; other site 105559003424 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 105559003425 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 105559003426 active site 105559003427 substrate binding site; other site 105559003428 Mg2+ binding site; other site 105559003429 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 105559003430 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 105559003431 LemA family; Region: LemA; cl00742 105559003432 Peptidase family M48; Region: Peptidase_M48; cl12018 105559003433 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 105559003434 putative ADP-ribose binding site; other site 105559003435 putative active site; other site 105559003436 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559003437 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 105559003438 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 105559003439 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 105559003440 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 105559003441 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 105559003442 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 105559003443 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel...; Region: ligand_gated_channel; cd01347 105559003444 N-terminal plug; other site 105559003445 ligand-binding site; other site 105559003446 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 105559003447 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 105559003448 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 105559003449 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 105559003450 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 105559003451 Walker A/P-loop; other site 105559003452 ATP binding site; other site 105559003453 Q-loop/lid; other site 105559003454 ABC transporter signature motif; other site 105559003455 Walker B; other site 105559003456 D-loop; other site 105559003457 H-loop/switch region; other site 105559003458 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 105559003459 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 105559003460 IucA / IucC family; Region: IucA_IucC; pfam04183 105559003461 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 105559003462 Siderophore biosynthesis protein domain; Region: AlcB; pfam10331 105559003463 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 105559003464 IucA / IucC family; Region: IucA_IucC; pfam04183 105559003465 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 105559003466 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 105559003467 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 105559003468 HsdM N-terminal domain; Region: HsdM_N; pfam12161 105559003469 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 105559003470 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559003471 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 105559003472 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559003473 Virulence protein [General function prediction only]; Region: COG3943 105559003474 Fic/DOC family; Region: Fic; cl00960 105559003475 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 105559003476 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 105559003477 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 105559003478 ATP binding site; other site 105559003479 putative Mg++ binding site; other site 105559003480 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 105559003481 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 105559003482 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...; Region: OYE_like_FMN_family; cd02803 105559003483 active site 105559003484 FMN binding site; other site 105559003485 substrate binding site; other site 105559003486 putative catalytic residue; other site 105559003487 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 105559003488 Cytochrome c; Region: Cytochrom_C; cl11414 105559003489 Lipoxygenase; Region: Lipoxygenase; pfam00305 105559003490 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 105559003491 active site 105559003492 nucleophile elbow; other site 105559003493 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 105559003494 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 105559003495 Formyl transferase; Region: Formyl_trans_N; cl00395 105559003496 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559003497 transmembrane helices; other site 105559003498 aconitate hydratase; Validated; Region: PRK09277 105559003499 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 105559003500 substrate binding site; other site 105559003501 ligand binding site; other site 105559003502 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 105559003503 substrate binding site; other site 105559003504 MgtE intracellular N domain; Region: MgtE_N; pfam03448 105559003505 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 105559003506 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 105559003507 Divalent cation transporter; Region: MgtE; cl00786 105559003508 glucose-1-dehydrogenase; Provisional; Region: PRK08936 105559003509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559003510 Cation efflux family; Region: Cation_efflux; cl00316 105559003511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 105559003512 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 105559003513 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 105559003514 homodimer interface; other site 105559003515 active site 105559003516 TDP-binding site; other site 105559003517 acceptor substrate-binding pocket; other site 105559003518 ABC-2 type transporter; Region: ABC2_membrane; cl11417 105559003519 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 105559003520 ABC-2 type transporter; Region: ABC2_membrane; cl11417 105559003521 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 105559003522 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559003523 Walker A/P-loop; other site 105559003524 ATP binding site; other site 105559003525 Q-loop/lid; other site 105559003526 ABC transporter signature motif; other site 105559003527 Walker B; other site 105559003528 D-loop; other site 105559003529 H-loop/switch region; other site 105559003530 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 105559003531 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559003532 Walker A/P-loop; other site 105559003533 ATP binding site; other site 105559003534 Q-loop/lid; other site 105559003535 ABC transporter signature motif; other site 105559003536 Walker B; other site 105559003537 D-loop; other site 105559003538 H-loop/switch region; other site 105559003539 hypothetical protein; Provisional; Region: PRK03598 105559003540 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 105559003541 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 105559003542 dimer interface; other site 105559003543 active site 105559003544 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 105559003545 Putative phospholipid-binding domain; Region: BON; cl02771 105559003546 Putative phospholipid-binding domain; Region: BON; cl02771 105559003547 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 higher-...; Region: HU_IHF; cd00591 105559003548 IHF dimer interface; other site 105559003549 IHF - DNA interface; other site 105559003550 peptidyl-prolyl cis-trans isomerase (rotamase D); Provisional; Region: PRK10788 105559003551 PPIC-type PPIASE domain; Region: Rotamase; cl08278 105559003552 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 105559003553 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 105559003554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559003555 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_18; cd08505 105559003556 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 105559003557 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 105559003558 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 105559003559 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 105559003560 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 105559003561 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 105559003562 D-pathway; other site 105559003563 Putative ubiquinol binding site; other site 105559003564 Low-spin heme (heme b) binding site; other site 105559003565 Putative water exit pathway; other site 105559003566 Binuclear center (heme o3/CuB); other site 105559003567 K-pathway; other site 105559003568 Putative proton exit pathway; other site 105559003569 Cytochrome c; Region: Cytochrom_C; cl11414 105559003570 Cytochrome c; Region: Cytochrom_C; cl11414 105559003571 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003572 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003573 hypothetical protein; Provisional; Region: PRK10673 105559003574 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559003575 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 105559003576 active site 105559003577 phosphorylation site 105559003578 intermolecular recognition site; other site 105559003579 dimerization interface; other site 105559003580 PAS domain S-box; Region: sensory_box; TIGR00229 105559003581 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 105559003582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559003583 metal-binding site 105559003584 active site 105559003585 I-site; other site 105559003586 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 105559003587 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 105559003588 active site 105559003589 phosphorylation site 105559003590 intermolecular recognition site; other site 105559003591 dimerization interface; other site 105559003592 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 105559003593 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 105559003594 putative active site; other site 105559003595 heme pocket; other site 105559003596 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 trans-...; Region: HisKA; cd00082 105559003597 dimer interface; other site 105559003598 phosphorylation site 105559003599 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 105559003600 ATP binding site; other site 105559003601 Mg2+ binding site; other site 105559003602 G-X-G motif; other site 105559003603 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 105559003604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559003605 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 105559003606 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 105559003607 inhibitor-cofactor binding pocket; inhibition site 105559003608 pyridoxal 5'-phosphate binding site; other site 105559003609 catalytic residue; other site 105559003610 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 105559003611 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 105559003612 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 105559003613 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A...; Region: LbH_UDP-GlcNAc_AT; cd03351 105559003614 active site 105559003615 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559003616 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 105559003617 GcpE protein; Region: GcpE; pfam04551 105559003618 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 105559003619 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 105559003620 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 105559003621 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 105559003622 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 105559003623 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 105559003624 FeS/SAM binding site; other site 105559003625 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 105559003626 LytB protein; Region: LYTB; cl00507 105559003627 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 105559003628 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 105559003629 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 105559003630 TPP-binding site; other site 105559003631 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 105559003632 PYR/PP interface; other site 105559003633 dimer interface; other site 105559003634 TPP binding site; other site 105559003635 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 105559003636 Copper resistance protein CopC; Region: CopC; cl01012 105559003637 Copper resistance protein D; Region: CopD; cl00563 105559003638 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 105559003639 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 105559003640 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 105559003641 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 105559003642 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 105559003643 THF binding site; other site 105559003644 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 105559003645 substrate binding site; other site 105559003646 THF binding site; other site 105559003647 zinc-binding site; other site 105559003648 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 105559003649 Radical SAM; Region: Elp3; smart00729 105559003650 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 105559003651 FeS/SAM binding site; other site 105559003652 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 105559003653 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 105559003654 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 105559003655 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 105559003656 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 105559003657 active site 105559003658 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 105559003659 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 105559003660 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 105559003661 dimer interface; other site 105559003662 active site 105559003663 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 105559003664 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 105559003665 substrate binding site; other site 105559003666 oxyanion hole (OAH) forming residues; other site 105559003667 trimer interface; other site 105559003668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559003669 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 105559003670 Insertion element protein; Region: Ins_element1; pfam03811 105559003671 IS1 transposase; Region: Transposase_27; cl00721 105559003672 phosphoglucomutase; Region: PLN02307 105559003673 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one...; Region: PGM1; cd03085 105559003674 substrate binding site; other site 105559003675 dimer interface; other site 105559003676 active site 105559003677 metal-binding site 105559003678 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 105559003679 active site 105559003680 dimer interface; other site 105559003681 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 105559003682 N-terminal domain; Region: tspaseT_teng_N; TIGR01765 105559003683 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 105559003684 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 105559003685 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 105559003686 SurA N-terminal domain; Region: SurA_N; pfam09312 105559003687 PPIC-type PPIASE domain; Region: Rotamase; cl08278 105559003688 PPIC-type PPIASE domain; Region: Rotamase; cl08278 105559003689 OstA-like protein; Region: OstA; cl00844 105559003690 organic solvent tolerance protein; Provisional; Region: PRK03761 105559003691 Organic solvent tolerance protein; Region: OstA_C; pfam04453 105559003692 Domain of unknown function (DUF2825); Region: DUF2825; pfam11194 105559003693 CRISPR-associated protein (Cas_Cas2CT1978); Region: Cas_Cas2CT1978; cl08187 105559003694 CRISPR associated protein Cas1; Region: Cas_Cas1; cl00656 105559003695 CRISPR associated protein; Region: CRISPR_assoc; cl08497 105559003696 CRISPR-associated protein Cas5, N-terminal domain; Region: CRISPR_cas5; cl12040 105559003697 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 105559003698 CT1975-like protein; Region: Cas_CT1975; cl09608 105559003699 CRISPR-associated protein Cse2 (CRISPR_cse2); Region: CRISPR_Cse2; cl09719 105559003700 IS1 transposase; Region: Transposase_27; cl00721 105559003701 Insertion element protein; Region: Ins_element1; pfam03811 105559003702 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559003703 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 105559003704 active site 105559003705 phosphorylation site 105559003706 intermolecular recognition site; other site 105559003707 dimerization interface; other site 105559003708 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...; Region: LuxR_C_like; cd06170 105559003709 DNA binding residues 105559003710 dimerization interface; other site 105559003711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559003712 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 105559003713 FemAB family; Region: FemAB; cl11444 105559003714 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 105559003715 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559003716 Arginase family; Region: Arginase; cl00306 105559003717 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 105559003718 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 105559003719 inhibitor-cofactor binding pocket; inhibition site 105559003720 pyridoxal 5'-phosphate binding site; other site 105559003721 catalytic residue; other site 105559003722 Late embryogenesis abundant protein; Region: LEA_2; cl12118 105559003723 Protein of unknown function (DUF1458); Region: DUF1458; cl01328 105559003724 Ferritin-like domain; Region: Ferritin; pfam00210 105559003725 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 105559003726 dinuclear metal binding motif; other site 105559003727 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 105559003728 Proline dehydrogenase; Region: Pro_dh; cl03282 105559003729 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 105559003730 Glutamate binding site; other site 105559003731 NAD binding site; other site 105559003732 catalytic residues; other site 105559003733 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 105559003734 active site 105559003735 phosphorylation site 105559003736 intermolecular recognition site; other site 105559003737 dimerization interface; other site 105559003738 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 105559003739 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 105559003740 putative active site; other site 105559003741 heme pocket; other site 105559003742 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 trans-...; Region: HisKA; cd00082 105559003743 dimer interface; other site 105559003744 phosphorylation site 105559003745 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 105559003746 ATP binding site; other site 105559003747 Mg2+ binding site; other site 105559003748 G-X-G motif; other site 105559003749 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 105559003750 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 105559003751 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559003752 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...; Region: Sigma70_r4; cd06171 105559003753 DNA binding residues 105559003754 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559003755 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 105559003756 active site 105559003757 phosphorylation site 105559003758 intermolecular recognition site; other site 105559003759 dimerization interface; other site 105559003760 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...; Region: LuxR_C_like; cd06170 105559003761 DNA binding residues 105559003762 dimerization interface; other site 105559003763 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 105559003764 active site 105559003765 phosphorylation site 105559003766 intermolecular recognition site; other site 105559003767 dimerization interface; other site 105559003768 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 105559003769 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 105559003770 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 105559003771 putative active site; other site 105559003772 heme pocket; other site 105559003773 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 trans-...; Region: HisKA; cd00082 105559003774 dimer interface; other site 105559003775 phosphorylation site 105559003776 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 105559003777 ATP binding site; other site 105559003778 Mg2+ binding site; other site 105559003779 G-X-G motif; other site 105559003780 Protein of unknown function (DUF540); Region: DUF540; cl01126 105559003781 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 105559003782 DNA binding site 105559003783 dimer interface; other site 105559003784 Int/Topo IB signature motif; other site 105559003785 active site 105559003786 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 105559003787 D-xylulose kinase; Region: XylB; TIGR01312 105559003788 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 105559003789 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 105559003790 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 105559003791 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 105559003792 Walker A/P-loop; other site 105559003793 ATP binding site; other site 105559003794 Q-loop/lid; other site 105559003795 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 105559003796 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 105559003797 ABC transporter signature motif; other site 105559003798 Walker B; other site 105559003799 D-loop; other site 105559003800 H-loop/switch region; other site 105559003801 cell division protein ZipA; Region: septum_zipA; TIGR02205 105559003802 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 105559003803 FtsZ protein binding site; other site 105559003804 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 105559003805 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 105559003806 nucleotide binding pocket; other site 105559003807 K-X-D-G motif; other site 105559003808 catalytic site; other site 105559003809 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 105559003810 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 105559003811 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 105559003812 Dimer interface; other site 105559003813 BRCT sequence motif; other site 105559003814 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 105559003815 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 105559003816 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559003817 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 105559003818 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 105559003819 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559003820 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 105559003821 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 105559003822 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_1; cd08581 105559003823 putative active site; other site 105559003824 catalytic site; other site 105559003825 putative metal binding site; other site 105559003826 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 105559003827 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 105559003828 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 105559003829 active site 105559003830 signature motif; other site 105559003831 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 105559003832 active site 105559003833 signature motif; other site 105559003834 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 105559003835 NAD(P) binding site; other site 105559003836 catalytic residues; other site 105559003837 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 105559003838 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 105559003839 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 105559003840 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 105559003841 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 105559003842 pyridoxal 5'-phosphate binding pocket; other site 105559003843 catalytic residue; other site 105559003844 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 105559003845 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 105559003846 active site 105559003847 PilZ domain; Region: PilZ; cl01260 105559003848 DNA polymerase III subunit delta'; Validated; Region: PRK05707 105559003849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559003850 C terminal; Region: DNApol3-delta_C; pfam09115 105559003851 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting...; Region: TMPK; cd01672 105559003852 thymidylate kinase; Validated; Region: tmk; PRK00698 105559003853 TMP-binding site; other site 105559003854 ATP-binding site; other site 105559003855 YceG-like family; Region: YceG; pfam02618 105559003856 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 105559003857 dimerization interface; other site 105559003858 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 105559003859 Aminotransferase class IV; Region: Aminotran_4; pfam01063 105559003860 pyridoxal 5'-phosphate binding site; other site 105559003861 catalytic residue; other site 105559003862 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 105559003863 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 105559003864 dimer interface; other site 105559003865 active site 105559003866 Phosphopantetheine attachment site; Region: PP-binding; cl09936 105559003867 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 105559003868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559003869 Acyl transferase domain; Region: Acyl_transf_1; cl08282 105559003870 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 105559003871 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 105559003872 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 105559003873 dimer interface; other site 105559003874 active site 105559003875 CoA binding pocket; other site 105559003876 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 105559003877 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 105559003878 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 105559003879 amidophosphoribosyltransferase; Provisional; Region: PRK09246 105559003880 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 105559003881 active site 105559003882 tetramer interface; other site 105559003883 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 105559003884 Colicin V production protein; Region: Colicin_V; cl00567 105559003885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 105559003886 Sporulation related domain; Region: SPOR; cl10051 105559003887 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 105559003888 Found in ATP-dependent protease La (LON); Region: LON; cl01056 105559003889 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...; Region: AAA; cd00009 105559003890 Walker A motif; other site 105559003891 ATP binding site; other site 105559003892 Walker B motif; other site 105559003893 arginine finger; other site 105559003894 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 105559003895 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 105559003896 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 105559003897 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...; Region: AAA; cd00009 105559003898 Walker A motif; other site 105559003899 ATP binding site; other site 105559003900 Walker B motif; other site 105559003901 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 105559003902 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 105559003903 oligomer interface; other site 105559003904 active site residues 105559003905 trigger factor; Provisional; Region: tig; PRK01490 105559003906 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 105559003907 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 105559003908 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 105559003909 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 105559003910 Maltooligosyl trehalose synthase (MTSase) N-terminus domain. MTSase and maltooligosyl trehalose trehalohydrolase (MTHase) work together to produce trehalose. MTSase is responsible for converting the alpha-1,4-glucosidic linkage to an alpha,alpha-1,1-...; Region: MTHase_N_term; cd02853 105559003911 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 105559003912 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 105559003913 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 105559003914 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 105559003915 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 105559003916 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 105559003917 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 105559003918 pyridoxal 5'-phosphate binding pocket; other site 105559003919 catalytic residue; other site 105559003920 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559003921 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 105559003922 serine O-acetyltransferase; Region: cysE; TIGR01172 105559003923 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 L-...; Region: LbH_SAT; cd03354 105559003924 trimer interface; other site 105559003925 active site 105559003926 substrate binding site; other site 105559003927 CoA binding site; other site 105559003928 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 105559003929 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 105559003930 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 105559003931 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 105559003932 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 105559003933 UvrB/uvrC motif; Region: UVR; pfam02151 105559003934 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 105559003935 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 105559003936 transcription-repair coupling factor; Provisional; Region: PRK10689 105559003937 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 105559003938 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 105559003939 ATP binding site; other site 105559003940 putative Mg++ binding site; other site 105559003941 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 105559003942 nucleotide binding region; other site 105559003943 ATP-binding site; other site 105559003944 TRCF domain; Region: TRCF; pfam03461 105559003945 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 105559003946 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 105559003947 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 105559003948 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559003949 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 105559003950 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 105559003951 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 105559003952 dimer interface; other site 105559003953 active site residues 105559003954 NfeD-like; Region: NfeD; cl00686 105559003955 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional; Region: PRK11840 105559003956 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 105559003957 thiS-thiF/thiG interaction site; other site 105559003958 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 105559003959 ThiS interaction site; other site 105559003960 putative active site; other site 105559003961 tetramer interface; other site 105559003962 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559003963 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 105559003964 active site 105559003965 phosphorylation site 105559003966 intermolecular recognition site; other site 105559003967 dimerization interface; other site 105559003968 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...; Region: LuxR_C_like; cd06170 105559003969 DNA binding residues 105559003970 dimerization interface; other site 105559003971 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 105559003972 ligand binding site; other site 105559003973 flexible hinge region; other site 105559003974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559003975 fumarate hydratase; Reviewed; Region: fumC; PRK00485 105559003976 Class II fumarases; Region: Fumarase_classII; cd01362 105559003977 active site 105559003978 tetramer interface; other site 105559003979 Permease family; Region: Xan_ur_permease; cl00967 105559003980 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 105559003981 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 105559003982 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 connected by an extended linker. The...; Region: HAMP; cl01054 105559003983 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 trans-...; Region: HisKA; cl00080 105559003984 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 105559003985 ATP binding site; other site 105559003986 G-X-G motif; other site 105559003987 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559003988 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 105559003989 active site 105559003990 phosphorylation site 105559003991 intermolecular recognition site; other site 105559003992 dimerization interface; other site 105559003993 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...; Region: AAA; cd00009 105559003994 Walker A motif; other site 105559003995 ATP binding site; other site 105559003996 Walker B motif; other site 105559003997 arginine finger; other site 105559003998 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 105559003999 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559004000 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 105559004001 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 105559004002 Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]; Region: LysS; COG1384 105559004003 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559004004 active site 105559004005 nucleotide binding site; other site 105559004006 HIGH motif; other site 105559004007 KMSKS motif; other site 105559004008 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 105559004009 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 105559004010 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 105559004011 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 105559004012 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 105559004013 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 105559004014 GAF domain; Region: GAF; cl00853 105559004015 PAS domain S-box; Region: sensory_box; TIGR00229 105559004016 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 105559004017 putative active site; other site 105559004018 heme pocket; other site 105559004019 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559004020 metal-binding site 105559004021 active site 105559004022 I-site; other site 105559004023 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 105559004024 glutathione reductase; Validated; Region: PRK06116 105559004025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559004026 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 105559004027 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 105559004028 anti sigma factor interaction site; other site 105559004029 regulatory phosphorylation site; other site 105559004030 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 105559004031 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 105559004032 substrate binding site; other site 105559004033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559004034 Helix-turn-helix domain; Region: HTH_14; pfam12323 105559004035 Probable transposase; Region: Transposase_2; pfam01385 105559004036 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 105559004037 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 105559004038 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The N-...; Region: GltS; cd00713 105559004039 active site 105559004040 dimer interface; other site 105559004041 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 105559004042 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant...; Region: GltS_FMN; cd02808 105559004043 active site 105559004044 FMN binding site; other site 105559004045 substrate binding site; other site 105559004046 3Fe-4S cluster binding site; other site 105559004047 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 105559004048 domain interface; other site 105559004049 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 105559004050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559004051 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 105559004052 CheB methylesterase; Region: CheB_methylest; pfam01339 105559004053 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 105559004054 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 105559004055 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 105559004056 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 105559004057 PAS fold; Region: PAS_4; pfam08448 105559004058 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 105559004059 putative active site; other site 105559004060 heme pocket; other site 105559004061 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 105559004062 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 105559004063 ATP binding site; other site 105559004064 Mg2+ binding site; other site 105559004065 G-X-G motif; other site 105559004066 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 105559004067 active site 105559004068 phosphorylation site 105559004069 intermolecular recognition site; other site 105559004070 dimerization interface; other site 105559004071 putative RNA 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 105559004072 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 105559004073 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 105559004074 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...; Region: Alpha_ANH_like_II; cd01993 105559004075 Ligand Binding Site; other site 105559004076 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 105559004077 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 105559004078 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 105559004079 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 105559004080 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 105559004081 Protein of unknown function (DUF969); Region: DUF969; cl01573 105559004082 Protein of unknown function (DUF421); Region: DUF421; cl00990 105559004083 Domain of unknown function (DUF389); Region: DUF389; cl00781 105559004084 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal...; Region: FNR_like_1; cd06196 105559004085 FAD binding pocket; other site 105559004086 FAD binding motif; other site 105559004087 phosphate binding motif; other site 105559004088 beta-alpha-beta structure motif; other site 105559004089 NAD binding pocket; other site 105559004090 MutS domain III; Region: MutS_III; cl04977 105559004091 The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that...; Region: ABC_MutS_homologs; cd03243 105559004092 Walker A/P-loop; other site 105559004093 ATP binding site; other site 105559004094 Q-loop/lid; other site 105559004095 ABC transporter signature motif; other site 105559004096 Walker B; other site 105559004097 D-loop; other site 105559004098 H-loop/switch region; other site 105559004099 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 105559004100 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)-...; Region: DHOD_e_trans_like; cd06192 105559004101 FAD binding pocket; other site 105559004102 FAD binding motif; other site 105559004103 phosphate binding motif; other site 105559004104 beta-alpha-beta structure motif; other site 105559004105 NAD binding pocket; other site 105559004106 Iron coordination center; other site 105559004107 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 105559004108 Phd_YefM; Region: PhdYeFM; cl09153 105559004109 malic enzyme; Reviewed; Region: PRK07232 105559004110 Malic enzyme, N-terminal domain; Region: malic; pfam00390 105559004111 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 105559004112 putative NAD(P) binding site; other site 105559004113 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 105559004114 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 105559004115 Transposase [DNA replication, recombination, and repair]; Region: COG5433 105559004116 Transposase DDE domain; Region: Transposase_11; pfam01609 105559004117 Transposase [DNA replication, recombination, and repair]; Region: COG5433 105559004118 Transposase [DNA replication, recombination, and repair]; Region: COG5433 105559004119 L-lactate permease; Region: Lactate_perm; cl00701 105559004120 L-lactate permease; Region: Lactate_perm; cl00701 105559004121 Protein of unknown function, DUF488; Region: DUF488; cl01246 105559004122 Sodium:solute symporter family; Region: SSF; cl00456 105559004123 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 105559004124 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 105559004125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 105559004126 Coenzyme A binding pocket; other site 105559004127 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 105559004128 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 105559004129 inhibitor-cofactor binding pocket; inhibition site 105559004130 pyridoxal 5'-phosphate binding site; other site 105559004131 catalytic residue; other site 105559004132 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 105559004133 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 105559004134 metabolite-proton symporter; Region: 2A0106; TIGR00883 105559004135 putative substrate translocation pore; other site 105559004136 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 105559004137 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a...; Region: GT1_AviGT4_like; cd03802 105559004138 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559004139 putative ADP-binding pocket; other site 105559004140 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 105559004141 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 105559004142 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 105559004143 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 105559004144 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 105559004145 GAF domain; Region: GAF; cl00853 105559004146 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 105559004147 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 105559004148 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 105559004149 Protein of unknown function (DUF785); Region: DUF785; cl01682 105559004150 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 105559004151 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559004152 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_1; cd06251 105559004153 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 105559004154 putative active site; other site 105559004155 Zn-binding site; other site 105559004156 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 105559004157 putative substrate translocation pore; other site 105559004158 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 105559004159 ferrochelatase; Reviewed; Region: hemH; PRK00035 105559004160 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 105559004161 C-terminal domain interface; other site 105559004162 active site 105559004163 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 105559004164 active site 105559004165 N-terminal domain interface; other site 105559004166 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 105559004167 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559004168 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559004169 Outer membrane efflux protein; Region: OEP; pfam02321 105559004170 Outer membrane efflux protein; Region: OEP; pfam02321 105559004171 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 105559004172 Outer membrane efflux protein; Region: OEP; pfam02321 105559004173 Outer membrane efflux protein; Region: OEP; pfam02321 105559004174 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 105559004175 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 105559004176 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 105559004177 Protein of unknown function (DUF330); Region: DUF330; cl01135 105559004178 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 105559004179 mce related protein; Region: MCE; pfam02470 105559004180 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 105559004181 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559004182 Walker A/P-loop; other site 105559004183 ATP binding site; other site 105559004184 Q-loop/lid; other site 105559004185 ABC transporter signature motif; other site 105559004186 Walker B; other site 105559004187 D-loop; other site 105559004188 H-loop/switch region; other site 105559004189 Domain of unknown function DUF140; Region: DUF140; cl00510 105559004190 Cation efflux family; Region: Cation_efflux; cl00316 105559004191 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 105559004192 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 105559004193 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; cl11391 105559004194 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559004195 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 105559004196 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 105559004197 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 105559004198 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 105559004199 Outer membrane efflux protein; Region: OEP; pfam02321 105559004200 Outer membrane efflux protein; Region: OEP; pfam02321 105559004201 putative glycosyl transferase; Provisional; Region: PRK10307 105559004202 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 105559004203 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 105559004204 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 105559004205 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 105559004206 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 105559004207 protein binding site; other site 105559004208 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559004209 transmembrane helices; other site 105559004210 NeuB family; Region: NeuB; cl00496 105559004211 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 105559004212 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 105559004213 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel...; Region: ligand_gated_channel; cd01347 105559004214 N-terminal plug; other site 105559004215 ligand-binding site; other site 105559004216 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 105559004217 NnrS protein; Region: NnrS; cl01258 105559004218 Domain of unknown function DUF59; Region: DUF59; cl00941 105559004219 Copper resistance protein D; Region: CopD; cl00563 105559004220 Uncharacterized conserved protein [Function unknown]; Region: COG3391 105559004221 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 105559004222 GST_C family, ECM4-like subfamily; composed of predominantly uncharacterized and taxonomically diverse proteins with similarity to the translation product of the Saccharomyces cerevisiae gene ECM4. ECM4, a gene of unknown function, is involved in cell...; Region: GST_C_ECM4_like; cd03190 105559004223 Pirin-related protein [General function prediction only]; Region: COG1741 105559004224 Cupin domain; Region: Cupin_2; cl09118 105559004225 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 105559004226 Transcriptional regulator [Transcription]; Region: LysR; COG0583 105559004227 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559004228 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 105559004229 putative effector binding pocket; other site 105559004230 putative dimerization interface; other site 105559004231 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 105559004232 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 105559004233 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 105559004234 allantoate amidohydrolase; Reviewed; Region: PRK12890 105559004235 Peptidase dimerization domain; Region: M20_dimer; cl09126 105559004236 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 C-...; Region: PDZ_serine_protease; cd00987 105559004237 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 105559004238 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559004239 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559004240 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559004241 Uncharacterized conserved protein [Function unknown]; Region: COG3391 105559004242 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 105559004243 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 105559004244 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 105559004245 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 105559004246 putative lipid kinase; Reviewed; Region: PRK00861 105559004247 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 105559004248 phosphoenolpyruvate synthase; Validated; Region: PRK06464 105559004249 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 105559004250 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 105559004251 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 105559004252 Uncharacterized protein family UPF0057; Region: UPF0057; cl00431 105559004253 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 105559004254 Domain of unknown function DUF20; Region: UPF0118; cl00465 105559004255 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 105559004256 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 105559004257 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 105559004258 Outer membrane efflux protein; Region: OEP; pfam02321 105559004259 Outer membrane efflux protein; Region: OEP; pfam02321 105559004260 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 105559004261 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 105559004262 Protein of unknown function, DUF599; Region: DUF599; cl01575 105559004263 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 105559004264 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 105559004265 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 105559004266 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 105559004267 Ferritin-like domain; Region: Ferritin; pfam00210 105559004268 heme binding site; other site 105559004269 ferroxidase pore; other site 105559004270 ferroxidase diiron center; other site 105559004271 NnrS protein; Region: NnrS; cl01258 105559004272 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 105559004273 Ligand Binding Site; other site 105559004274 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 105559004275 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 105559004276 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 105559004277 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; cl11391 105559004278 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 105559004279 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 105559004280 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 105559004281 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 105559004282 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 C-...; Region: PDZ_serine_protease; cd00987 105559004283 protein binding site; other site 105559004284 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 105559004285 catalytic core; other site 105559004286 Y-family of DNA polymerases; Region: Pol_Y; cl12025 105559004287 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 105559004288 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 105559004289 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 105559004290 substrate binding site; other site 105559004291 catalytic Zn binding site; other site 105559004292 NAD binding site; other site 105559004293 structural Zn binding site; other site 105559004294 dimer interface; other site 105559004295 Predicted esterase [General function prediction only]; Region: COG0627 105559004296 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559004297 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 105559004298 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 105559004299 active site 105559004300 nucleophile elbow; other site 105559004301 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 105559004302 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 105559004303 homodecamer interface; other site 105559004304 GTP cyclohydrolase I; Provisional; Region: PLN03044 105559004305 active site 105559004306 putative catalytic site residues; other site 105559004307 zinc binding site; other site 105559004308 GTP-CH-I/GFRP interaction surface; other site 105559004309 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 105559004310 putative active site; other site 105559004311 putative dimer interface; other site 105559004312 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 105559004313 putative dimer interface; other site 105559004314 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 105559004315 Found in ATP-dependent protease La (LON); Region: LON; cl01056 105559004316 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...; Region: AAA; cd00009 105559004317 Walker A motif; other site 105559004318 ATP binding site; other site 105559004319 Walker B motif; other site 105559004320 arginine finger; other site 105559004321 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 105559004322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 105559004323 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 105559004324 Protein of unknown function (DUF511); Region: DUF511; cl01114 105559004325 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 105559004326 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 105559004327 FtsH Extracellular; Region: FtsH_ext; pfam06480 105559004328 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 105559004329 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...; Region: AAA; cd00009 105559004330 Walker A motif; other site 105559004331 ATP binding site; other site 105559004332 Walker B motif; other site 105559004333 arginine finger; other site 105559004334 Peptidase family M41; Region: Peptidase_M41; pfam01434 105559004335 YfdX protein; Region: YfdX; pfam10938 105559004336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 105559004337 Smr domain; Region: Smr; cl02619 105559004338 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 105559004339 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 105559004340 dimerization interface; other site 105559004341 ATP binding site; other site 105559004342 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 105559004343 dimerization interface; other site 105559004344 ATP binding site; other site 105559004345 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 105559004346 putative active site; other site 105559004347 catalytic triad; other site 105559004348 RDD family; Region: RDD; cl00746 105559004349 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 105559004350 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 105559004351 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559004352 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...; Region: AAA; cd00009 105559004353 Walker A motif; other site 105559004354 ATP binding site; other site 105559004355 Walker B motif; other site 105559004356 arginine finger; other site 105559004357 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 105559004358 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 105559004359 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cl12059 105559004360 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 105559004361 active site 105559004362 signature motif; other site 105559004363 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 105559004364 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559004365 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 105559004366 C-term; Region: GreA_GreB; pfam01272 105559004367 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 105559004368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559004369 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 105559004370 putative effector binding pocket; other site 105559004371 dimerization interface; other site 105559004372 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 105559004373 Protein of unknown function, DUF393; Region: DUF393; cl01136 105559004374 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 105559004375 FAD binding domain; Region: FAD_binding_4; cl10516 105559004376 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 105559004377 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 105559004378 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 105559004379 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel...; Region: ligand_gated_channel; cd01347 105559004380 N-terminal plug; other site 105559004381 ligand-binding site; other site 105559004382 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 105559004383 catalytic core; other site 105559004384 ferredoxin; Validated; Region: PRK07118 105559004385 Phosphopantetheine adenylyltransferase; Region: PPAT_a; cd02163 105559004386 active site 105559004387 substrate binding site; other site 105559004388 active site motif 105559004389 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 105559004390 S-adenosylmethionine binding site; other site 105559004391 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 105559004392 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 105559004393 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 105559004394 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 105559004395 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 105559004396 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 105559004397 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 105559004398 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 105559004399 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 105559004400 P loop; other site 105559004401 GTP binding site; other site 105559004402 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 105559004403 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559004404 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...; Region: Sigma70_r4; cd06171 105559004405 DNA binding residues 105559004406 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 105559004407 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 105559004408 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559004409 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 105559004410 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 105559004411 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 105559004412 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 105559004413 O-Antigen ligase; Region: Wzy_C; cl04850 105559004414 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 105559004415 acyl-CoA ligase (AMP-forming), exosortase system type 1 associated; Region: ligase_PEP_1; TIGR03098 105559004416 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 105559004417 pyridoxal-dependent decarboxylase, exosortase system type 1 associated; Region: dCO2ase_PEP1; TIGR03099 105559004418 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 105559004419 dimer interface; other site 105559004420 active site 105559004421 pyridoxal 5'-phosphate (PLP) binding site; other site 105559004422 catalytic residues; other site 105559004423 substrate binding site; other site 105559004424 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 105559004425 hydrolase, ortholog 1, exosortase system type 1 associated; Region: hydr1_PEP; TIGR03100 105559004426 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559004427 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559004428 hydrolase, ortholog 2, exosortase system type 1 associated; Region: hydr2_PEP; TIGR03101 105559004429 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559004430 Phosphopantetheine attachment site; Region: PP-binding; cl09936 105559004431 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 105559004432 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 105559004433 Ligand Binding Site; other site 105559004434 Molecular Tunnel; other site 105559004435 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 105559004436 TPR motif; other site 105559004437 binding surface 105559004438 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 105559004439 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 105559004440 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 105559004441 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 105559004442 S-adenosylmethionine binding site; other site 105559004443 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 105559004444 ATP binding site; other site 105559004445 active site 105559004446 Heparinase II/III-like protein; Region: Hepar_II_III; cl02215 105559004447 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 105559004448 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 105559004449 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 105559004450 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 105559004451 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 105559004452 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 105559004453 active site 105559004454 dimer interface; other site 105559004455 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 105559004456 Ligand Binding Site; other site 105559004457 Molecular Tunnel; other site 105559004458 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 105559004459 active site 105559004460 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 105559004461 homodimer interface; other site 105559004462 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 105559004463 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 105559004464 putative ADP-binding pocket; other site 105559004465 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; cl10495 105559004466 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 105559004467 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 105559004468 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 105559004469 FemAB family; Region: FemAB; cl11444 105559004470 polysaccharide deactylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 105559004471 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 105559004472 Domain of unknown function (DUF3473); Region: DUF3473; pfam11959 105559004473 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 105559004474 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 105559004475 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 105559004476 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 105559004477 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 105559004478 Chain length determinant protein; Region: Wzz; cl01623 105559004479 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 105559004480 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 105559004481 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 105559004482 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 105559004483 binding surface 105559004484 TPR motif; other site 105559004485 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 105559004486 binding surface 105559004487 TPR motif; other site 105559004488 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 105559004489 binding surface 105559004490 TPR motif; other site 105559004491 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 105559004492 binding surface 105559004493 TPR motif; other site 105559004494 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 105559004495 binding surface 105559004496 TPR motif; other site 105559004497 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 105559004498 binding surface 105559004499 TPR motif; other site 105559004500 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 105559004501 TPR motif; other site 105559004502 binding surface 105559004503 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 105559004504 TPR motif; other site 105559004505 binding surface 105559004506 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 105559004507 TPR motif; other site 105559004508 binding surface 105559004509 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 105559004510 FAD binding domain; Region: FAD_binding_4; cl10516 105559004511 PEP-CTERM motif; Region: VPEP; pfam07589 105559004512 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl00357 105559004513 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl00357 105559004514 putative PEP-CTERM system response regulator; Region: PEP_resp_reg; TIGR02915 105559004515 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 105559004516 active site 105559004517 phosphorylation site 105559004518 intermolecular recognition site; other site 105559004519 dimerization interface; other site 105559004520 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...; Region: AAA; cd00009 105559004521 Walker A motif; other site 105559004522 ATP binding site; other site 105559004523 Walker B motif; other site 105559004524 arginine finger; other site 105559004525 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 105559004526 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 105559004527 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 trans-...; Region: HisKA; cd00082 105559004528 dimer interface; other site 105559004529 phosphorylation site 105559004530 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 105559004531 ATP binding site; other site 105559004532 Mg2+ binding site; other site 105559004533 G-X-G motif; other site 105559004534 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 105559004535 Bacterial sugar transferase; Region: Bac_transf; cl00939 105559004536 Cytochrome c; Region: Cytochrom_C; cl11414 105559004537 Dehydratase family; Region: ILVD_EDD; cl00340 105559004538 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 105559004539 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 105559004540 UvrD/REP helicase; Region: UvrD-helicase; cl14126 105559004541 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 105559004542 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559004543 Protein of unknown function (DUF526); Region: DUF526; cl01115 105559004544 Protein of unknown function (DUF1597); Region: DUF1597; pfam07642 105559004545 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 105559004546 active site 105559004547 metal-binding site 105559004548 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 105559004549 Protein of unknown function (DUF1597); Region: DUF1597; pfam07642 105559004550 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 105559004551 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559004552 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 105559004553 active site residue 105559004554 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cl12032 105559004555 hypothetical protein; Reviewed; Region: PRK09588 105559004556 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 105559004557 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 105559004558 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 105559004559 ATP binding site; other site 105559004560 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; cl12029 105559004561 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 105559004562 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559004563 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 105559004564 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 105559004565 active site 105559004566 NTP binding site; other site 105559004567 metal binding triad; metal-binding site 105559004568 antibiotic binding site; other site 105559004569 HsdM N-terminal domain; Region: HsdM_N; pfam12161 105559004570 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 105559004571 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 105559004572 SmpB protein; Region: SmpB; cl00482 105559004573 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 105559004574 Uncharacterized protein family (UPF0125); Region: UPF0125; cl01096 105559004575 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 105559004576 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 105559004577 metal binding site 2; metal-binding site 105559004578 putative DNA binding helix; other site 105559004579 metal binding site 1; metal-binding site 105559004580 dimer interface; other site 105559004581 structural Zn2+ binding site; other site 105559004582 CAAX amino terminal protease family; Region: Abi; cl00558 105559004583 MarC family integral membrane protein; Region: MarC; cl00919 105559004584 recombination and repair protein; Provisional; Region: PRK10869 105559004585 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 105559004586 Walker A/P-loop; other site 105559004587 ATP binding site; other site 105559004588 Q-loop/lid; other site 105559004589 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 105559004590 ABC transporter signature motif; other site 105559004591 Walker B; other site 105559004592 D-loop; other site 105559004593 H-loop/switch region; other site 105559004594 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 105559004595 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 105559004596 DHH family; Region: DHH; pfam01368 105559004597 DHHA1 domain; Region: DHHA1; pfam02272 105559004598 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl12023 105559004599 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 105559004600 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...; Region: AAA; cd00009 105559004601 Walker A motif; other site 105559004602 ATP binding site; other site 105559004603 Walker B motif; other site 105559004604 arginine finger; other site 105559004605 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 105559004606 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; cl01278 105559004607 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 105559004608 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...; Region: PurM; cd02196 105559004609 dimerization interface; other site 105559004610 putative ATP binding site; other site 105559004611 Formyl transferase; Region: Formyl_trans_N; cl00395 105559004612 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 105559004613 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 105559004614 trimer interface; other site 105559004615 active site 105559004616 Preprotein translocase subunit; Region: YajC; cl00806 105559004617 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 105559004618 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 105559004619 Probable Catalytic site; other site 105559004620 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559004621 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559004622 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559004623 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 105559004624 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 105559004625 electron transport complex protein RnfB; Provisional; Region: PRK05113 105559004626 Putative Fe-S cluster; Region: FeS; pfam04060 105559004627 4Fe-4S binding domain; Region: Fer4; pfam00037 105559004628 C subunit; Region: rnfC; TIGR01945 105559004629 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 105559004630 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 105559004631 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 alpha-; Region: HCP_like; cl00255 105559004632 electron transport complex protein RnfC; Provisional; Region: PRK05035 105559004633 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 105559004634 FMN-binding domain; Region: FMN_bind; cl01081 105559004635 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 105559004636 endonuclease III; Provisional; Region: PRK10702 105559004637 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 105559004638 minor groove reading motif; other site 105559004639 helix-hairpin-helix signature motif; other site 105559004640 substrate binding pocket; other site 105559004641 active site 105559004642 FES domain; Region: FES; smart00525 105559004643 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 105559004644 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 105559004645 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 105559004646 ATP binding site; other site 105559004647 Mg2+ binding site; other site 105559004648 G-X-G motif; other site 105559004649 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 105559004650 nucleoside/Zn binding site; other site 105559004651 dimer interface; other site 105559004652 catalytic motif; other site 105559004653 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 105559004654 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 105559004655 heme binding pocket; other site 105559004656 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 105559004657 domain interactions; other site 105559004658 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 105559004659 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559004660 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 105559004661 catalytic motif; other site 105559004662 Catalytic residue; other site 105559004663 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 105559004664 active site 105559004665 catalytic triad; other site 105559004666 oxyanion hole; other site 105559004667 switch loop; other site 105559004668 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 105559004669 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559004670 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 105559004671 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 105559004672 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 105559004673 homodimer interface; other site 105559004674 substrate-cofactor binding pocket; other site 105559004675 pyridoxal 5'-phosphate binding site; other site 105559004676 catalytic residue; other site 105559004677 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 105559004678 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl00357 105559004679 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 105559004680 DNA binding residues 105559004681 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 higher-...; Region: HU_IHF; cd00591 105559004682 IHF dimer interface; other site 105559004683 IHF - DNA interface; other site 105559004684 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 105559004685 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 105559004686 putative tRNA-binding site; other site 105559004687 B3/4 domain; Region: B3_4; cl11458 105559004688 tRNA synthetase B5 domain; Region: B5; cl08394 105559004689 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 105559004690 dimer interface; other site 105559004691 motif 1; other site 105559004692 motif 3; other site 105559004693 motif 2; other site 105559004694 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 105559004695 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 105559004696 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 105559004697 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 105559004698 dimer interface; other site 105559004699 motif 1; other site 105559004700 active site 105559004701 motif 2; other site 105559004702 motif 3; other site 105559004703 Ribosomal protein L20; Region: Ribosomal_L20; cl00393 105559004704 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 105559004705 translation initiation factor IF-3; Region: infC; TIGR00168 105559004706 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 105559004707 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 105559004708 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 105559004709 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...; Region: TGS_ThrRS_N; cd01667 105559004710 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 105559004711 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 105559004712 active site 105559004713 dimer interface; other site 105559004714 motif 1; other site 105559004715 motif 2; other site 105559004716 motif 3; other site 105559004717 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 105559004718 anticodon binding site; other site 105559004719 excinuclease ABC subunit B; Provisional; Region: PRK05298 105559004720 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 105559004721 ATP binding site; other site 105559004722 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 105559004723 nucleotide binding region; other site 105559004724 ATP-binding site; other site 105559004725 Ultra-violet resistance protein B; Region: UvrB; pfam12344 105559004726 UvrB/uvrC motif; Region: UVR; pfam02151 105559004727 aspartate aminotransferase; Provisional; Region: PRK06108 105559004728 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 105559004729 pyridoxal 5'-phosphate binding site; other site 105559004730 homodimer interface; other site 105559004731 catalytic residue; other site 105559004732 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...; Region: HNHc; cd00085 105559004733 active site 105559004734 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 105559004735 Domain of unknown function DUF29; Region: DUF29; pfam01724 105559004736 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 105559004737 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 105559004738 nucleotide binding region; other site 105559004739 ATP-binding site; other site 105559004740 Restriction endonuclease; Region: Mrr_cat; cl00747 105559004741 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 105559004742 flagellar motor protein MotB; Validated; Region: motB; PRK06667 105559004743 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 105559004744 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 105559004745 dimer interface; other site 105559004746 substrate binding site; other site 105559004747 metal binding sites; metal-binding site 105559004748 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 105559004749 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 105559004750 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 105559004751 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559004752 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 105559004753 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 105559004754 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 105559004755 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 105559004756 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 105559004757 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 105559004758 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 105559004759 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...; Region: TRX_Fd_NuoE; cd03064 105559004760 putative dimer interface; other site 105559004761 [2Fe-2S] cluster binding site; other site 105559004762 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 105559004763 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 105559004764 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 105559004765 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 105559004766 NADH dehydrogenase subunit G; Validated; Region: PRK08166 105559004767 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 105559004768 catalytic loop; other site 105559004769 iron binding site; other site 105559004770 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 105559004771 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 105559004772 [4Fe-4S] binding site; other site 105559004773 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 105559004774 NADH dehydrogenase; Region: NADHdh; cl00469 105559004775 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 105559004776 4Fe-4S binding domain; Region: Fer4; pfam00037 105559004777 NADH dehydrogenase subunit J; Provisional; Region: PRK06638 105559004778 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 105559004779 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 105559004780 NADH dehydrogenase subunit L; Reviewed; Region: PRK06590 105559004781 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 105559004782 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559004783 NADH dehydrogenase subunit M; Reviewed; Region: PRK05846 105559004784 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559004785 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559004786 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 105559004787 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 105559004788 putative active site; other site 105559004789 catalytic site; other site 105559004790 putative metal binding site; other site 105559004791 Protein of unknown function (DUF454); Region: DUF454; cl01063 105559004792 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 105559004793 Protein of unknown function (DUF2283); Region: DUF2283; cl02251 105559004794 YcfA-like protein; Region: YcfA; cl00752 105559004795 Protein of unknown function (DUF497); Region: DUF497; cl01108 105559004796 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 105559004797 HIRAN domain; Region: HIRAN; pfam08797 105559004798 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 105559004799 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 105559004800 Rdx family; Region: Rdx; cl01407 105559004801 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 105559004802 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559004803 HIGH motif; other site 105559004804 active site 105559004805 nucleotide binding site; other site 105559004806 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 105559004807 active site 105559004808 KMSKS motif; other site 105559004809 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 105559004810 tRNA binding surface; other site 105559004811 anticodon binding site; other site 105559004812 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 105559004813 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 105559004814 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 105559004815 Transcriptional regulators [Transcription]; Region: MarR; COG1846 105559004816 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559004817 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 105559004818 Peptidase dimerization domain; Region: M20_dimer; cl09126 105559004819 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 105559004820 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 105559004821 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559004822 Protein of unknown function (DUF785); Region: DUF785; cl01682 105559004823 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 105559004824 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 105559004825 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 105559004826 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 105559004827 putative NAD(P) binding site; other site 105559004828 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 105559004829 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 105559004830 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 105559004831 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 105559004832 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 105559004833 ATP binding site; other site 105559004834 putative Mg++ binding site; other site 105559004835 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 105559004836 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 105559004837 nucleotide binding region; other site 105559004838 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 105559004839 ATP-binding site; other site 105559004840 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 105559004841 FecR protein; Region: FecR; pfam04773 105559004842 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 105559004843 TPR motif; other site 105559004844 binding surface 105559004845 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 105559004846 binding surface 105559004847 TPR motif; other site 105559004848 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 105559004849 TPR motif; other site 105559004850 binding surface 105559004851 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 105559004852 binding surface 105559004853 TPR motif; other site 105559004854 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16...; Region: OM_channels; cl00284 105559004855 CHASE2 domain; Region: CHASE2; cl01732 105559004856 CHASE2 domain; Region: CHASE2; cl01732 105559004857 cyclase homology domain; Region: CHD; cd07302 105559004858 nucleotidyl binding site; other site 105559004859 metal-binding site 105559004860 dimer interface; other site 105559004861 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 105559004862 cAMP-regulatory protein; Provisional; Region: PRK11753 105559004863 ligand binding site; other site 105559004864 flexible hinge region; other site 105559004865 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559004866 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559004867 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559004868 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559004869 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 105559004870 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 105559004871 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 105559004872 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 105559004873 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 105559004874 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 105559004875 DsbD alpha interface; other site 105559004876 catalytic residues; other site 105559004877 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...; Region: TlpA_like_family; cd02966 105559004878 catalytic residues; other site 105559004879 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 105559004880 trimer interface; other site 105559004881 active site 105559004882 dimer interface; other site 105559004883 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 105559004884 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 105559004885 carboxyltransferase (CT) interaction site; other site 105559004886 biotinylation site; other site 105559004887 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 105559004888 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 105559004889 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559004890 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 105559004891 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 105559004892 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 105559004893 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 105559004894 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 105559004895 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 105559004896 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 105559004897 purine monophosphate binding site; other site 105559004898 dimer interface; other site 105559004899 putative catalytic residues; other site 105559004900 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 105559004901 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 105559004902 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 105559004903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559004904 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 105559004905 Protein of unknown function, DUF583; Region: DUF583; cl09137 105559004906 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 105559004907 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 105559004908 dimer interface; other site 105559004909 [2Fe-2S] cluster binding site; other site 105559004910 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 105559004911 active site lid residues 105559004912 substrate binding pocket; other site 105559004913 catalytic residues; other site 105559004914 substrate-Mg2+ binding site; other site 105559004915 aspartate-rich region 1; other site 105559004916 aspartate-rich region 2; other site 105559004917 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 105559004918 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 105559004919 RNA binding surface; other site 105559004920 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 105559004921 probable active site; other site 105559004922 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 105559004923 ScpA/B protein; Region: ScpA_ScpB; cl00598 105559004924 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 105559004925 active site 105559004926 HIGH motif; other site 105559004927 dimer interface; other site 105559004928 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559004929 KMSKS motif; other site 105559004930 active site 105559004931 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 105559004932 active site 105559004933 putative substrate binding region; other site 105559004934 seryl-tRNA synthetase; Provisional; Region: PRK05431 105559004935 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 105559004936 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 105559004937 dimer interface; other site 105559004938 active site 105559004939 motif 1; other site 105559004940 motif 2; other site 105559004941 motif 3; other site 105559004942 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 105559004943 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559004944 aspartate kinase; Validated; Region: PRK09181 105559004945 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 105559004946 putative catalytic residues; other site 105559004947 putative nucleotide binding site; other site 105559004948 putative aspartate binding site; other site 105559004949 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 105559004950 allosteric regulatory residue; other site 105559004951 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 105559004952 Cupin domain; Region: Cupin_2; cl09118 105559004953 Transcriptional regulators [Transcription]; Region: MarR; COG1846 105559004954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559004955 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 105559004956 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 105559004957 Prokaryotic phospholipase A2; Region: Phospholip_A2_3; pfam09056 105559004958 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 105559004959 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559004960 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 105559004961 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 105559004962 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 105559004963 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are...; Region: Tryptophan_synthase_alpha; cd04724 105559004964 substrate binding site; other site 105559004965 active site 105559004966 catalytic residues; other site 105559004967 heterodimer interface; other site 105559004968 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 105559004969 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 105559004970 pyridoxal 5'-phosphate binding site; other site 105559004971 catalytic residue; other site 105559004972 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 105559004973 active site 105559004974 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 105559004975 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 105559004976 dimerization interface 3.5A; other site 105559004977 active site 105559004978 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 105559004979 dockerin binding interface; other site 105559004980 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 105559004981 FimV N-terminal domain; Region: FimV_core; TIGR03505 105559004982 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 105559004983 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 105559004984 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 105559004985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559004986 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 105559004987 Sulfatase; Region: Sulfatase; cl10460 105559004988 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 105559004989 isocitrate dehydrogenase; Validated; Region: PRK06451 105559004990 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-...; Region: IPMI_Swivel; cd01577 105559004991 substrate binding site; other site 105559004992 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 105559004993 dimerization interface; other site 105559004994 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. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 105559004995 active site 105559004996 putative substrate binding region; other site 105559004997 FOG: CBS domain [General function prediction only]; Region: COG0517 105559004998 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a...; Region: CBS_pair_M50_like; cd04801 105559004999 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 105559005000 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 105559005001 putative substrate translocation pore; other site 105559005002 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 105559005003 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...; Region: NAPRTase_A; cd01570 105559005004 active site 105559005005 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 105559005006 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 105559005007 putative metal binding site; other site 105559005008 Integral membrane protein TerC family; Region: TerC; cl10468 105559005009 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 105559005010 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 105559005011 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 105559005012 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 105559005013 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 105559005014 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 105559005015 putative metal binding site; other site 105559005016 tellurite resistance protein terB; Region: terB; cd07176 105559005017 putative metal binding site; other site 105559005018 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 105559005019 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 105559005020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005021 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 105559005022 Cation transport protein; Region: TrkH; cl10514 105559005023 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 105559005024 RecD/TraA family; Region: recD_rel; TIGR01448 105559005025 UvrD/REP helicase; Region: UvrD-helicase; cl14126 105559005026 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 105559005027 S-adenosylmethionine binding site; other site 105559005028 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 105559005029 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 105559005030 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559005031 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; cl10032 105559005032 pyruvate kinase; Provisional; Region: PRK05826 105559005033 domain interfaces; other site 105559005034 active site 105559005035 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 105559005036 putative catalytic residue; other site 105559005037 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 105559005038 UvrD/REP helicase; Region: UvrD-helicase; cl14126 105559005039 UvrD/REP helicase; Region: UvrD-helicase; cl14126 105559005040 probable DNA repair protein; Region: TIGR03623 105559005041 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 105559005042 SelR domain; Region: SelR; cl00369 105559005043 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 105559005044 N-acetyl-D-glucosamine binding site; other site 105559005045 catalytic residue; other site 105559005046 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 105559005047 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 105559005048 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 105559005049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005051 VacJ like lipoprotein; Region: VacJ; cl01073 105559005052 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 105559005053 Transposase; Region: Transposase_14; pfam01710 105559005054 Integrase core domain; Region: rve; cl01316 105559005055 Domain of unknown function DUF59; Region: DUF59; cl00941 105559005056 putative ATPase; Provisional; Region: PRK11670 105559005057 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 105559005058 Walker A motif; other site 105559005059 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 105559005060 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 105559005061 active site 105559005062 HIGH motif; other site 105559005063 KMSKS motif; other site 105559005064 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 105559005065 tRNA binding surface; other site 105559005066 anticodon binding site; other site 105559005067 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 105559005068 dimer interface; other site 105559005069 putative tRNA-binding site; other site 105559005070 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 105559005071 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 105559005072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005073 mercuric reductase; Validated; Region: PRK06370 105559005074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005075 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 105559005076 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 105559005077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005078 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 105559005079 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 105559005080 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 105559005081 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 105559005082 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 105559005083 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 105559005084 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 105559005085 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 105559005086 hypothetical protein; Provisional; Region: PRK11820 105559005087 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 105559005088 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 105559005089 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic...; Region: INT_Rci; cd00796 105559005090 Phage integrase family; Region: Phage_integrase; pfam00589 105559005091 Int/Topo IB signature motif; other site 105559005092 catalytic residues; other site 105559005093 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 105559005094 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 105559005095 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 105559005096 homodimer interface; other site 105559005097 NADP binding site; other site 105559005098 substrate binding site; other site 105559005099 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 105559005100 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 105559005101 active site 105559005102 HIGH motif; other site 105559005103 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 105559005104 KMSKS motif; other site 105559005105 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 105559005106 tRNA binding surface; other site 105559005107 anticodon binding site; other site 105559005108 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 105559005109 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 105559005110 active site 105559005111 HIGH motif; other site 105559005112 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 105559005113 KMSKS motif; other site 105559005114 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 105559005115 substrate binding site; other site 105559005116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 105559005117 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 105559005118 putative active site; other site 105559005119 putative metal binding site; other site 105559005120 thiol:disulfide interchange protein DsbC; Provisional; Region: PRK10877 105559005121 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide...; Region: DsbA_DsbC_DsbG; cd03020 105559005122 dimerization domain; other site 105559005123 dimer interface; other site 105559005124 catalytic residues; other site 105559005125 Protein of unknown function (DUF520); Region: DUF520; cl00723 105559005126 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 105559005127 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 105559005128 Int/Topo IB signature motif; other site 105559005129 active site 105559005130 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 105559005131 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 105559005132 DNA binding site 105559005133 active site 105559005134 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 105559005135 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 105559005136 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 105559005137 RimM N-terminal domain; Region: RimM; pfam01782 105559005138 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 105559005139 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 105559005140 signal recognition particle protein; Provisional; Region: PRK10867 105559005141 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 105559005142 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 105559005143 P loop; other site 105559005144 GTP binding site; other site 105559005145 Signal peptide binding domain; Region: SRP_SPB; pfam02978 105559005146 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 105559005147 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 105559005148 Domain of unknown function DUF21; Region: DUF21; pfam01595 105559005149 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 105559005150 Transporter associated domain; Region: CorC_HlyC; pfam03471 105559005151 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 105559005152 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 105559005153 adenine DNA glycosylase; Provisional; Region: PRK10880 105559005154 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 105559005155 minor groove reading motif; other site 105559005156 helix-hairpin-helix signature motif; other site 105559005157 substrate binding pocket; other site 105559005158 active site 105559005159 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 105559005160 DNA binding and oxoG recognition site 105559005161 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 105559005162 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 105559005163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005164 Type II transport protein GspH; Region: GspH; pfam12019 105559005165 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 105559005166 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 105559005167 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 105559005168 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 105559005169 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 105559005170 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 105559005171 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 105559005172 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559005173 HIGH motif; other site 105559005174 active site 105559005175 nucleotide binding site; other site 105559005176 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 105559005177 active site 105559005178 KMSKS motif; other site 105559005179 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 105559005180 tRNA binding surface; other site 105559005181 anticodon binding site; other site 105559005182 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 105559005183 Sugar fermentation stimulation protein; Region: SfsA; cl00647 105559005184 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 105559005185 active site 105559005186 tetramer interface; other site 105559005187 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 105559005188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005189 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 105559005190 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 105559005191 CAP-like domain; other site 105559005192 active site 105559005193 primary dimer interface; other site 105559005194 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 105559005195 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 105559005196 ATP binding site; other site 105559005197 Mg2+ binding site; other site 105559005198 G-X-G motif; other site 105559005199 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 105559005200 anchoring element; other site 105559005201 dimer interface; other site 105559005202 ATP binding site; other site 105559005203 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 105559005204 active site 105559005205 metal-binding site 105559005206 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 105559005207 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 105559005208 CrcB-like protein; Region: CRCB; cl09114 105559005209 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 105559005210 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_6; cd06256 105559005211 putative active site; other site 105559005212 Zn-binding site; other site 105559005213 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 105559005214 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 105559005215 CysD dimerization site; other site 105559005216 G1 box; other site 105559005217 putative GEF interaction site; other site 105559005218 GTP/Mg2+ binding site; other site 105559005219 Switch I region; other site 105559005220 G2 box; other site 105559005221 G3 box; other site 105559005222 Switch II region; other site 105559005223 G4 box; other site 105559005224 G5 box; other site 105559005225 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NodQ_II; cd03695 105559005226 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NoDQ_III; cd04095 105559005227 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 105559005228 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 105559005229 Active Sites; active site 105559005230 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 105559005231 Active Sites; active site 105559005232 Sulfite exporter TauE/SafE; Region: TauE; cl00498 105559005233 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 105559005234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559005235 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 105559005236 substrate binding site; other site 105559005237 dimerization interface; other site 105559005238 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 105559005239 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 105559005240 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 105559005241 active site 105559005242 putative substrate binding pocket; other site 105559005243 3-demethylubiquinone-9 3-methyltransferase; Provisional; Region: PRK05134 105559005244 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 105559005245 S-adenosylmethionine binding site; other site 105559005246 Uncharacterized conserved protein [Function unknown]; Region: COG1912 105559005247 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 105559005248 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 105559005249 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 105559005250 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 105559005251 alphaNTD homodimer interface; other site 105559005252 alphaNTD - beta interaction site; other site 105559005253 alphaNTD - beta' interaction site; other site 105559005254 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 105559005255 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 105559005256 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 105559005257 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 105559005258 RNA binding surface; other site 105559005259 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 105559005260 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 105559005261 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 105559005262 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 105559005263 eubacterial secY protein; Region: SecY; pfam00344 105559005264 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 105559005265 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...; Region: Ribosomal_L30; cd01658 105559005266 23S rRNA binding site; other site 105559005267 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 105559005268 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 105559005269 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 105559005270 5S rRNA interface; other site 105559005271 23S rRNA interface; other site 105559005272 L5 interface; other site 105559005273 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 105559005274 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 105559005275 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 105559005276 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 105559005277 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 105559005278 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 105559005279 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 105559005280 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 105559005281 KOW motif; Region: KOW; cl00354 105559005282 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 105559005283 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 105559005284 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...; Region: Ribosomal_L29_HIP; cd00427 105559005285 23S rRNA interface; other site 105559005286 putative translocon interaction site; other site 105559005287 signal recognition particle (SRP54) interaction site; other site 105559005288 L23 interface; other site 105559005289 trigger factor interaction site; other site 105559005290 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 105559005291 23S rRNA interface; other site 105559005292 5S rRNA interface; other site 105559005293 putative antibiotic binding site; other site 105559005294 L25 interface; other site 105559005295 L27 interface; other site 105559005296 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 105559005297 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...; Region: 30S_S3_KH; cd02412 105559005298 G-X-X-G motif; other site 105559005299 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 105559005300 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 105559005301 putative translocon binding site; other site 105559005302 protein-rRNA interface; other site 105559005303 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 105559005304 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 105559005305 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 105559005306 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 105559005307 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 105559005308 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 105559005309 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 105559005310 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 105559005311 elongation factor Tu; Reviewed; Region: PRK12735 105559005312 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors...; Region: EF_Tu; cd01884 105559005313 G1 box; other site 105559005314 GEF interaction site; other site 105559005315 GTP/Mg2+ binding site; other site 105559005316 Switch I region; other site 105559005317 G2 box; other site 105559005318 G3 box; other site 105559005319 Switch II region; other site 105559005320 G4 box; other site 105559005321 G5 box; other site 105559005322 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 105559005323 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 105559005324 Antibiotic Binding Site; other site 105559005325 elongation factor G; Reviewed; Region: PRK00007 105559005326 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 105559005327 G1 box; other site 105559005328 putative GEF interaction site; other site 105559005329 GTP/Mg2+ binding site; other site 105559005330 Switch I region; other site 105559005331 G2 box; other site 105559005332 G3 box; other site 105559005333 Switch II region; other site 105559005334 G4 box; other site 105559005335 G5 box; other site 105559005336 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...; Region: EFG_mtEFG_II; cd04088 105559005337 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...; Region: EFG_mtEFG1_IV; cd01434 105559005338 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...; Region: EFG_mtEFG_C; cd03713 105559005339 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 105559005340 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 105559005341 S17 interaction site; other site 105559005342 S8 interaction site; other site 105559005343 16S rRNA interaction site; other site 105559005344 streptomycin interaction site; other site 105559005345 23S rRNA interaction site; other site 105559005346 aminoacyl-tRNA interaction site (A-site); other site 105559005347 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 105559005348 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 105559005349 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 105559005350 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 105559005351 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK02597 105559005352 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 105559005353 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 105559005354 Rpb1 - Rpb6 interaction site; other site 105559005355 DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 105559005356 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 105559005357 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 105559005358 DNA binding site 105559005359 Rpb1 (beta') - Rpb2 (beta) interaction site; other site 105559005360 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 105559005361 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 105559005362 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 105559005363 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 105559005364 RPB11 interaction site; other site 105559005365 RPB12 interaction site; other site 105559005366 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 105559005367 RPB3 interaction site; other site 105559005368 RPB1 interaction site; other site 105559005369 RPB11 interaction site; other site 105559005370 RPB10 interaction site; other site 105559005371 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 105559005372 peripheral dimer interface; other site 105559005373 core dimer interface; other site 105559005374 L10 interface; other site 105559005375 L11 interface; other site 105559005376 putative EF-Tu interaction site; other site 105559005377 putative EF-G interaction site; other site 105559005378 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...; Region: Ribosomal_L10; cd05797 105559005379 23S rRNA interface; other site 105559005380 Interface with L7/L12 ribosomal proteins; other site 105559005381 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...; Region: Ribosomal_L1; cd00403 105559005382 mRNA/rRNA interface; other site 105559005383 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 105559005384 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 105559005385 23S rRNA interface; other site 105559005386 L7/L12 interface; other site 105559005387 putative thiostrepton binding site; other site 105559005388 L25 interface; other site 105559005389 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 105559005390 Transcription termination factor nusG; Region: NusG; cl02766 105559005391 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 105559005392 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 105559005393 elongation factor Tu; Reviewed; Region: PRK12735 105559005394 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors...; Region: EF_Tu; cd01884 105559005395 G1 box; other site 105559005396 GEF interaction site; other site 105559005397 GTP/Mg2+ binding site; other site 105559005398 Switch I region; other site 105559005399 G2 box; other site 105559005400 G3 box; other site 105559005401 Switch II region; other site 105559005402 G4 box; other site 105559005403 G5 box; other site 105559005404 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 105559005405 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 105559005406 Antibiotic Binding Site; other site 105559005407 elongation factor G; Reviewed; Region: PRK00007 105559005408 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 105559005409 G1 box; other site 105559005410 putative GEF interaction site; other site 105559005411 GTP/Mg2+ binding site; other site 105559005412 Switch I region; other site 105559005413 G2 box; other site 105559005414 G3 box; other site 105559005415 Switch II region; other site 105559005416 G4 box; other site 105559005417 G5 box; other site 105559005418 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...; Region: EFG_mtEFG_II; cd04088 105559005419 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...; Region: EFG_mtEFG1_IV; cd01434 105559005420 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...; Region: EFG_mtEFG_C; cd03713 105559005421 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 105559005422 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 105559005423 S17 interaction site; other site 105559005424 S8 interaction site; other site 105559005425 16S rRNA interaction site; other site 105559005426 streptomycin interaction site; other site 105559005427 23S rRNA interaction site; other site 105559005428 aminoacyl-tRNA interaction site (A-site); other site 105559005429 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 105559005430 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 105559005431 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 105559005432 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 105559005433 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK02597 105559005434 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 105559005435 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 105559005436 Rpb1 - Rpb6 interaction site; other site 105559005437 DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 105559005438 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 105559005439 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 105559005440 DNA binding site 105559005441 Rpb1 (beta') - Rpb2 (beta) interaction site; other site 105559005442 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 105559005443 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 105559005444 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 105559005445 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 105559005446 RPB11 interaction site; other site 105559005447 RPB12 interaction site; other site 105559005448 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 105559005449 RPB3 interaction site; other site 105559005450 RPB1 interaction site; other site 105559005451 RPB11 interaction site; other site 105559005452 RPB10 interaction site; other site 105559005453 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 105559005454 peripheral dimer interface; other site 105559005455 core dimer interface; other site 105559005456 L10 interface; other site 105559005457 L11 interface; other site 105559005458 putative EF-Tu interaction site; other site 105559005459 putative EF-G interaction site; other site 105559005460 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...; Region: Ribosomal_L10; cd05797 105559005461 23S rRNA interface; other site 105559005462 Interface with L7/L12 ribosomal proteins; other site 105559005463 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...; Region: Ribosomal_L1; cd00403 105559005464 mRNA/rRNA interface; other site 105559005465 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 105559005466 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 105559005467 23S rRNA interface; other site 105559005468 L7/L12 interface; other site 105559005469 putative thiostrepton binding site; other site 105559005470 L25 interface; other site 105559005471 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 105559005472 Transcription termination factor nusG; Region: NusG; cl02766 105559005473 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 105559005474 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 105559005475 elongation factor Tu; Reviewed; Region: PRK12735 105559005476 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors...; Region: EF_Tu; cd01884 105559005477 G1 box; other site 105559005478 GEF interaction site; other site 105559005479 GTP/Mg2+ binding site; other site 105559005480 Switch I region; other site 105559005481 G2 box; other site 105559005482 G3 box; other site 105559005483 Switch II region; other site 105559005484 G4 box; other site 105559005485 G5 box; other site 105559005486 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 105559005487 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 105559005488 Antibiotic Binding Site; other site 105559005489 UDP-glucose-4-epimerase; Region: galE; TIGR01179 105559005490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005491 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 105559005492 active site 105559005493 HslU subunit interaction site; other site 105559005494 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 105559005495 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...; Region: AAA; cd00009 105559005496 Walker A motif; other site 105559005497 ATP binding site; other site 105559005498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559005499 Protein of unknown function (DUF971); Region: DUF971; cl01414 105559005500 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 105559005501 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 105559005502 S-adenosylmethionine binding site; other site 105559005503 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 105559005504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 105559005505 SCP-2 sterol transfer family; Region: SCP2; cl01225 105559005506 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 105559005507 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 105559005508 aromatic acid decarboxylase; Validated; Region: PRK05920 105559005509 Flavoprotein; Region: Flavoprotein; cl08021 105559005510 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 105559005511 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 105559005512 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559005513 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559005514 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 105559005515 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 105559005516 Protein export membrane protein; Region: SecD_SecF; cl14618 105559005517 hypothetical protein; Provisional; Region: PRK10629 105559005518 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 105559005519 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 105559005520 Protein export membrane protein; Region: SecD_SecF; cl14618 105559005521 Preprotein translocase subunit; Region: YajC; cl00806 105559005522 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 105559005523 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 105559005524 active site 105559005525 dimer interface; other site 105559005526 flagellar hook-length control protein; Provisional; Region: PRK10118 105559005527 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 105559005528 Flagellar FliJ protein; Region: FliJ; cl09161 105559005529 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 105559005530 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 105559005531 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 105559005532 Walker A motif/ATP binding site; other site 105559005533 Walker B motif; other site 105559005534 Flagellar assembly protein FliH; Region: FliH; pfam02108 105559005535 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 105559005536 FliG C-terminal domain; Region: FliG_C; pfam01706 105559005537 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 105559005538 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 105559005539 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 105559005540 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 105559005541 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559005542 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 105559005543 active site 105559005544 phosphorylation site 105559005545 intermolecular recognition site; other site 105559005546 dimerization interface; other site 105559005547 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...; Region: AAA; cd00009 105559005548 Walker A motif; other site 105559005549 ATP binding site; other site 105559005550 Walker B motif; other site 105559005551 arginine finger; other site 105559005552 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 105559005553 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559005554 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; cl09944 105559005555 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...; Region: AAA; cd00009 105559005556 Walker A motif; other site 105559005557 ATP binding site; other site 105559005558 Walker B motif; other site 105559005559 arginine finger; other site 105559005560 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 105559005561 Flagellar protein FliS; Region: FliS; cl00654 105559005562 flagellar capping protein; Validated; Region: fliD; PRK08724 105559005563 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 105559005564 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 105559005565 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 105559005566 FlaG protein; Region: FlaG; cl00591 105559005567 flagellin; Provisional; Region: PRK12806 105559005568 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 105559005569 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 105559005570 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 105559005571 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 105559005572 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 105559005573 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 105559005574 Rod binding protein; Region: Rod-binding; cl01626 105559005575 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 105559005576 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 105559005577 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 105559005578 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 105559005579 Flagellar L-ring protein; Region: FlgH; cl00905 105559005580 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 105559005581 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 105559005582 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 105559005583 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 105559005584 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 105559005585 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 105559005586 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 105559005587 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 105559005588 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 105559005589 Flagellar hook capping protein; Region: FlgD; cl04347 105559005590 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 105559005591 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 105559005592 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl09471 105559005593 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 105559005594 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 105559005595 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 105559005596 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 105559005597 putative acyl-acceptor binding pocket; other site 105559005598 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 105559005599 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 105559005600 Clp amino terminal domain; Region: Clp_N; pfam02861 105559005601 Clp amino terminal domain; Region: Clp_N; pfam02861 105559005602 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...; Region: AAA; cd00009 105559005603 Walker A motif; other site 105559005604 ATP binding site; other site 105559005605 Walker B motif; other site 105559005606 arginine finger; other site 105559005607 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...; Region: AAA; cd00009 105559005608 Walker A motif; other site 105559005609 ATP binding site; other site 105559005610 Walker B motif; other site 105559005611 arginine finger; other site 105559005612 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 105559005613 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 105559005614 putative acyl-acceptor binding pocket; other site 105559005615 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 105559005616 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 105559005617 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 105559005618 Intracellular septation protein A; Region: IspA; cl01098 105559005619 YCII-related domain; Region: YCII; cl00999 105559005620 BolA-like protein; Region: BolA; cl00386 105559005621 polyphosphate kinase; Provisional; Region: PRK05443 105559005622 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 105559005623 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559005624 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 105559005625 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 105559005626 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 105559005627 substrate binding site; other site 105559005628 amidase catalytic site; other site 105559005629 Zn binding residues; other site 105559005630 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 105559005631 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 5-...; Region: QPRTase; cd01572 105559005632 dimerization interface; other site 105559005633 active site 105559005634 glutamate dehydrogenase; Provisional; Region: PRK09414 105559005635 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 105559005636 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 105559005637 NAD(P) binding site; other site 105559005638 siroheme synthase; Provisional; Region: cysG; PRK10637 105559005639 precorrin-2 dehydrogenase; Validated; Region: PRK06719 105559005640 Sirohaem synthase dimerization region; Region: CysG_dimerizer; pfam10414 105559005641 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 105559005642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559005643 metal-binding site 105559005644 active site 105559005645 I-site; other site 105559005646 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 105559005647 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 105559005648 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel...; Region: ligand_gated_channel; cd01347 105559005649 N-terminal plug; other site 105559005650 ligand-binding site; other site 105559005651 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and...; Region: Chelatase_Class_II; cl02784 105559005652 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 105559005653 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 105559005654 Permutation of conserved domain; other site 105559005655 active site 105559005656 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cd01291 105559005657 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...; Region: MECDP_synthase; cd00554 105559005658 homotrimer interaction site; other site 105559005659 zinc binding site; other site 105559005660 CDP-binding sites; other site 105559005661 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 105559005662 substrate binding site; other site 105559005663 dimer interface; other site 105559005664 Septum formation initiator; Region: DivIC; cl11433 105559005665 phosphopyruvate hydratase; Provisional; Region: eno; PRK00077 105559005666 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 105559005667 dimer interface; other site 105559005668 metal-binding site 105559005669 substrate binding pocket; other site 105559005670 NeuB family; Region: NeuB; cl00496 105559005671 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 105559005672 CTP synthetase; Validated; Region: pyrG; PRK05380 105559005673 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...; Region: CTGs; cd03113 105559005674 Catalytic site; other site 105559005675 active site 105559005676 UTP binding site; other site 105559005677 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 105559005678 active site 105559005679 putative oxyanion hole; other site 105559005680 catalytic triad; other site 105559005681 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 105559005682 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 105559005683 Ligand Binding Site; other site 105559005684 TilS substrate binding domain; Region: TilS; pfam09179 105559005685 B3/4 domain; Region: B3_4; cl11458 105559005686 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 105559005687 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 105559005688 active site 105559005689 phosphorylation site 105559005690 intermolecular recognition site; other site 105559005691 dimerization interface; other site 105559005692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559005693 metal-binding site 105559005694 active site 105559005695 I-site; other site 105559005696 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 105559005697 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 105559005698 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 105559005699 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...; Region: DnaE_OBF; cd04485 105559005700 generic binding surface I; other site 105559005701 generic binding surface II; other site 105559005702 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 105559005703 FAD binding domain; Region: FAD_binding_4; cl10516 105559005704 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 105559005705 putative periplasmic protease; Provisional; Region: PRK11778 105559005706 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 105559005707 tandem repeat interface; other site 105559005708 oligomer interface; other site 105559005709 active site residues 105559005710 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 105559005711 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 105559005712 homodimer interface; other site 105559005713 substrate-cofactor binding pocket; other site 105559005714 pyridoxal 5'-phosphate binding site; other site 105559005715 catalytic residue; other site 105559005716 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 105559005717 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 alpha-; Region: HCP_like; cl00255 105559005718 Cysteine-rich domain; Region: CCG; pfam02754 105559005719 Cysteine-rich domain; Region: CCG; pfam02754 105559005720 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal...; Region: BtuF; cd01144 105559005721 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 105559005722 cobalamin binding residues; other site 105559005723 putative BtuC binding residues; other site 105559005724 dimer interface; other site 105559005725 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 105559005726 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 105559005727 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...; Region: TM_ABC_iron-siderophores_like; cd06550 105559005728 ABC-ATPase subunit interface; other site 105559005729 dimer interface; other site 105559005730 putative PBP binding regions; other site 105559005731 Domain of unknown function (DUF427); Region: DUF427; cl00998 105559005732 ferredoxin-NADP reductase; Provisional; Region: PRK10926 105559005733 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 105559005734 FAD binding pocket; other site 105559005735 FAD binding motif; other site 105559005736 phosphate binding motif; other site 105559005737 beta-alpha-beta structure motif; other site 105559005738 NAD binding pocket; other site 105559005739 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 105559005740 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 105559005741 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559005742 ligand binding site; other site 105559005743 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 105559005744 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 105559005745 Cupin domain; Region: Cupin_2; cl09118 105559005746 trehalose synthase; Region: treS_nterm; TIGR02456 105559005747 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 105559005748 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 105559005749 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 105559005750 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 105559005751 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 105559005752 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 105559005753 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 105559005754 dimer interface; other site 105559005755 active site 105559005756 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 105559005757 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 105559005758 substrate binding site; other site 105559005759 oxyanion hole (OAH) forming residues; other site 105559005760 trimer interface; other site 105559005761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005762 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 105559005763 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 105559005764 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 105559005765 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 105559005766 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 105559005767 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559005768 ligand binding site; other site 105559005769 GTP-binding protein EngA; Reviewed; Region: engA; PRK00093 105559005770 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 105559005771 G1 box; other site 105559005772 GTP/Mg2+ binding site; other site 105559005773 Switch I region; other site 105559005774 G2 box; other site 105559005775 Switch II region; other site 105559005776 G3 box; other site 105559005777 G4 box; other site 105559005778 G5 box; other site 105559005779 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 105559005780 G1 box; other site 105559005781 GTP/Mg2+ binding site; other site 105559005782 Switch I region; other site 105559005783 G2 box; other site 105559005784 G3 box; other site 105559005785 Switch II region; other site 105559005786 G4 box; other site 105559005787 G5 box; other site 105559005788 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 105559005789 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 105559005790 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 105559005791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 105559005792 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 105559005793 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A...; Region: LbH_UDP-GlcNAc_AT; cd03351 105559005794 active site 105559005795 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 105559005796 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 105559005797 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 105559005798 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 105559005799 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 105559005800 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 105559005801 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 105559005802 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 105559005803 Surface antigen; Region: Bac_surface_Ag; cl03097 105559005804 zinc metallopeptidase RseP; Provisional; Region: PRK10779 105559005805 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 105559005806 active site 105559005807 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...; Region: PDZ_metalloprotease; cd00989 105559005808 protein binding site; other site 105559005809 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...; Region: PDZ_metalloprotease; cd00989 105559005810 protein binding site; other site 105559005811 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 105559005812 putative substrate binding region; other site 105559005813 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 105559005814 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 105559005815 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 105559005816 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 105559005817 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 105559005818 catalytic residue; other site 105559005819 putative FPP diphosphate binding site; other site 105559005820 putative FPP binding hydrophobic cleft; other site 105559005821 dimer interface; other site 105559005822 putative IPP diphosphate binding site; other site 105559005823 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 105559005824 hinge region; other site 105559005825 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 105559005826 putative nucleotide binding site; other site 105559005827 uridine monophosphate binding site; other site 105559005828 homohexameric interface; other site 105559005829 elongation factor Ts; Provisional; Region: tsf; PRK09377 105559005830 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 105559005831 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 105559005832 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 105559005833 rRNA interaction site; other site 105559005834 S8 interaction site; other site 105559005835 putative laminin-1 binding site; other site 105559005836 methionine aminopeptidase; Reviewed; Region: PRK07281 105559005837 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 105559005838 active site 105559005839 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 105559005840 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 105559005841 metal binding triad; other site 105559005842 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 105559005843 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 105559005844 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 105559005845 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 105559005846 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 105559005847 tetramer interfaces; other site 105559005848 binuclear metal-binding site; other site 105559005849 thiamine monophosphate kinase; Provisional; Region: PRK05731 105559005850 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 105559005851 ATP binding site; other site 105559005852 dimerization interface; other site 105559005853 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 105559005854 putative RNA binding site; other site 105559005855 6,7-dimethyl-8-ribityllumazine synthase; Region: DMRL_synthase; cl00317 105559005856 23S rRNA 5-methyluridine methyltransferase; Reviewed; Region: rumA; PRK13168 105559005857 TRAM domain; Region: TRAM; cl01282 105559005858 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 105559005859 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 105559005860 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 105559005861 active site 105559005862 catalytic site; other site 105559005863 substrate binding site; other site 105559005864 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: Exon_PolB; pfam10108 105559005865 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 105559005866 cysteine synthases; Region: cysKM; TIGR01136 105559005867 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 105559005868 dimer interface; other site 105559005869 pyridoxal 5'-phosphate binding site; other site 105559005870 catalytic residue; other site 105559005871 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 105559005872 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 105559005873 active site 105559005874 hydrophilic channel; other site 105559005875 dimerization interface; other site 105559005876 catalytic residues; other site 105559005877 active site lid 105559005878 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 105559005879 Recombination protein O N terminal; Region: RecO_N; pfam11967 105559005880 Recombination protein O C terminal; Region: RecO_C; pfam02565 105559005881 peptide chain release factor 2; Validated; Region: prfB; PRK00578 105559005882 RF-1 domain; Region: RF-1; cl02875 105559005883 RF-1 domain; Region: RF-1; cl02875 105559005884 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 105559005885 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 105559005886 putative peptidoglycan binding site; other site 105559005887 Peptidase family M23; Region: Peptidase_M23; pfam01551 105559005888 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 105559005889 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 105559005890 Survival protein SurE; Region: SurE; cl00448 105559005891 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559005892 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 105559005893 active site 105559005894 phosphorylation site 105559005895 intermolecular recognition site; other site 105559005896 dimerization interface; other site 105559005897 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...; Region: AAA; cd00009 105559005898 Walker A motif; other site 105559005899 ATP binding site; other site 105559005900 Walker B motif; other site 105559005901 arginine finger; other site 105559005902 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 105559005903 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 trans-...; Region: HisKA; cd00082 105559005904 dimer interface; other site 105559005905 phosphorylation site 105559005906 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 105559005907 ATP binding site; other site 105559005908 Mg2+ binding site; other site 105559005909 G-X-G motif; other site 105559005910 allantoate amidohydrolase; Reviewed; Region: PRK09290 105559005911 Peptidase dimerization domain; Region: M20_dimer; cl09126 105559005912 Peptidase dimerization domain; Region: M20_dimer; cl09126 105559005913 Isochorismatase family; Region: Isochorismatase; pfam00857 105559005914 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 105559005915 catalytic triad; other site 105559005916 conserved cis-peptide bond; other site 105559005917 Sodium:solute symporter family; Region: SSF; cl00456 105559005918 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 105559005919 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 105559005920 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 105559005921 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 105559005922 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 105559005923 active site 105559005924 dimer interface; other site 105559005925 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 105559005926 Ligand Binding Site; other site 105559005927 Molecular Tunnel; other site 105559005928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005929 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 105559005930 Cupin domain; Region: Cupin_2; cl09118 105559005931 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 105559005932 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 105559005933 substrate binding site; other site 105559005934 tetramer interface; other site 105559005935 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 105559005936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559005937 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 105559005938 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 105559005939 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 105559005940 glycogen synthase; Provisional; Region: glgA; PRK00654 105559005941 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 105559005942 ADP-binding pocket; other site 105559005943 homodimer interface; other site 105559005944 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 105559005945 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 105559005946 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 105559005947 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 105559005948 PPIC-type PPIASE domain; Region: Rotamase; cl08278 105559005949 Domain of unknown function DUF29; Region: DUF29; pfam01724 105559005950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559005951 Probable transposase; Region: Transposase_2; pfam01385 105559005952 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 105559005953 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 105559005954 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 105559005955 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559005956 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559005957 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559005958 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 105559005959 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 105559005960 General secretion pathway protein M; Region: GspM_II; pfam10741 105559005961 General secretion pathway protein L (GspL); Region: GspL; cl11448 105559005962 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 105559005963 General secretion pathway protein K; Region: GspK; pfam03934 105559005964 general secretion pathway protein J; Validated; Region: PRK08808 105559005965 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 105559005966 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 105559005967 TPR motif; other site 105559005968 binding surface 105559005969 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 105559005970 PIN domain; Region: PIN; cl09128 105559005971 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 105559005972 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 105559005973 Ligand binding site; other site 105559005974 Putative Catalytic site; other site 105559005975 DXD motif; other site 105559005976 Cytochrome c; Region: Cytochrom_C; cl11414 105559005977 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 105559005978 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559005979 putative ADP-binding pocket; other site 105559005980 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 105559005981 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 105559005982 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 105559005983 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 105559005984 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 105559005985 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559005986 Sulfatase; Region: Sulfatase; cl10460 105559005987 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 105559005988 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 105559005989 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 105559005990 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 105559005991 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 105559005992 Walker A/P-loop; other site 105559005993 ATP binding site; other site 105559005994 Q-loop/lid; other site 105559005995 ABC transporter signature motif; other site 105559005996 Walker B; other site 105559005997 D-loop; other site 105559005998 H-loop/switch region; other site 105559005999 ABC-2 type transporter; Region: ABC2_membrane; cl11417 105559006000 Developmentally Regulated MAPK Interacting Protein; Region: Drmip_Hesp; pfam10342 105559006001 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 105559006002 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 105559006003 G1 box; other site 105559006004 putative GEF interaction site; other site 105559006005 GTP/Mg2+ binding site; other site 105559006006 Switch I region; other site 105559006007 G2 box; other site 105559006008 G3 box; other site 105559006009 Switch II region; other site 105559006010 G4 box; other site 105559006011 G5 box; other site 105559006012 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 105559006013 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...; Region: BipA_TypA_C; cd03710 105559006014 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 105559006015 active site 105559006016 dimerization interface; other site 105559006017 hypothetical protein; Provisional; Region: PRK10260 105559006018 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 105559006019 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 105559006020 Nitrogen regulatory protein P-II; Region: P-II; cl00412 105559006021 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 105559006022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006023 CoA-ligase; Region: Ligase_CoA; pfam00549 105559006024 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 105559006025 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 105559006026 CoA-ligase; Region: Ligase_CoA; pfam00549 105559006027 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 105559006028 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 105559006029 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...; Region: Dtyr_deacylase; cd00563 105559006030 putative active site; other site 105559006031 dimerization interface; other site 105559006032 putative tRNAtyr binding site; other site 105559006033 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 105559006034 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559006035 DctM-like transporters; Region: DctM; pfam06808 105559006036 multiple promoter invertase; Provisional; Region: mpi; PRK13413 105559006037 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 105559006038 catalytic residues; other site 105559006039 catalytic nucleophile; other site 105559006040 Presynaptic Site I dimer interface; other site 105559006041 Synaptic Antiparallel dimer interface; other site 105559006042 Synaptic Flat tetramer interface; other site 105559006043 Synaptic Site I dimer interface; other site 105559006044 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 105559006045 DNA-binding interface; DNA binding site 105559006046 Protein of unknown function (DUF497); Region: DUF497; cl01108 105559006047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 105559006048 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; cl00428 105559006049 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 105559006050 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 105559006051 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 105559006052 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559006053 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 105559006054 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559006055 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 105559006056 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 105559006057 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 105559006058 ATP binding site; other site 105559006059 putative Mg++ binding site; other site 105559006060 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 105559006061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006062 Walker A/P-loop; other site 105559006063 ATP binding site; other site 105559006064 chromosome segregation protein; Provisional; Region: PRK01156 105559006065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006066 Walker B; other site 105559006067 D-loop; other site 105559006068 H-loop/switch region; other site 105559006069 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 105559006070 Protein of unknown function (DUF497); Region: DUF497; cl01108 105559006071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006072 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 105559006073 multiple promoter invertase; Provisional; Region: mpi; PRK13413 105559006074 catalytic residues; other site 105559006075 catalytic nucleophile; other site 105559006076 Presynaptic Site I dimer interface; other site 105559006077 Synaptic Antiparallel dimer interface; other site 105559006078 Synaptic Flat tetramer interface; other site 105559006079 Synaptic Site I dimer interface; other site 105559006080 DNA binding site 105559006081 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 105559006082 DNA-binding interface; DNA binding site 105559006083 Protein of unknown function DUF262; Region: DUF262; pfam03235 105559006084 Uncharacterized conserved protein [Function unknown]; Region: COG1479 105559006085 Protein of unknown function DUF262; Region: DUF262; pfam03235 105559006086 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 105559006087 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 105559006088 catalytic nucleophile; other site 105559006089 PIN domain; Region: PIN; cl09128 105559006090 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 105559006091 multiple promoter invertase; Provisional; Region: mpi; PRK13413 105559006092 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 105559006093 catalytic residues; other site 105559006094 catalytic nucleophile; other site 105559006095 Presynaptic Site I dimer interface; other site 105559006096 Synaptic Antiparallel dimer interface; other site 105559006097 Synaptic Flat tetramer interface; other site 105559006098 Synaptic Site I dimer interface; other site 105559006099 DNA binding site 105559006100 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; cl01116 105559006101 Integrase core domain; Region: rve; cl01316 105559006102 Protein of unknown function DUF262; Region: DUF262; pfam03235 105559006103 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 105559006104 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 105559006105 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 105559006106 DNA binding site 105559006107 Int/Topo IB signature motif; other site 105559006108 active site 105559006109 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 105559006110 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 105559006111 tetramer interface; other site 105559006112 heme binding pocket; other site 105559006113 NADPH binding site; other site 105559006114 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 105559006115 Transposase, Mutator family; Region: Transposase_mut; pfam00872 105559006116 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 105559006117 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 105559006118 putative substrate translocation pore; other site 105559006119 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and...; Region: Bact_CD; cd01293 105559006120 cytosine deaminase; Provisional; Region: PRK05985 105559006121 active site 105559006122 GMP synthase; Reviewed; Region: guaA; PRK00074 105559006123 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 105559006124 AMP/PPi binding site; other site 105559006125 candidate oxyanion hole; other site 105559006126 catalytic triad; other site 105559006127 potential glutamine specificity residues; other site 105559006128 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 105559006129 ATP Binding subdomain; other site 105559006130 Ligand Binding sites; other site 105559006131 Dimerization subdomain; other site 105559006132 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 105559006133 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 105559006134 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 105559006135 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 105559006136 active site 105559006137 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 105559006138 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 105559006139 generic binding surface II; other site 105559006140 generic binding surface I; other site 105559006141 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 105559006142 binding surface 105559006143 TPR motif; other site 105559006144 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 105559006145 binding surface 105559006146 TPR motif; other site 105559006147 Gram-negative bacterial tonB protein; Region: TonB; cl10048 105559006148 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 105559006149 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 105559006150 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 105559006151 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 105559006152 Rubredoxin [Energy production and conversion]; Region: COG1773 105559006153 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...; Region: rubredoxin; cd00730 105559006154 iron binding site; other site 105559006155 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- (beta-...; Region: TMP_TenI; cd00564 105559006156 thiamine phosphate binding site; other site 105559006157 active site 105559006158 pyrophosphate binding site; other site 105559006159 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 105559006160 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 105559006161 catalytic residues; other site 105559006162 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 105559006163 binding surface 105559006164 TPR motif; other site 105559006165 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559006166 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 105559006167 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 105559006168 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 105559006169 inhibitor-cofactor binding pocket; inhibition site 105559006170 pyridoxal 5'-phosphate binding site; other site 105559006171 catalytic residue; other site 105559006172 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 105559006173 UvrD/REP helicase; Region: UvrD-helicase; cl14126 105559006174 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 105559006175 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 105559006176 Sel1 repeat; Region: Sel1; cl02723 105559006177 Cation efflux family; Region: Cation_efflux; cl00316 105559006178 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 105559006179 active site 105559006180 metal-binding site 105559006181 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 105559006182 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...; Region: TST_Repeat_1; cd01448 105559006183 active site residue 105559006184 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 105559006185 active site residue 105559006186 Protein of unknown function (DUF785); Region: DUF785; cl01682 105559006187 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 105559006188 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 105559006189 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 105559006190 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 105559006191 putative active site; other site 105559006192 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 105559006193 putative ADP-binding pocket; other site 105559006194 Transposase; Region: Transposase_14; pfam01710 105559006195 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 105559006196 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 105559006197 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 105559006198 putative active site; other site 105559006199 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 105559006200 non-specific DNA binding site; other site 105559006201 salt bridge; other site 105559006202 sequence-specific DNA binding site; other site 105559006203 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 105559006204 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 105559006205 exonuclease subunit SbcC; Provisional; Region: PRK10246 105559006206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006207 Walker A/P-loop; other site 105559006208 ATP binding site; other site 105559006209 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 105559006210 ABC transporter signature motif; other site 105559006211 Walker B; other site 105559006212 D-loop; other site 105559006213 H-loop/switch region; other site 105559006214 exonuclease subunit SbcD; Provisional; Region: PRK10966 105559006215 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 105559006216 active site 105559006217 metal-binding site 105559006218 DNA binding site 105559006219 Type 5 capsule protein repressor C terminal; Region: SbcD_C; pfam12320 105559006220 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 105559006221 active site 105559006222 NTP binding site; other site 105559006223 metal binding triad; metal-binding site 105559006224 antibiotic binding site; other site 105559006225 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 105559006226 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 105559006227 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 105559006228 putative metal binding site; other site 105559006229 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 105559006230 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 105559006231 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 105559006232 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 105559006233 active site 105559006234 dimer interface; other site 105559006235 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 105559006236 Ligand Binding Site; other site 105559006237 Molecular Tunnel; other site 105559006238 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559006239 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 105559006240 putative ADP-binding pocket; other site 105559006241 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 105559006242 Macrocin-O-methyltransferase (TylF); Region: TylF; pfam05711 105559006243 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 105559006244 S-adenosylmethionine binding site; other site 105559006245 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 105559006246 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 105559006247 Ligand binding site; other site 105559006248 Putative Catalytic site; other site 105559006249 DXD motif; other site 105559006250 Pilin (bacterial filament); Region: Pilin; pfam00114 105559006251 Uncharacterized protein family (UPF0156); Region: RHH_2; cl01448 105559006252 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 105559006253 Transposase IS200 like; Region: Transposase_17; cl00848 105559006254 C4-dicarboxylate transporter/malic acid transport protein; Region: C4dic_mal_tran; cl04176 105559006255 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 105559006256 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel...; Region: ligand_gated_channel; cd01347 105559006257 N-terminal plug; other site 105559006258 ligand-binding site; other site 105559006259 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 105559006260 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 105559006261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 105559006262 dimer interface; other site 105559006263 conserved gate region; other site 105559006264 ABC-ATPase subunit interface; other site 105559006265 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006266 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 105559006267 Walker A/P-loop; other site 105559006268 ATP binding site; other site 105559006269 Q-loop/lid; other site 105559006270 ABC transporter signature motif; other site 105559006271 Walker B; other site 105559006272 D-loop; other site 105559006273 H-loop/switch region; other site 105559006274 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 105559006275 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 105559006276 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...; Region: AAA; cd00009 105559006277 Walker A motif; other site 105559006278 ATP binding site; other site 105559006279 Walker B motif; other site 105559006280 arginine finger; other site 105559006281 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 105559006282 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 105559006283 GumN protein; Region: GumN; cl12050 105559006284 Protein of unknown function, DUF; Region: DUF411; cl01142 105559006285 NnrU protein; Region: NnrU; cl01697 105559006286 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 105559006287 PemK-like protein; Region: PemK; cl00995 105559006288 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 105559006289 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 105559006290 YcfA-like protein; Region: YcfA; cl00752 105559006291 YcfA-like protein; Region: YcfA; cl00752 105559006292 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 105559006293 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 105559006294 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 105559006295 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559006296 Sulfatase; Region: Sulfatase; cl10460 105559006297 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559006298 Sulfatase; Region: Sulfatase; cl10460 105559006299 GTP-dependent nucleic acid-binding protein EngD; Reviewed; Region: PRK09601 105559006300 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 105559006301 G1 box; other site 105559006302 GTP/Mg2+ binding site; other site 105559006303 Switch I region; other site 105559006304 G2 box; other site 105559006305 Switch II region; other site 105559006306 G3 box; other site 105559006307 G4 box; other site 105559006308 G5 box; other site 105559006309 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 105559006310 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 105559006311 putative active site; other site 105559006312 catalytic residue; other site 105559006313 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 105559006314 5S rRNA interface; other site 105559006315 CTC domain interface; other site 105559006316 L16 interface; other site 105559006317 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 105559006318 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 105559006319 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 105559006320 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 105559006321 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 105559006322 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 105559006323 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 105559006324 TPR motif; other site 105559006325 binding surface 105559006326 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 105559006327 binding surface 105559006328 TPR motif; other site 105559006329 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 105559006330 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 105559006331 tRNA; other site 105559006332 putative tRNA binding site; other site 105559006333 putative NADP binding site; other site 105559006334 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 105559006335 peptide chain release factor 1; Validated; Region: prfA; PRK00591 105559006336 RF-1 domain; Region: RF-1; cl02875 105559006337 RF-1 domain; Region: RF-1; cl02875 105559006338 septum formation inhibitor; Reviewed; Region: minC; PRK00339 105559006339 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 105559006340 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 105559006341 cell division inhibitor MinD; Provisional; Region: PRK10818 105559006342 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...; Region: MinD; cd02036 105559006343 Switch I; other site 105559006344 Switch II; other site 105559006345 Septum formation topological specificity factor MinE; Region: MinE; cl00538 105559006346 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 105559006347 HemY protein N-terminus; Region: HemY_N; pfam07219 105559006348 HemX; Region: HemX; pfam04375 105559006349 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...; Region: HemD; cd06578 105559006350 active site 105559006351 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 105559006352 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 105559006353 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 105559006354 domain interfaces; other site 105559006355 active site 105559006356 argininosuccinate lyase; Provisional; Region: PRK00855 105559006357 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 105559006358 active sites 105559006359 tetramer interface; other site 105559006360 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 105559006361 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 105559006362 Integrase core domain; Region: rve; cl01316 105559006363 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 105559006364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006365 acetoin reductases; Region: 23BDH; TIGR02415 105559006366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 105559006367 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 105559006368 Predicted membrane protein [Function unknown]; Region: COG3650 105559006369 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 105559006370 metal-binding site 105559006371 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 105559006372 FAD binding domain; Region: FAD_binding_4; cl10516 105559006373 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 105559006374 active site 105559006375 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 105559006376 Domain of unknown function DUF20; Region: UPF0118; cl00465 105559006377 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 105559006378 Ligand binding site; other site 105559006379 DXD motif; other site 105559006380 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 105559006381 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 105559006382 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 105559006383 AsmA family; Region: AsmA; pfam05170 105559006384 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 105559006385 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 105559006386 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 105559006387 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 105559006388 Domain of unknown function DUF20; Region: UPF0118; cl00465 105559006389 hypothetical protein; Provisional; Region: PRK13682 105559006390 NADH dehydrogenase subunit N; Provisional; Region: PRK05777 105559006391 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559006392 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 105559006393 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559006394 Transposase IS200 like; Region: Transposase_17; cl00848 105559006395 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559006396 Helix-turn-helix domain; Region: HTH_14; pfam12323 105559006397 Probable transposase; Region: Transposase_2; pfam01385 105559006398 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 105559006399 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 105559006400 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 105559006401 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 105559006402 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 105559006403 NADH dehydrogenase; Region: NADHdh; cl00469 105559006404 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 105559006405 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 105559006406 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 105559006407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006408 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 105559006409 thiamine pyrophosphate protein; Provisional; Region: PRK08273 105559006410 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 105559006411 PYR/PP interface; other site 105559006412 tetramer interface; other site 105559006413 dimer interface; other site 105559006414 TPP binding site; other site 105559006415 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 105559006416 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX...; Region: TPP_POX; cd02014 105559006417 TPP-binding site; other site 105559006418 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved...; Region: MR_like_3; cd03328 105559006419 putative active site pocket; other site 105559006420 putative metal binding site; other site 105559006421 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 105559006422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006423 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 105559006424 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 105559006425 Cupin domain; Region: Cupin_2; cl09118 105559006426 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 105559006427 Strictosidine synthase; Region: Str_synth; pfam03088 105559006428 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 105559006429 active site 105559006430 metal-binding site 105559006431 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 105559006432 active site 105559006433 metal-binding site 105559006434 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 105559006435 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 105559006436 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 105559006437 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 105559006438 Anabaena sensory rhodopsin transducer; Region: ASRT; cl01751 105559006439 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 105559006440 Domain of unknown function DUF; Region: DUF202; cl09954 105559006441 ChaB; Region: ChaB; cl01887 105559006442 short chain dehydrogenase; Provisional; Region: PRK06701 105559006443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006444 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 105559006445 catalytic residues; other site 105559006446 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 105559006447 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 105559006448 hypothetical protein; Provisional; Region: PRK10279 105559006449 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 105559006450 active site 105559006451 nucleophile elbow; other site 105559006452 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 105559006453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006454 MAPEG family; Region: MAPEG; cl09190 105559006455 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 105559006456 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 105559006457 tetramer interface; other site 105559006458 catalytic Zn binding site; other site 105559006459 NADP binding site; other site 105559006460 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 105559006461 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559006462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006463 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 105559006464 Walker A/P-loop; other site 105559006465 ATP binding site; other site 105559006466 Q-loop/lid; other site 105559006467 ABC transporter signature motif; other site 105559006468 Walker B; other site 105559006469 D-loop; other site 105559006470 H-loop/switch region; other site 105559006471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006472 Walker A/P-loop; other site 105559006473 ATP binding site; other site 105559006474 Q-loop/lid; other site 105559006475 ABC transporter signature motif; other site 105559006476 Walker B; other site 105559006477 D-loop; other site 105559006478 H-loop/switch region; other site 105559006479 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 105559006480 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 105559006481 ABC-2 type transporter; Region: ABC2_membrane; cl11417 105559006482 RF-1 domain; Region: RF-1; cl02875 105559006483 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 105559006484 active site 105559006485 catalytic triad; other site 105559006486 oxyanion hole; other site 105559006487 switch loop; other site 105559006488 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 105559006489 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 105559006490 Walker A/P-loop; other site 105559006491 ATP binding site; other site 105559006492 Q-loop/lid; other site 105559006493 ABC transporter signature motif; other site 105559006494 Walker B; other site 105559006495 D-loop; other site 105559006496 H-loop/switch region; other site 105559006497 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 105559006498 Predicted permease; Region: FtsX; cl11418 105559006499 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 105559006500 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 105559006501 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 105559006502 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 105559006503 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 105559006504 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 105559006505 non-specific DNA binding site; other site 105559006506 salt bridge; other site 105559006507 sequence-specific DNA binding site; other site 105559006508 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559006509 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 105559006510 non-specific DNA binding site; other site 105559006511 salt bridge; other site 105559006512 sequence-specific DNA binding site; other site 105559006513 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559006514 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 105559006515 PIN domain; Region: PIN; cl09128 105559006516 Integrase core domain; Region: rve; cl01316 105559006517 Transposase; Region: Transposase_14; pfam01710 105559006518 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 105559006519 non-specific DNA binding site; other site 105559006520 salt bridge; other site 105559006521 sequence-specific DNA binding site; other site 105559006522 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559006523 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 105559006524 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 105559006525 putative active site; other site 105559006526 putative metal binding site; other site 105559006527 Peptidase family M48; Region: Peptidase_M48; cl12018 105559006528 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 105559006529 binding surface 105559006530 TPR motif; other site 105559006531 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 105559006532 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 105559006533 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 105559006534 Protein of unknown function (DUF523); Region: DUF523; cl00733 105559006535 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 105559006536 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 105559006537 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 105559006538 S-adenosylmethionine binding site; other site 105559006539 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 105559006540 active site 105559006541 phosphorylation site 105559006542 intermolecular recognition site; other site 105559006543 dimerization interface; other site 105559006544 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 105559006545 NAD(P) binding site; other site 105559006546 catalytic residues; other site 105559006547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006548 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 105559006549 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 105559006550 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 105559006551 active site 105559006552 NTP binding site; other site 105559006553 metal binding triad; metal-binding site 105559006554 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 105559006555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 105559006556 Predicted kinase [General function prediction only]; Region: COG0645 105559006557 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 105559006558 ATP-binding site; other site 105559006559 Gluconate-6-phosphate binding site; other site 105559006560 5-oxoprolinase; Region: PLN02666 105559006561 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 105559006562 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 105559006563 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 105559006564 Peptidase family M48; Region: Peptidase_M48; cl12018 105559006565 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; cl09944 105559006566 PAS domain S-box; Region: sensory_box; TIGR00229 105559006567 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 105559006568 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559006569 metal-binding site 105559006570 active site 105559006571 I-site; other site 105559006572 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 105559006573 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 105559006574 putative acyl-acceptor binding pocket; other site 105559006575 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 105559006576 active site 105559006577 motif I; other site 105559006578 motif II; other site 105559006579 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 105559006580 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 105559006581 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 105559006582 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 105559006583 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 105559006584 dimer interface; other site 105559006585 motif 1; other site 105559006586 active site 105559006587 motif 2; other site 105559006588 motif 3; other site 105559006589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 105559006590 Family of unknown function (DUF490); Region: DUF490; pfam04357 105559006591 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 105559006592 Surface antigen; Region: Bac_surface_Ag; cl03097 105559006593 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 105559006594 Gram-negative bacterial tonB protein; Region: TonB; cl10048 105559006595 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 105559006596 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 105559006597 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 105559006598 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 105559006599 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 105559006600 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 105559006601 dihydroorotase; Provisional; Region: PRK07627 105559006602 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...; Region: metallo-dependent_hydrolases; cl00281 105559006603 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 105559006604 active site 105559006605 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 105559006606 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 105559006607 FAD binding pocket; other site 105559006608 FAD binding motif; other site 105559006609 phosphate binding motif; other site 105559006610 beta-alpha-beta structure motif; other site 105559006611 NAD binding pocket; other site 105559006612 Iron coordination center; other site 105559006613 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 105559006614 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...; Region: ThiF_MoeB_HesA_family; cd00757 105559006615 ATP binding site; other site 105559006616 substrate interface; other site 105559006617 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 105559006618 MPN+ (JAMM) motif; other site 105559006619 Zinc-binding site; other site 105559006620 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 105559006621 putative metal binding site; other site 105559006622 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 105559006623 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 105559006624 Cl- selectivity filter; other site 105559006625 Cl- binding residues; other site 105559006626 pore gating glutamate residue; other site 105559006627 dimer interface; other site 105559006628 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 105559006629 LppC putative lipoprotein; Region: LppC; pfam04348 105559006630 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 105559006631 putative ligand binding site; other site 105559006632 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 105559006633 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 105559006634 dimer interface; other site 105559006635 active site 105559006636 Putative phospholipid-binding domain; Region: BON; cl02771 105559006637 Putative phospholipid-binding domain; Region: BON; cl02771 105559006638 FAD binding domain; Region: FAD_binding_4; cl10516 105559006639 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 105559006640 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 105559006641 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 105559006642 Zn2+ binding site; other site 105559006643 Mg2+ binding site; other site 105559006644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559006645 metal-binding site 105559006646 active site 105559006647 I-site; other site 105559006648 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 105559006649 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 105559006650 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 105559006651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006652 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 105559006653 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 105559006654 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 105559006655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006656 thioredoxin reductase; Provisional; Region: PRK10262 105559006657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006658 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 105559006659 Peptidase family M48; Region: Peptidase_M48; cl12018 105559006660 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 105559006661 putative active site; other site 105559006662 putative substrate binding site; other site 105559006663 catalytic site; other site 105559006664 dimer interface; other site 105559006665 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 105559006666 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 105559006667 hypothetical protein; Provisional; Region: PRK10565 105559006668 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 105559006669 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 105559006670 putative substrate binding site; other site 105559006671 putative ATP binding site; other site 105559006672 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 105559006673 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 105559006674 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 105559006675 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 105559006676 active site 105559006677 metal-binding site 105559006678 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 105559006679 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 105559006680 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 105559006681 ATP binding site; other site 105559006682 Mg2+ binding site; other site 105559006683 G-X-G motif; other site 105559006684 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 105559006685 ATP binding site; other site 105559006686 MutL C terminal dimerization domain; Region: MutL_C; cl07336 105559006687 PAS domain S-box; Region: sensory_box; TIGR00229 105559006688 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 105559006689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559006690 metal-binding site 105559006691 active site 105559006692 I-site; other site 105559006693 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 105559006694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559006695 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 105559006696 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 105559006697 putative dimerization interface; other site 105559006698 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 105559006699 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 105559006700 homodimer interface; other site 105559006701 active site 105559006702 heterodimer interface; other site 105559006703 catalytic residue; other site 105559006704 metal-binding site 105559006705 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 105559006706 multimerization interface; other site 105559006707 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 105559006708 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...; Region: AAA; cd00009 105559006709 Walker A motif; other site 105559006710 ATP binding site; other site 105559006711 Walker B motif; other site 105559006712 arginine finger; other site 105559006713 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...; Region: TlpA_like_family; cd02966 105559006714 catalytic residues; other site 105559006715 glycerol kinase; Provisional; Region: glpK; PRK00047 105559006716 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 105559006717 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 105559006718 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 105559006719 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 105559006720 conserved cys residue; other site 105559006721 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559006722 Sel1 repeat; Region: Sel1; cl02723 105559006723 Sel1 repeat; Region: Sel1; cl02723 105559006724 Sel1 repeat; Region: Sel1; cl02723 105559006725 Sel1 repeat; Region: Sel1; cl02723 105559006726 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 105559006727 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 105559006728 Putative ATPase (DUF699); Region: DUF699; pfam05127 105559006729 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 105559006730 aconitate hydratase; Validated; Region: PRK07229 105559006731 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 105559006732 substrate binding site; other site 105559006733 ligand binding site; other site 105559006734 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 105559006735 substrate binding site; other site 105559006736 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...; Region: AAA; cd00009 105559006737 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 105559006738 Walker A motif; other site 105559006739 ATP binding site; other site 105559006740 HerA helicase [Replication, recombination, and repair]; Region: COG0433 105559006741 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 105559006742 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 105559006743 putative active site pocket; other site 105559006744 dimerization interface; other site 105559006745 putative catalytic residue; other site 105559006746 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 105559006747 acetate kinase; Reviewed; Region: PRK12440 105559006748 Acetokinase family; Region: Acetate_kinase; cl01029 105559006749 putative phosphoketolase; Provisional; Region: PRK05261 105559006750 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 105559006751 TPP-binding site; other site 105559006752 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 105559006753 XFP C-terminal domain; Region: XFP_C; pfam09363 105559006754 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 105559006755 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; cl11391 105559006756 YcgL domain; Region: YcgL; cl01189 105559006757 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 105559006758 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 105559006759 Paraquat-inducible protein A; Region: PqiA; pfam04403 105559006760 Paraquat-inducible protein A; Region: PqiA; pfam04403 105559006761 paraquat-inducible protein B; Provisional; Region: PRK10807 105559006762 mce related protein; Region: MCE; pfam02470 105559006763 mce related protein; Region: MCE; pfam02470 105559006764 Protein of unknown function (DUF330); Region: DUF330; cl01135 105559006765 ApbE family; Region: ApbE; cl00643 105559006766 SelR domain; Region: SelR; cl00369 105559006767 Domain of unknown function (DUF333); Region: DUF333; pfam03891 105559006768 Uncharacterized conserved protein [Function unknown]; Region: COG5361 105559006769 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 105559006770 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 105559006771 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559006772 Sulfatase; Region: Sulfatase; cl10460 105559006773 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 105559006774 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 105559006775 motif II; other site 105559006776 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 105559006777 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 105559006778 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 105559006779 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 105559006780 binding surface 105559006781 TPR motif; other site 105559006782 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 105559006783 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 105559006784 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006785 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 105559006786 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 105559006787 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 105559006788 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 105559006789 putative dimer interface; other site 105559006790 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 105559006791 putative dimer interface; other site 105559006792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5298 105559006793 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 105559006794 hypothetical protein; Provisional; Region: PRK09936 105559006795 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 105559006796 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 105559006797 active site 105559006798 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 105559006799 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 105559006800 active site 105559006801 homodimer interface; other site 105559006802 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 105559006803 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 105559006804 binding surface 105559006805 TPR motif; other site 105559006806 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 105559006807 TPR motif; other site 105559006808 binding surface 105559006809 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 105559006810 binding surface 105559006811 TPR motif; other site 105559006812 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 105559006813 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 105559006814 binding surface 105559006815 TPR motif; other site 105559006816 Transposase; Region: Transposase_14; pfam01710 105559006817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006818 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 105559006819 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 105559006820 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 105559006821 Chain length determinant protein; Region: Wzz; cl01623 105559006822 Chain length determinant protein; Region: Wzz; cl01623 105559006823 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 105559006824 O-Antigen ligase; Region: Wzy_C; cl04850 105559006825 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 105559006826 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 105559006827 active site 105559006828 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 105559006829 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 105559006830 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559006831 putative ADP-binding pocket; other site 105559006832 Bacterial sugar transferase; Region: Bac_transf; cl00939 105559006833 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 105559006834 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 105559006835 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 105559006836 inhibitor-cofactor binding pocket; inhibition site 105559006837 pyridoxal 5'-phosphate binding site; other site 105559006838 catalytic residue; other site 105559006839 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 105559006840 active site 105559006841 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 105559006842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559006843 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 105559006844 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 105559006845 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 105559006846 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 105559006847 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 105559006848 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 105559006849 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 105559006850 active site 105559006851 metal-binding site 105559006852 Protein of unknown function DUF45; Region: DUF45; cl00636 105559006853 Uncharacterized conserved protein [Function unknown]; Region: COG5316 105559006854 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 105559006855 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 105559006856 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 105559006857 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 105559006858 HicB family; Region: HicB; pfam05534 105559006859 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 105559006860 HicB family; Region: HicB; pfam05534 105559006861 Phd_YefM; Region: PhdYeFM; cl09153 105559006862 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 105559006863 Phd_YefM; Region: PhdYeFM; cl09153 105559006864 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 105559006865 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 105559006866 DNA binding site 105559006867 RNA-binding motif; other site 105559006868 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 105559006869 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559006870 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 105559006871 nudix motif; other site 105559006872 CRISPR associated protein Cas1; Region: Cas_Cas1; cl00656 105559006873 CRISPR-associated protein (Cas_Csy1); Region: Cas_Csy1; cl09829 105559006874 CRISPR-associated protein (Cas_Csy2); Region: Cas_Csy2; cl12127 105559006875 CRISPR-associated protein (Cas_Csy3); Region: Cas_Csy3; cl09832 105559006876 CRISPR-associated protein (Cas_Csy4); Region: Cas_Csy4; cl09835 105559006877 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 105559006878 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 105559006879 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2,3-...; Region: LbH_LpxD; cd03352 105559006880 trimer interface; other site 105559006881 active site 105559006882 UDP-GlcNAc binding site; other site 105559006883 lipid-binding site 105559006884 Transposase IS200 like; Region: Transposase_17; cl00848 105559006885 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559006886 Helix-turn-helix domain; Region: HTH_14; pfam12323 105559006887 Probable transposase; Region: Transposase_2; pfam01385 105559006888 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 105559006889 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 105559006890 MASE1; Region: MASE1; cl01367 105559006891 PAS domain S-box; Region: sensory_box; TIGR00229 105559006892 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 105559006893 putative active site; other site 105559006894 heme pocket; other site 105559006895 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 105559006896 PAS fold; Region: PAS_4; pfam08448 105559006897 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559006898 metal-binding site 105559006899 active site 105559006900 I-site; other site 105559006901 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 105559006902 DNA repair protein RadA; Provisional; Region: PRK11823 105559006903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559006904 Walker A motif; other site 105559006905 ATP binding site; other site 105559006906 Walker B motif; other site 105559006907 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 105559006908 alanine racemase; Reviewed; Region: alr; PRK00053 105559006909 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 105559006910 active site 105559006911 pyridoxal 5'-phosphate (PLP) binding site; other site 105559006912 substrate binding site; other site 105559006913 catalytic residues; other site 105559006914 dimer interface; other site 105559006915 replicative DNA helicase; Region: DnaB; TIGR00665 105559006916 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 105559006917 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 105559006918 Walker A motif; other site 105559006919 ATP binding site; other site 105559006920 Walker B motif; other site 105559006921 DNA binding loops 105559006922 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 105559006923 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 105559006924 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 105559006925 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 105559006926 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 105559006927 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 105559006928 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 105559006929 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 105559006930 trehalose synthase; Region: treS_nterm; TIGR02456 105559006931 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 105559006932 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 105559006933 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 105559006934 active site 105559006935 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 105559006936 PilZ domain; Region: PilZ; cl01260 105559006937 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 105559006938 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 105559006939 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 105559006940 binding surface 105559006941 TPR motif; other site 105559006942 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 105559006943 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 105559006944 Peptidase family M3 dipeptidyl carboxypeptidase (DCP; Dcp II; peptidyl dipeptidase; EC 3.4.15.5). This metal-binding M3A family also includes oligopeptidase A (OpdA; EC 3.4.24.70) enzyme. DCP cleaves dipeptides off the C-termini of various peptides and...; Region: M3A_DCP_Oligopeptidase_A; cd06456 105559006945 active site 105559006946 zinc binding site; other site 105559006947 PAS domain S-box; Region: sensory_box; TIGR00229 105559006948 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 105559006949 putative active site; other site 105559006950 heme pocket; other site 105559006951 PAS domain S-box; Region: sensory_box; TIGR00229 105559006952 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 105559006953 putative active site; other site 105559006954 heme pocket; other site 105559006955 PAS domain S-box; Region: sensory_box; TIGR00229 105559006956 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 105559006957 putative active site; other site 105559006958 heme pocket; other site 105559006959 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 105559006960 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 105559006961 GAF domain; Region: GAF; cl00853 105559006962 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 105559006963 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 105559006964 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 105559006965 metal-binding site 105559006966 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 105559006967 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 105559006968 metal-binding site 105559006969 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 105559006970 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; cl11391 105559006971 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 105559006972 metal-binding site 105559006973 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 105559006974 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 105559006975 DNA binding residues 105559006976 dimer interface; other site 105559006977 copper binding site; other site 105559006978 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 105559006979 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 105559006980 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 105559006981 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 105559006982 ring oligomerisation interface; other site 105559006983 ATP/Mg binding site; other site 105559006984 stacking interactions; other site 105559006985 hinge regions; other site 105559006986 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...; Region: cpn10; cd00320 105559006987 oligomerisation interface; other site 105559006988 mobile loop; other site 105559006989 roof hairpin; other site 105559006990 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 105559006991 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 105559006992 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 105559006993 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 105559006994 S-adenosylmethionine binding site; other site 105559006995 Abi-like protein; Region: Abi_2; cl01988 105559006996 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 105559006997 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 105559006998 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 105559006999 ChuX-like family; Region: DUF1008; cl01509 105559007000 ChuX-like family; Region: DUF1008; cl01509 105559007001 HemK family putative methylases; Region: hemK_fam; TIGR00536 105559007002 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 105559007003 S-adenosylmethionine binding site; other site 105559007004 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 105559007005 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 105559007006 substrate binding site; other site 105559007007 ligand binding site; other site 105559007008 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 105559007009 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559007010 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 105559007011 Tetramer interface; other site 105559007012 active site 105559007013 FMN-binding site; other site 105559007014 Alkaline phytoceramidase (aPHC); Region: aPHC; pfam05875 105559007015 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 105559007016 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 105559007017 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 105559007018 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 105559007019 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 105559007020 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 105559007021 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 105559007022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559007023 Walker A/P-loop; other site 105559007024 ATP binding site; other site 105559007025 Q-loop/lid; other site 105559007026 ABC transporter signature motif; other site 105559007027 Walker B; other site 105559007028 D-loop; other site 105559007029 H-loop/switch region; other site 105559007030 universal stress protein UspE; Provisional; Region: PRK11175 105559007031 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 105559007032 Ligand Binding Site; other site 105559007033 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 105559007034 Ligand Binding Site; other site 105559007035 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 105559007036 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 105559007037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559007038 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 105559007039 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 105559007040 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 105559007041 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 105559007042 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant...; Region: GltS_FMN; cd02808 105559007043 active site 105559007044 FMN binding site; other site 105559007045 substrate binding site; other site 105559007046 3Fe-4S cluster binding site; other site 105559007047 Transposase; Region: Transposase_14; pfam01710 105559007048 Integrase core domain; Region: rve; cl01316 105559007049 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 105559007050 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559007051 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_4; cd03795 105559007052 putative ADP-binding pocket; other site 105559007053 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 105559007054 Type II transport protein GspH; Region: GspH; pfam12019 105559007055 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 105559007056 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 105559007057 general secretion pathway protein F; Region: GspF; TIGR02120 105559007058 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 105559007059 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 105559007060 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 105559007061 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 105559007062 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 105559007063 Walker A motif; other site 105559007064 ATP binding site; other site 105559007065 Walker B motif; other site 105559007066 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 105559007067 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 105559007068 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559007069 Multicopper oxidase; Region: Cu-oxidase; cl11412 105559007070 ribonuclease R; Region: RNase_R; TIGR02063 105559007071 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 105559007072 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 105559007073 RNB domain; Region: RNB; pfam00773 105559007074 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 105559007075 RNA binding site; other site 105559007076 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 105559007077 Cu(I) binding site; other site 105559007078 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 105559007079 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 105559007080 active site 105559007081 NTP binding site; other site 105559007082 metal binding triad; metal-binding site 105559007083 antibiotic binding site; other site 105559007084 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 105559007085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559007086 Helix-turn-helix domain; Region: HTH_14; pfam12323 105559007087 Probable transposase; Region: Transposase_2; pfam01385 105559007088 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 105559007089 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 105559007090 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 105559007091 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 105559007092 ATP binding site; other site 105559007093 putative Mg++ binding site; other site 105559007094 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 105559007095 Protein of unknown function DUF45; Region: DUF45; cl00636 105559007096 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 105559007097 Protein of unknown function (DUF779); Region: DUF779; cl01432 105559007098 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 105559007099 NAD(P) binding site; other site 105559007100 catalytic residues; other site 105559007101 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 105559007102 Transposase [DNA replication, recombination, and repair]; Region: COG5433 105559007103 Transposase [DNA replication, recombination, and repair]; Region: COG5433 105559007104 multidrug efflux protein; Reviewed; Region: PRK09579 105559007105 Protein export membrane protein; Region: SecD_SecF; cl14618 105559007106 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559007107 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 105559007108 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 105559007109 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 105559007110 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...; Region: DUS_like_FMN; cd02801 105559007111 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 105559007112 FMN binding site; other site 105559007113 active site 105559007114 catalytic residues; other site 105559007115 substrate binding site; other site 105559007116 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 105559007117 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 105559007118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559007119 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 higher-...; Region: HU_IHF; cd00591 105559007120 IHF - DNA interface; other site 105559007121 IHF dimer interface; other site 105559007122 Predicted transcriptional regulator [Transcription]; Region: COG1959 105559007123 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 105559007124 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 105559007125 Cu(I) binding site; other site 105559007126 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 105559007127 D-pathway; other site 105559007128 Low-spin heme binding site; other site 105559007129 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 105559007130 Putative water exit pathway; other site 105559007131 Binuclear center (active site); other site 105559007132 K-pathway; other site 105559007133 Putative proton exit pathway; other site 105559007134 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 105559007135 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 105559007136 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...; Region: AAA; cd00009 105559007137 Walker A motif; other site 105559007138 ATP binding site; other site 105559007139 Walker B motif; other site 105559007140 R3H domain of a group of proteins with unknown function, who also contain a AAA-ATPase (AAA) domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is...; Region: R3H_AAA; cd02645 105559007141 RxxxH motif; other site 105559007142 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 105559007143 anti sigma factor interaction site; other site 105559007144 regulatory phosphorylation site; other site 105559007145 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 105559007146 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 105559007147 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 105559007148 PAS domain S-box; Region: sensory_box; TIGR00229 105559007149 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 105559007150 putative active site; other site 105559007151 heme pocket; other site 105559007152 PAS domain S-box; Region: sensory_box; TIGR00229 105559007153 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 105559007154 putative active site; other site 105559007155 heme pocket; other site 105559007156 PAS domain S-box; Region: sensory_box; TIGR00229 105559007157 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 105559007158 putative active site; other site 105559007159 heme pocket; other site 105559007160 PAS domain S-box; Region: sensory_box; TIGR00229 105559007161 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 105559007162 putative active site; other site 105559007163 heme pocket; other site 105559007164 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 105559007165 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 105559007166 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 105559007167 Membrane bound L-sorbosone dehydrogenase; Region: SNDH; pfam12303 105559007168 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 105559007169 Myo-inositol-1-phosphate synthase; Region: Inos-1-P_synth; cl00554 105559007170 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 105559007171 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 105559007172 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 105559007173 pyridoxal 5'-phosphate binding pocket; other site 105559007174 catalytic residue; other site 105559007175 PAS domain S-box; Region: sensory_box; TIGR00229 105559007176 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 105559007177 putative active site; other site 105559007178 heme pocket; other site 105559007179 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 105559007180 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 105559007181 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 105559007182 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 105559007183 N-acetyl-D-glucosamine binding site; other site 105559007184 catalytic residue; other site 105559007185 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 105559007186 putative peptidoglycan binding site; other site 105559007187 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 105559007188 putative peptidoglycan binding site; other site 105559007189 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 105559007190 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 105559007191 putative metal binding site; other site 105559007192 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...; Region: DnaJ; cd06257 105559007193 HSP70 interaction site; other site 105559007194 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 105559007195 Flavoprotein; Region: Flavoprotein; cl08021 105559007196 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 105559007197 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 105559007198 trimer interface; other site 105559007199 active site 105559007200 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 105559007201 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 105559007202 active site 105559007203 substrate binding site; other site 105559007204 metal-binding site 105559007205 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using...; Region: AAK_NAGK-C; cd04250 105559007206 feedback inhibition sensing region; other site 105559007207 homohexameric interface; other site 105559007208 nucleotide binding site; other site 105559007209 N-acetyl-L-glutamate binding site; other site 105559007210 Sulfite exporter TauE/SafE; Region: TauE; cl00498 105559007211 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 105559007212 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 105559007213 muropeptide transporter; Reviewed; Region: ampG; PRK11902 105559007214 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 105559007215 YGGT family; Region: YGGT; cl00508 105559007216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559007217 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 105559007218 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 105559007219 pyridoxal 5'-phosphate (PLP) binding site; other site 105559007220 catalytic residue; other site 105559007221 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 105559007222 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 105559007223 Walker A motif; other site 105559007224 ATP binding site; other site 105559007225 Walker B motif; other site 105559007226 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 105559007227 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This...; Region: URO-D; cd00717 105559007228 substrate binding site; other site 105559007229 active site 105559007230 AIR carboxylase; Region: AIRC; cl00310 105559007231 DNA topoisomerase I; Provisional; Region: PRK08780 105559007232 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 105559007233 active site 105559007234 interdomain interaction site; other site 105559007235 putative metal-binding site; other site 105559007236 nucleotide binding site; other site 105559007237 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...; Region: TOP1Ac; cd00186 105559007238 domain I; other site 105559007239 DNA binding groove 105559007240 phosphate binding site; other site 105559007241 domain II; other site 105559007242 domain III; other site 105559007243 nucleotide binding site; other site 105559007244 catalytic site; other site 105559007245 domain IV; other site 105559007246 Protein of unknown function (DUF494); Region: DUF494; cl01103 105559007247 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 105559007248 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 105559007249 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 105559007250 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 105559007251 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(...; Region: Pep_deformylase; cd00487 105559007252 active site 105559007253 catalytic residues; other site 105559007254 metal-binding site 105559007255 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 105559007256 Formyl transferase; Region: Formyl_trans_N; cl00395 105559007257 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 105559007258 16S rRNA methyltransferase B; Provisional; Region: PRK10901 105559007259 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 105559007260 putative RNA binding site; other site 105559007261 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 105559007262 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 105559007263 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 connected by an extended linker. The...; Region: HAMP; cd06225 105559007264 dimerization interface; other site 105559007265 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 trans-...; Region: HisKA; cd00082 105559007266 dimer interface; other site 105559007267 phosphorylation site 105559007268 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 105559007269 ATP binding site; other site 105559007270 Mg2+ binding site; other site 105559007271 G-X-G motif; other site 105559007272 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559007273 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 105559007274 active site 105559007275 phosphorylation site 105559007276 intermolecular recognition site; other site 105559007277 dimerization interface; other site 105559007278 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...; Region: AAA; cd00009 105559007279 Walker A motif; other site 105559007280 ATP binding site; other site 105559007281 Walker B motif; other site 105559007282 arginine finger; other site 105559007283 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 105559007284 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 105559007285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559007286 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559007287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559007288 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 105559007289 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 105559007290 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 105559007291 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 105559007292 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 105559007293 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 105559007294 Major Facilitator Superfamily; Region: MFS_1; pfam07690 105559007295 putative substrate translocation pore; other site 105559007296 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 105559007297 dimer interface; other site 105559007298 ssDNA binding site; other site 105559007299 tetramer (dimer of dimers) interface; other site 105559007300 Uncharacterized conserved protein [Function unknown]; Region: HdeD; cl01277 105559007301 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 105559007302 substrate binding pocket; other site 105559007303 chain length determination region; other site 105559007304 substrate-Mg2+ binding site; other site 105559007305 catalytic residues; other site 105559007306 aspartate-rich region 1; other site 105559007307 active site lid residues 105559007308 aspartate-rich region 2; other site 105559007309 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 105559007310 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 105559007311 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 105559007312 GTP1/OBG; Region: GTP1_OBG; pfam01018 105559007313 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 105559007314 G1 box; other site 105559007315 GTP/Mg2+ binding site; other site 105559007316 Switch I region; other site 105559007317 G2 box; other site 105559007318 G3 box; other site 105559007319 Switch II region; other site 105559007320 G4 box; other site 105559007321 G5 box; other site 105559007322 gamma-glutamyl kinase; Provisional; Region: PRK05429 105559007323 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 105559007324 nucleotide binding site; other site 105559007325 homotetrameric interface; other site 105559007326 putative phosphate binding site; other site 105559007327 putative allosteric binding site; other site 105559007328 PUA domain; Region: PUA; cl00607 105559007329 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 105559007330 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 105559007331 UbiA prenyltransferase family; Region: UbiA; cl00337 105559007332 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl00696 105559007333 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 105559007334 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 105559007335 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 105559007336 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 105559007337 Subunit III/VIIa interface; other site 105559007338 Phospholipid binding site; other site 105559007339 Subunit I/III interface; other site 105559007340 Subunit III/VIb interface; other site 105559007341 Subunit III/VIa interface; other site 105559007342 Subunit III/Vb interface; other site 105559007343 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 105559007344 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 105559007345 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 105559007346 Subunit I/III interface; other site 105559007347 D-pathway; other site 105559007348 Subunit I/VIIc interface; other site 105559007349 Subunit I/IV interface; other site 105559007350 Subunit I/II interface; other site 105559007351 Low-spin heme (heme a) binding site; other site 105559007352 Subunit I/VIIa interface; other site 105559007353 Subunit I/VIa interface; other site 105559007354 Dimer interface; other site 105559007355 Putative water exit pathway; other site 105559007356 Binuclear center (heme a3/CuB); other site 105559007357 K-pathway; other site 105559007358 Subunit I/Vb interface; other site 105559007359 Putative proton exit pathway; other site 105559007360 Subunit I/VIb interface; other site 105559007361 Subunit I/VIc interface; other site 105559007362 Electron transfer pathway; other site 105559007363 Subunit I/VIIIb interface; other site 105559007364 Subunit I/VIIb interface; other site 105559007365 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 105559007366 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 105559007367 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 105559007368 Cytochrome c; Region: Cytochrom_C; cl11414 105559007369 Cytochrome c; Region: Cytochrom_C; cl11414 105559007370 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 105559007371 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 105559007372 putative active site pocket; other site 105559007373 4-fold oligomerization interface; other site 105559007374 metal binding residues; metal-binding site 105559007375 3-fold/trimer interface; other site 105559007376 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 105559007377 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 105559007378 putative active site; other site 105559007379 oxyanion strand; other site 105559007380 catalytic triad; other site 105559007381 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 105559007382 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 105559007383 catalytic residues; other site 105559007384 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)-formimino-5-; Region: HisF; cd04731 105559007385 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 105559007386 substrate binding site; other site 105559007387 glutamase interaction surface; other site 105559007388 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 105559007389 Phosphoribosyl-ATP pyrophosphohydrolase; Region: PRA-PH; cl00345 105559007390 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 105559007391 nucleotide binding site/active site; other site 105559007392 HIT family signature motif; other site 105559007393 catalytic residue; other site 105559007394 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 105559007395 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 105559007396 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 105559007397 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 105559007398 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559007399 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 105559007400 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 105559007401 putative cation:proton antiport protein; Provisional; Region: PRK10669 105559007402 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 105559007403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559007404 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 105559007405 P-loop; other site 105559007406 Transposase; Region: Transposase_14; pfam01710 105559007407 sucrose synthase; Region: sucr_synth; TIGR02470 105559007408 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 105559007409 putative ADP-binding pocket; other site 105559007410 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 105559007411 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 105559007412 putative ADP-binding pocket; other site 105559007413 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 105559007414 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 105559007415 active site 105559007416 motif I; other site 105559007417 motif II; other site 105559007418 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 105559007419 putative substrate binding site; other site 105559007420 putative ATP binding site; other site 105559007421 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 105559007422 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...; Region: GFAT; cd00714 105559007423 glutaminase active site; other site 105559007424 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 105559007425 dimer interface; other site 105559007426 active site 105559007427 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 105559007428 dimer interface; other site 105559007429 active site 105559007430 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 105559007431 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 105559007432 Substrate binding site; other site 105559007433 Mg++ binding site; other site 105559007434 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 105559007435 active site 105559007436 substrate binding site; other site 105559007437 CoA binding site; other site 105559007438 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 105559007439 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 105559007440 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 105559007441 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 105559007442 alpha subunit interaction interface; other site 105559007443 Walker A motif; other site 105559007444 ATP binding site; other site 105559007445 Walker B motif; other site 105559007446 inhibitor binding site; inhibition site 105559007447 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 105559007448 ATP synthase; Region: ATP-synt; cl00365 105559007449 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 105559007450 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 105559007451 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 105559007452 beta subunit interaction interface; other site 105559007453 Walker A motif; other site 105559007454 ATP binding site; other site 105559007455 Walker B motif; other site 105559007456 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 105559007457 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl00491 105559007458 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 105559007459 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 105559007460 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 105559007461 ATP synthase subunit C; Region: ATP-synt_C; cl00466 105559007462 ATP synthase A chain; Region: ATP-synt_A; cl00413 105559007463 ParB-like partition proteins; Region: parB_part; TIGR00180 105559007464 ParB-like nuclease domain; Region: ParBc; cl02129 105559007465 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 105559007466 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...; Region: ParA; cd02042 105559007467 P-loop; other site 105559007468 Magnesium ion binding site; other site 105559007469 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...; Region: ParA; cd02042 105559007470 Magnesium ion binding site; other site 105559007471 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 105559007472 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 105559007473 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 105559007474 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 105559007475 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 105559007476 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 105559007477 G1 box; other site 105559007478 GTP/Mg2+ binding site; other site 105559007479 Switch I region; other site 105559007480 G2 box; other site 105559007481 Switch II region; other site 105559007482 G3 box; other site 105559007483 G4 box; other site 105559007484 G5 box; other site 105559007485 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01318 105559007486 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 105559007487 Ribonuclease P; Region: Ribonuclease_P; cl00457 105559007488 YcfA-like protein; Region: YcfA; cl00752 105559007489 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 105559007490 HicB family; Region: HicB; pfam05534 105559007491 Domain of unknown function (DUF932); Region: DUF932; cl12129 105559007492 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 105559007493 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 105559007494 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 105559007495 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 105559007496 non-specific DNA binding site; other site 105559007497 salt bridge; other site 105559007498 sequence-specific DNA binding site; other site 105559007499 Replication initiator protein A; Region: RPA; cl02339 105559007500 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 105559007501 non-specific DNA binding site; other site 105559007502 salt bridge; other site 105559007503 sequence-specific DNA binding site; other site 105559007504 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 105559007505 PemK-like protein; Region: PemK; cl00995 105559007506 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 105559007507 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 105559007508 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 105559007509 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 105559007510 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 105559007511 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; cl12029 105559007512 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 105559007513 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 105559007514 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 105559007515 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 105559007516 DNA binding site 105559007517 Int/Topo IB signature motif; other site 105559007518 active site 105559007519 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 105559007520 ParB-like nuclease domain; Region: ParBc; cl02129 105559007521 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 105559007522 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...; Region: ParA; cd02042 105559007523 P-loop; other site 105559007524 Magnesium ion binding site; other site 105559007525 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...; Region: ParA; cd02042 105559007526 Magnesium ion binding site; other site 105559007527 Restriction endonuclease; Region: Mrr_cat; cl00747 105559007528 DNA topoisomerase III; Validated; Region: PRK08174 105559007529 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 105559007530 Type II transport protein GspH; Region: GspH; pfam12019 105559007531 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 105559007532 sequence-specific DNA binding site; other site 105559007533 salt bridge; other site 105559007534 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559007535 Replication initiator protein A; Region: RPA; cl02339