-- dump date 20140619_231224 -- class Genbank::misc_feature -- table misc_feature_note -- id note 435591000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 435591000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 435591000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591000004 Walker A motif; other site 435591000005 ATP binding site [chemical binding]; other site 435591000006 Walker B motif; other site 435591000007 arginine finger; other site 435591000008 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 435591000009 DnaA box-binding interface [nucleotide binding]; other site 435591000010 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 435591000011 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 435591000012 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 435591000013 active site 435591000014 dimer interface [polypeptide binding]; other site 435591000015 effector binding site; other site 435591000016 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 435591000017 TSCPD domain; Region: TSCPD; cl14834 435591000018 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cd05467 435591000019 4-alpha-glucanotransferase; Region: PLN02950 435591000020 starch-binding site 2 [chemical binding]; other site 435591000021 starch-binding site 1 [chemical binding]; other site 435591000022 Disproportionating enzyme 2 (DPE2), N-terminal CBM20 (carbohydrate-binding module, family 20) domain, repeat 2. DPE2 is a transglucosidase that is essential for the cytosolic metabolism of maltose in plant leaves at night. Maltose is an intermediate on...; Region: CBM20_DPE2_repeat2; cd05816 435591000023 starch binding site 2 [chemical binding]; other site 435591000024 starch binding site 1 [chemical binding]; other site 435591000025 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 435591000026 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 435591000027 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 435591000028 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 435591000029 active site 435591000030 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 435591000031 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 435591000032 4Fe-4S binding domain; Region: Fer4; pfam00037 435591000033 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 435591000034 Peptide-N-glycosidase F, N terminal; Region: N-glycanase_N; pfam09112 435591000035 Peptide-N-glycosidase F, C terminal; Region: N-glycanase_C; pfam09113 435591000036 MarC family integral membrane protein; Region: MarC; pfam01914 435591000037 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 435591000038 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 435591000039 Two component regulator propeller; Region: Reg_prop; pfam07494 435591000040 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591000041 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591000042 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 435591000043 active site 435591000044 DNA binding site [nucleotide binding] 435591000045 Int/Topo IB signature motif; other site 435591000046 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 435591000047 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 435591000048 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 435591000049 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 435591000050 Mg++ binding site [ion binding]; other site 435591000051 putative catalytic motif [active] 435591000052 substrate binding site [chemical binding]; other site 435591000053 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435591000054 SLBB domain; Region: SLBB; pfam10531 435591000055 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 435591000056 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 435591000057 Chain length determinant protein; Region: Wzz; cl15801 435591000058 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 435591000059 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 435591000060 P-loop; other site 435591000061 Magnesium ion binding site [ion binding]; other site 435591000062 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 435591000063 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 435591000064 metal ion-dependent adhesion site (MIDAS); other site 435591000065 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 435591000066 amidase catalytic site [active] 435591000067 Zn binding residues [ion binding]; other site 435591000068 substrate binding site [chemical binding]; other site 435591000069 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591000070 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 435591000071 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 435591000072 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591000073 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435591000074 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 435591000075 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 435591000076 NAD binding site [chemical binding]; other site 435591000077 substrate binding site [chemical binding]; other site 435591000078 homodimer interface [polypeptide binding]; other site 435591000079 active site 435591000080 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 435591000081 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435591000082 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591000083 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 435591000084 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 435591000085 active site 435591000086 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 435591000087 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 435591000088 putative trimer interface [polypeptide binding]; other site 435591000089 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 435591000090 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 435591000091 trimer interface [polypeptide binding]; other site 435591000092 active site 435591000093 substrate binding site [chemical binding]; other site 435591000094 putative CoA binding site [chemical binding]; other site 435591000095 CoA binding site [chemical binding]; other site 435591000096 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591000097 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 435591000098 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 435591000099 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 435591000100 trimer interface [polypeptide binding]; other site 435591000101 active site 435591000102 substrate binding site [chemical binding]; other site 435591000103 CoA binding site [chemical binding]; other site 435591000104 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591000105 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591000106 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591000107 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 435591000108 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 435591000109 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 435591000110 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 435591000111 putative active site [active] 435591000112 putative metal binding site [ion binding]; other site 435591000113 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591000114 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591000115 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 435591000116 putative trimer interface [polypeptide binding]; other site 435591000117 putative CoA binding site [chemical binding]; other site 435591000118 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 435591000119 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 435591000120 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 435591000121 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 435591000122 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 435591000123 active site 435591000124 homodimer interface [polypeptide binding]; other site 435591000125 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 435591000126 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 435591000127 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 435591000128 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 435591000129 Probable Catalytic site; other site 435591000130 metal-binding site 435591000131 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 435591000132 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 435591000133 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 435591000134 putative acyl-acceptor binding pocket; other site 435591000135 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 435591000136 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 435591000137 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 435591000138 FeS/SAM binding site; other site 435591000139 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 435591000140 A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the...; Region: GH20_SpHex_like; cd06568 435591000141 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 435591000142 active site 435591000143 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 435591000144 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 435591000145 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 435591000146 acyl-activating enzyme (AAE) consensus motif; other site 435591000147 putative AMP binding site [chemical binding]; other site 435591000148 putative active site [active] 435591000149 putative CoA binding site [chemical binding]; other site 435591000150 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 435591000151 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 (16,20)...; Region: OM_channels; cl17244 435591000152 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 435591000153 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 435591000154 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435591000155 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591000156 Domain of unknown function (DUF303); Region: DUF303; pfam03629 435591000157 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 435591000158 dimerization interface [polypeptide binding]; other site 435591000159 putative active cleft [active] 435591000160 MFS/sugar transport protein; Region: MFS_2; pfam13347 435591000161 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 435591000162 putative substrate translocation pore; other site 435591000163 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 435591000164 active site 435591000165 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 435591000166 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591000167 Protein of unknown function (DUF3716); Region: DUF3716; pfam12511 435591000168 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591000169 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 435591000170 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 435591000171 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 435591000172 inhibitor-cofactor binding pocket; inhibition site 435591000173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591000174 catalytic residue [active] 435591000175 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 435591000176 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 435591000177 argininosuccinate synthase; Provisional; Region: PRK13820 435591000178 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 435591000179 ANP binding site [chemical binding]; other site 435591000180 Substrate Binding Site II [chemical binding]; other site 435591000181 Substrate Binding Site I [chemical binding]; other site 435591000182 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435591000183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591000184 Coenzyme A binding pocket [chemical binding]; other site 435591000185 Arginine repressor [Transcription]; Region: ArgR; COG1438 435591000186 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 435591000187 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 435591000188 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 435591000189 Peptidase family M48; Region: Peptidase_M48; pfam01435 435591000190 MutS domain III; Region: MutS_III; pfam05192 435591000191 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 435591000192 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 435591000193 Walker A/P-loop; other site 435591000194 ATP binding site [chemical binding]; other site 435591000195 Q-loop/lid; other site 435591000196 ABC transporter signature motif; other site 435591000197 Walker B; other site 435591000198 D-loop; other site 435591000199 H-loop/switch region; other site 435591000200 Phospholipase A1; Region: PLA1; pfam02253 435591000201 dimerization interface [polypeptide binding]; other site 435591000202 substrate binding site [chemical binding]; other site 435591000203 active site 435591000204 calcium binding site [ion binding]; other site 435591000205 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 435591000206 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 435591000207 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 435591000208 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 435591000209 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435591000210 ATP-grasp domain; Region: ATP-grasp_4; cl17255 435591000211 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 435591000212 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 435591000213 carboxyltransferase (CT) interaction site; other site 435591000214 biotinylation site [posttranslational modification]; other site 435591000215 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 435591000216 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 435591000217 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435591000218 nucleotide binding site [chemical binding]; other site 435591000219 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 435591000220 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 435591000221 putative active site [active] 435591000222 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 435591000223 MgtC family; Region: MgtC; pfam02308 435591000224 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 435591000225 putative active site [active] 435591000226 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591000227 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591000228 SusD family; Region: SusD; pfam07980 435591000229 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591000230 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591000231 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591000232 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591000233 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591000234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591000235 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591000236 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591000237 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 435591000238 Melibiase; Region: Melibiase; pfam02065 435591000239 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 435591000240 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 435591000241 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH_2; cd04602 435591000242 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 435591000243 active site 435591000244 Pirin; Region: Pirin; pfam02678 435591000245 Pirin-related protein [General function prediction only]; Region: COG1741 435591000246 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 435591000247 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 435591000248 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 435591000249 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 435591000250 dimer interface [polypeptide binding]; other site 435591000251 decamer (pentamer of dimers) interface [polypeptide binding]; other site 435591000252 catalytic triad [active] 435591000253 peroxidatic and resolving cysteines [active] 435591000254 PAS fold; Region: PAS_3; pfam08447 435591000255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591000256 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591000257 dimer interface [polypeptide binding]; other site 435591000258 phosphorylation site [posttranslational modification] 435591000259 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 435591000260 ATP binding site [chemical binding]; other site 435591000261 Mg2+ binding site [ion binding]; other site 435591000262 G-X-G motif; other site 435591000263 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 435591000264 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 435591000265 Walker A/P-loop; other site 435591000266 ATP binding site [chemical binding]; other site 435591000267 Q-loop/lid; other site 435591000268 ABC transporter signature motif; other site 435591000269 Walker B; other site 435591000270 D-loop; other site 435591000271 H-loop/switch region; other site 435591000272 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 435591000273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 435591000274 dimer interface [polypeptide binding]; other site 435591000275 conserved gate region; other site 435591000276 putative PBP binding loops; other site 435591000277 ABC-ATPase subunit interface; other site 435591000278 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 435591000279 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 435591000280 Thioredoxin; Region: Thioredoxin_4; cl17273 435591000281 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 435591000282 active site 435591000283 catalytic triad [active] 435591000284 oxyanion hole [active] 435591000285 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 435591000286 Ferritin-like domain; Region: Ferritin; pfam00210 435591000287 ferroxidase diiron center [ion binding]; other site 435591000288 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 435591000289 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 generally...; Region: ACD_sHsps-like; cd06464 435591000290 putative dimer interface [polypeptide binding]; other site 435591000291 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 435591000292 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_14; cd04672 435591000293 nudix motif; other site 435591000294 Domain of unknown function (DUF718); Region: DUF718; pfam05336 435591000295 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 435591000296 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 435591000297 putative substrate translocation pore; other site 435591000298 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435591000299 ligand binding site [chemical binding]; other site 435591000300 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 435591000301 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 435591000302 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 435591000303 ResB-like family; Region: ResB; pfam05140 435591000304 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 435591000305 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 435591000306 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591000307 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 435591000308 ligand binding site [chemical binding]; other site 435591000309 flexible hinge region; other site 435591000310 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 435591000311 putative switch regulator; other site 435591000312 non-specific DNA interactions [nucleotide binding]; other site 435591000313 DNA binding site [nucleotide binding] 435591000314 sequence specific DNA binding site [nucleotide binding]; other site 435591000315 putative cAMP binding site [chemical binding]; other site 435591000316 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 435591000317 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 435591000318 active site 435591000319 phosphorylation site [posttranslational modification] 435591000320 intermolecular recognition site; other site 435591000321 dimerization interface [polypeptide binding]; other site 435591000322 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591000323 Walker A motif; other site 435591000324 ATP binding site [chemical binding]; other site 435591000325 Walker B motif; other site 435591000326 arginine finger; other site 435591000327 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435591000328 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 435591000329 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 435591000330 dimerization interface [polypeptide binding]; other site 435591000331 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 435591000332 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 435591000333 putative active site [active] 435591000334 heme pocket [chemical binding]; other site 435591000335 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591000336 dimer interface [polypeptide binding]; other site 435591000337 phosphorylation site [posttranslational modification] 435591000338 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 435591000339 ATP binding site [chemical binding]; other site 435591000340 Mg2+ binding site [ion binding]; other site 435591000341 G-X-G motif; other site 435591000342 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 435591000343 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 435591000344 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 435591000345 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 435591000346 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 435591000347 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 435591000348 active site 435591000349 DNA binding site [nucleotide binding] 435591000350 Int/Topo IB signature motif; other site 435591000351 Transcription antiterminator [Transcription]; Region: NusG; COG0250 435591000352 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435591000353 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 435591000354 homodimer interface [polypeptide binding]; other site 435591000355 aspartate aminotransferase; Provisional; Region: PRK06290 435591000356 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; cl17915 435591000357 active site 435591000358 motif I; other site 435591000359 motif II; other site 435591000360 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 435591000361 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435591000362 Chain length determinant protein; Region: Wzz; cl15801 435591000363 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 435591000364 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 435591000365 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 435591000366 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435591000367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591000368 NAD(P) binding site [chemical binding]; other site 435591000369 active site 435591000370 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 435591000371 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 435591000372 inhibitor-cofactor binding pocket; inhibition site 435591000373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591000374 catalytic residue [active] 435591000375 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 435591000376 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 435591000377 NAD(P) binding site [chemical binding]; other site 435591000378 homodimer interface [polypeptide binding]; other site 435591000379 substrate binding site [chemical binding]; other site 435591000380 active site 435591000381 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591000382 Peptidase M15; Region: Peptidase_M15_3; cl01194 435591000383 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 435591000384 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591000385 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 435591000386 ligand binding site [chemical binding]; other site 435591000387 flexible hinge region; other site 435591000388 Outer membrane efflux protein; Region: OEP; pfam02321 435591000389 Outer membrane efflux protein; Region: OEP; pfam02321 435591000390 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 435591000391 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591000392 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591000393 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 435591000394 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 435591000395 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 435591000396 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 435591000397 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 435591000398 ABC-2 type transporter; Region: ABC2_membrane; cl17235 435591000399 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591000400 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 435591000401 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 435591000402 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435591000403 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 435591000404 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 435591000405 motif II; other site 435591000406 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 435591000407 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 435591000408 active site 435591000409 dimer interface [polypeptide binding]; other site 435591000410 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 435591000411 dimer interface [polypeptide binding]; other site 435591000412 active site 435591000413 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 435591000414 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435591000415 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 435591000416 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 435591000417 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 435591000418 dimer interface [polypeptide binding]; other site 435591000419 putative anticodon binding site; other site 435591000420 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 435591000421 motif 1; other site 435591000422 active site 435591000423 motif 2; other site 435591000424 motif 3; other site 435591000425 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 435591000426 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 435591000427 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 435591000428 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 435591000429 putative active site [active] 435591000430 redox center [active] 435591000431 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 435591000432 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 435591000433 active site 435591000434 (T/H)XGH motif; other site 435591000435 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 435591000436 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 435591000437 catalytic site [active] 435591000438 G-X2-G-X-G-K; other site 435591000439 hypothetical protein; Provisional; Region: PRK11820 435591000440 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 435591000441 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 435591000442 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 435591000443 Glycoprotease family; Region: Peptidase_M22; pfam00814 435591000444 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 435591000445 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 435591000446 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 435591000447 carboxyltransferase (CT) interaction site; other site 435591000448 biotinylation site [posttranslational modification]; other site 435591000449 Lamin Tail Domain; Region: LTD; pfam00932 435591000450 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 435591000451 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 435591000452 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 435591000453 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 435591000454 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435591000455 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 435591000456 dimer interface [polypeptide binding]; other site 435591000457 substrate binding site [chemical binding]; other site 435591000458 metal binding site [ion binding]; metal-binding site 435591000459 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591000460 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591000461 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 (16,20)...; Region: OM_channels; cl17244 435591000462 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_2; cd02151 435591000463 putative FMN binding site [chemical binding]; other site 435591000464 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 435591000465 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 435591000466 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 435591000467 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 435591000468 active site 435591000469 motif I; other site 435591000470 motif II; other site 435591000471 Maf-like protein; Region: Maf; pfam02545 435591000472 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 435591000473 active site 435591000474 dimer interface [polypeptide binding]; other site 435591000475 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 435591000476 ApbE family; Region: ApbE; pfam02424 435591000477 Dihydroxyacid dehydratase/phosphogluconate dehydratase [Amino acid transport and metabolism / Carbohydrate transport and metabolism]; Region: IlvD; COG0129 435591000478 Predicted membrane protein [Function unknown]; Region: COG1971 435591000479 Domain of unknown function DUF; Region: DUF204; pfam02659 435591000480 Domain of unknown function DUF; Region: DUF204; pfam02659 435591000481 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 435591000482 putative FMN binding site [chemical binding]; other site 435591000483 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 435591000484 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 435591000485 Ligand binding site; other site 435591000486 Putative Catalytic site; other site 435591000487 DXD motif; other site 435591000488 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 435591000489 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 435591000490 pantothenate kinase; Reviewed; Region: PRK13320 435591000491 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 435591000492 TPR repeat; Region: TPR_11; pfam13414 435591000493 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 435591000494 binding surface 435591000495 TPR motif; other site 435591000496 TPR repeat; Region: TPR_11; pfam13414 435591000497 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 435591000498 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 435591000499 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 435591000500 Domain of unknown function DUF21; Region: DUF21; pfam01595 435591000501 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 435591000502 Transporter associated domain; Region: CorC_HlyC; smart01091 435591000503 SurA N-terminal domain; Region: SurA_N_3; cl07813 435591000504 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 435591000505 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 435591000506 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14466 435591000507 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 435591000508 FeS/SAM binding site; other site 435591000509 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 435591000510 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 435591000511 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591000512 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 435591000513 active site 435591000514 nucleotide binding site [chemical binding]; other site 435591000515 HIGH motif; other site 435591000516 KMSKS motif; other site 435591000517 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 435591000518 classical (c) SDRs; Region: SDR_c; cd05233 435591000519 NAD(P) binding site [chemical binding]; other site 435591000520 active site 435591000521 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 435591000522 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 435591000523 putative acyl-acceptor binding pocket; other site 435591000524 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591000525 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 435591000526 Walker A motif; other site 435591000527 ATP binding site [chemical binding]; other site 435591000528 Walker B motif; other site 435591000529 arginine finger; other site 435591000530 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435591000531 Lipopolysaccharide-assembly; Region: LptE; pfam04390 435591000532 Preprotein translocase SecG subunit; Region: SecG; pfam03840 435591000533 Citrate transporter; Region: CitMHS; pfam03600 435591000534 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 435591000535 homopentamer interface [polypeptide binding]; other site 435591000536 active site 435591000537 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 435591000538 TPR motif; other site 435591000539 binding surface 435591000540 recombination protein F; Reviewed; Region: recF; PRK00064 435591000541 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591000542 Walker A/P-loop; other site 435591000543 ATP binding site [chemical binding]; other site 435591000544 Q-loop/lid; other site 435591000545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591000546 ABC transporter signature motif; other site 435591000547 Walker B; other site 435591000548 D-loop; other site 435591000549 H-loop/switch region; other site 435591000550 Protein of unknown function (DUF721); Region: DUF721; pfam05258 435591000551 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 435591000552 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 435591000553 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 435591000554 C-terminal peptidase (prc); Region: prc; TIGR00225 435591000555 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 435591000556 protein binding site [polypeptide binding]; other site 435591000557 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 435591000558 Catalytic dyad [active] 435591000559 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 435591000560 catalytic motif [active] 435591000561 Zn binding site [ion binding]; other site 435591000562 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 435591000563 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 435591000564 active site 435591000565 Zn binding site [ion binding]; other site 435591000566 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 435591000567 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 435591000568 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 435591000569 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 435591000570 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591000571 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 435591000572 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 435591000573 putative active site [active] 435591000574 catalytic site [active] 435591000575 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 435591000576 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 435591000577 Pantoate-beta-alanine ligase; Region: PanC; cd00560 435591000578 pantoate--beta-alanine ligase; Region: panC; TIGR00018 435591000579 active site 435591000580 ATP-binding site [chemical binding]; other site 435591000581 pantoate-binding site; other site 435591000582 HXXH motif; other site 435591000583 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 435591000584 tetramerization interface [polypeptide binding]; other site 435591000585 active site 435591000586 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 435591000587 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591000588 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 435591000589 metal binding site 2 [ion binding]; metal-binding site 435591000590 putative DNA binding helix; other site 435591000591 metal binding site 1 [ion binding]; metal-binding site 435591000592 dimer interface [polypeptide binding]; other site 435591000593 structural Zn2+ binding site [ion binding]; other site 435591000594 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 435591000595 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 435591000596 Soluble P-type ATPase [General function prediction only]; Region: COG4087 435591000597 signal recognition particle protein; Provisional; Region: PRK10867 435591000598 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 435591000599 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 435591000600 P loop; other site 435591000601 GTP binding site [chemical binding]; other site 435591000602 Signal peptide binding domain; Region: SRP_SPB; pfam02978 435591000603 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 435591000604 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 435591000605 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 435591000606 homodimer interface [polypeptide binding]; other site 435591000607 NADP binding site [chemical binding]; other site 435591000608 substrate binding site [chemical binding]; other site 435591000609 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 435591000610 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 435591000611 Peptidase family M28; Region: Peptidase_M28; pfam04389 435591000612 metal binding site [ion binding]; metal-binding site 435591000613 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591000614 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 435591000615 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591000616 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 435591000617 Outer membrane efflux protein; Region: OEP; pfam02321 435591000618 Outer membrane efflux protein; Region: OEP; pfam02321 435591000619 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 435591000620 4Fe-4S binding domain; Region: Fer4; pfam00037 435591000621 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 435591000622 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 435591000623 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 435591000624 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591000625 catalytic residues [active] 435591000626 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 435591000627 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591000628 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591000629 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591000630 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 435591000631 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 435591000632 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591000633 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591000634 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591000635 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 (16,20)...; Region: OM_channels; cl17244 435591000636 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591000637 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591000638 SusD family; Region: SusD; pfam07980 435591000639 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 435591000640 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 435591000641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591000642 Walker A/P-loop; other site 435591000643 ATP binding site [chemical binding]; other site 435591000644 Q-loop/lid; other site 435591000645 ABC transporter signature motif; other site 435591000646 Walker B; other site 435591000647 D-loop; other site 435591000648 H-loop/switch region; other site 435591000649 ABC transporter; Region: ABC_tran_2; pfam12848 435591000650 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591000651 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 435591000652 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 435591000653 active site 435591000654 dimer interface [polypeptide binding]; other site 435591000655 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 435591000656 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 435591000657 active site 435591000658 dimer interface [polypeptide binding]; other site 435591000659 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 435591000660 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 435591000661 active site 435591000662 trimer interface [polypeptide binding]; other site 435591000663 allosteric site; other site 435591000664 active site lid [active] 435591000665 hexamer (dimer of trimers) interface [polypeptide binding]; other site 435591000666 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 435591000667 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591000668 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591000669 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591000670 DNA binding residues [nucleotide binding] 435591000671 FecR protein; Region: FecR; pfam04773 435591000672 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591000673 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591000674 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591000675 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591000676 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591000677 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 (16,20)...; Region: OM_channels; cl17244 435591000678 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591000679 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 435591000680 active site 435591000681 catalytic triad [active] 435591000682 oxyanion hole [active] 435591000683 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 435591000684 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 435591000685 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 435591000686 Predicted helicase [General function prediction only]; Region: COG4889 435591000687 Domain of unknown function DUF87; Region: DUF87; pfam01935 435591000688 AAA-like domain; Region: AAA_10; pfam12846 435591000689 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 435591000690 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 435591000691 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 435591000692 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 435591000693 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591000694 Coenzyme A binding pocket [chemical binding]; other site 435591000695 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 435591000696 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 435591000697 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 435591000698 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 435591000699 DNA binding site [nucleotide binding] 435591000700 active site 435591000701 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 435591000702 Ferritin-like domain; Region: Ferritin; pfam00210 435591000703 ferroxidase diiron center [ion binding]; other site 435591000704 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 435591000705 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 435591000706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591000707 catalytic residue [active] 435591000708 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 435591000709 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 435591000710 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 435591000711 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 435591000712 putative catalytic residues [active] 435591000713 nucleotide binding site [chemical binding]; other site 435591000714 aspartate binding site [chemical binding]; other site 435591000715 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 435591000716 dimer interface [polypeptide binding]; other site 435591000717 putative threonine allosteric regulatory site; other site 435591000718 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 435591000719 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 435591000720 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 435591000721 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 435591000722 EamA-like transporter family; Region: EamA; pfam00892 435591000723 EamA-like transporter family; Region: EamA; pfam00892 435591000724 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 435591000725 core domain interface [polypeptide binding]; other site 435591000726 delta subunit interface [polypeptide binding]; other site 435591000727 epsilon subunit interface [polypeptide binding]; other site 435591000728 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 435591000729 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 435591000730 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 435591000731 beta subunit interaction interface [polypeptide binding]; other site 435591000732 Walker A motif; other site 435591000733 ATP binding site [chemical binding]; other site 435591000734 Walker B motif; other site 435591000735 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 435591000736 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 435591000737 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 435591000738 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 435591000739 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 435591000740 ATP synthase subunit C; Region: ATP-synt_C; cl00466 435591000741 ATP synthase A chain; Region: ATP-synt_A; cl00413 435591000742 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 435591000743 gamma subunit interface [polypeptide binding]; other site 435591000744 LBP interface [polypeptide binding]; other site 435591000745 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 435591000746 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 435591000747 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 435591000748 alpha subunit interaction interface [polypeptide binding]; other site 435591000749 Walker A motif; other site 435591000750 ATP binding site [chemical binding]; other site 435591000751 Walker B motif; other site 435591000752 inhibitor binding site; inhibition site 435591000753 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 435591000754 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 435591000755 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591000756 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591000757 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591000758 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591000759 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 435591000760 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 435591000761 putative ligand binding site [chemical binding]; other site 435591000762 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591000763 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591000764 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591000765 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591000766 SusD family; Region: SusD; pfam07980 435591000767 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435591000768 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 435591000769 Metal-binding active site; metal-binding site 435591000770 PspC domain; Region: PspC; pfam04024 435591000771 excinuclease ABC subunit B; Provisional; Region: PRK05298 435591000772 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 435591000773 ATP binding site [chemical binding]; other site 435591000774 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 435591000775 nucleotide binding region [chemical binding]; other site 435591000776 ATP-binding site [chemical binding]; other site 435591000777 Ultra-violet resistance protein B; Region: UvrB; pfam12344 435591000778 UvrB/uvrC motif; Region: UVR; pfam02151 435591000779 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591000780 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 435591000781 ligand binding site [chemical binding]; other site 435591000782 flexible hinge region; other site 435591000783 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 435591000784 putative switch regulator; other site 435591000785 non-specific DNA interactions [nucleotide binding]; other site 435591000786 DNA binding site [nucleotide binding] 435591000787 sequence specific DNA binding site [nucleotide binding]; other site 435591000788 putative cAMP binding site [chemical binding]; other site 435591000789 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 435591000790 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 435591000791 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 435591000792 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 435591000793 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 435591000794 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 435591000795 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 435591000796 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 435591000797 S-adenosylmethionine binding site [chemical binding]; other site 435591000798 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 435591000799 amidase catalytic site [active] 435591000800 Zn binding residues [ion binding]; other site 435591000801 substrate binding site [chemical binding]; other site 435591000802 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591000803 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 435591000804 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 435591000805 VirE N-terminal domain; Region: VirE_N; pfam08800 435591000806 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 435591000807 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591000808 active site 435591000809 DNA binding site [nucleotide binding] 435591000810 Int/Topo IB signature motif; other site 435591000811 Transcription antiterminator [Transcription]; Region: NusG; COG0250 435591000812 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435591000813 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 435591000814 homodimer interface [polypeptide binding]; other site 435591000815 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 435591000816 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 435591000817 Mg++ binding site [ion binding]; other site 435591000818 putative catalytic motif [active] 435591000819 substrate binding site [chemical binding]; other site 435591000820 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591000821 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 435591000822 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 435591000823 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 435591000824 Probable Catalytic site; other site 435591000825 metal-binding site 435591000826 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591000827 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 435591000828 Walker A motif; other site 435591000829 ATP binding site [chemical binding]; other site 435591000830 Walker B motif; other site 435591000831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 435591000832 Integrase core domain; Region: rve; pfam00665 435591000833 HipA N-terminal domain; Region: Couple_hipA; pfam13657 435591000834 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 435591000835 non-specific DNA binding site [nucleotide binding]; other site 435591000836 salt bridge; other site 435591000837 sequence-specific DNA binding site [nucleotide binding]; other site 435591000838 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 435591000839 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 435591000840 amidophosphoribosyltransferase; Region: purF; TIGR01134 435591000841 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 435591000842 active site 435591000843 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435591000844 active site 435591000845 peptidase T; Region: peptidase-T; TIGR01882 435591000846 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 435591000847 metal binding site [ion binding]; metal-binding site 435591000848 dimer interface [polypeptide binding]; other site 435591000849 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 435591000850 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 435591000851 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 435591000852 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591000853 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591000854 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 435591000855 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 435591000856 NAD synthetase; Reviewed; Region: nadE; PRK02628 435591000857 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 435591000858 multimer interface [polypeptide binding]; other site 435591000859 active site 435591000860 catalytic triad [active] 435591000861 protein interface 1 [polypeptide binding]; other site 435591000862 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 435591000863 homodimer interface [polypeptide binding]; other site 435591000864 NAD binding pocket [chemical binding]; other site 435591000865 ATP binding pocket [chemical binding]; other site 435591000866 Mg binding site [ion binding]; other site 435591000867 active-site loop [active] 435591000868 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 435591000869 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 435591000870 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 435591000871 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 435591000872 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 435591000873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591000874 homodimer interface [polypeptide binding]; other site 435591000875 catalytic residue [active] 435591000876 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 435591000877 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 435591000878 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 435591000879 asparagine synthetase B; Provisional; Region: asnB; PRK09431 435591000880 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 435591000881 active site 435591000882 dimer interface [polypeptide binding]; other site 435591000883 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 435591000884 Ligand Binding Site [chemical binding]; other site 435591000885 Molecular Tunnel; other site 435591000886 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 435591000887 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 435591000888 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435591000889 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 435591000890 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 435591000891 active site 435591000892 dimer interface [polypeptide binding]; other site 435591000893 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 435591000894 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 435591000895 active site 435591000896 FMN binding site [chemical binding]; other site 435591000897 substrate binding site [chemical binding]; other site 435591000898 3Fe-4S cluster binding site [ion binding]; other site 435591000899 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 435591000900 domain interface; other site 435591000901 Protein of unknown function (DUF3843); Region: DUF3843; pfam12954 435591000902 Protein of unknown function (DUF3843); Region: DUF3843; pfam12954 435591000903 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591000904 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 435591000905 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 (16,20)...; Region: OM_channels; cl17244 435591000906 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 (16,20)...; Region: OM_channels; cl17244 435591000907 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 435591000908 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 435591000909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 435591000910 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 435591000911 RNA binding surface [nucleotide binding]; other site 435591000912 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 435591000913 putative active site [active] 435591000914 catalytic residue [active] 435591000915 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 435591000916 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 435591000917 5S rRNA interface [nucleotide binding]; other site 435591000918 CTC domain interface [polypeptide binding]; other site 435591000919 L16 interface [polypeptide binding]; other site 435591000920 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 435591000921 classical (c) SDRs; Region: SDR_c; cd05233 435591000922 NAD(P) binding site [chemical binding]; other site 435591000923 active site 435591000924 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 435591000925 phosphate binding site [ion binding]; other site 435591000926 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591000927 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 435591000928 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591000929 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591000930 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591000931 Outer membrane efflux protein; Region: OEP; pfam02321 435591000932 Outer membrane efflux protein; Region: OEP; pfam02321 435591000933 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435591000934 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435591000935 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591000936 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591000937 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 435591000938 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 435591000939 Acyltransferase family; Region: Acyl_transf_3; pfam01757 435591000940 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 435591000941 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 435591000942 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 435591000943 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591000944 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591000945 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591000946 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 435591000947 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591000948 FtsX-like permease family; Region: FtsX; pfam02687 435591000949 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591000950 FtsX-like permease family; Region: FtsX; pfam02687 435591000951 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591000952 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 435591000953 FtsX-like permease family; Region: FtsX; pfam02687 435591000954 FtsX-like permease family; Region: FtsX; pfam02687 435591000955 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 435591000956 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 435591000957 Domain of unknown function (DUF362); Region: DUF362; pfam04015 435591000958 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 435591000959 Lumazine binding domain; Region: Lum_binding; pfam00677 435591000960 Lumazine binding domain; Region: Lum_binding; pfam00677 435591000961 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 435591000962 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 435591000963 HSP70 interaction site [polypeptide binding]; other site 435591000964 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 435591000965 dimer interface [polypeptide binding]; other site 435591000966 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 435591000967 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 435591000968 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591000969 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 435591000970 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 435591000971 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 435591000972 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435591000973 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 435591000974 protein binding site [polypeptide binding]; other site 435591000975 PDZ-like domain; Region: PDZ_1; pfam12812 435591000976 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 435591000977 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 435591000978 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591000979 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 435591000980 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591000981 DNA binding residues [nucleotide binding] 435591000982 Uncharacterized conserved protein [Function unknown]; Region: COG3538 435591000983 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 435591000984 Sulfatase; Region: Sulfatase; cl17466 435591000985 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591000986 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 435591000987 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591000988 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 435591000989 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 435591000990 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 435591000991 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 435591000992 Peptidase family M23; Region: Peptidase_M23; pfam01551 435591000993 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 435591000994 non-specific DNA binding site [nucleotide binding]; other site 435591000995 salt bridge; other site 435591000996 sequence-specific DNA binding site [nucleotide binding]; other site 435591000997 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 435591000998 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 435591000999 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 435591001000 DctM-like transporters; Region: DctM; pfam06808 435591001001 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 435591001002 mannonate dehydratase; Provisional; Region: PRK03906 435591001003 mannonate dehydratase; Region: uxuA; TIGR00695 435591001004 D-mannonate oxidoreductase; Provisional; Region: PRK08277 435591001005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591001006 NAD(P) binding site [chemical binding]; other site 435591001007 active site 435591001008 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435591001009 DNA binding site [nucleotide binding] 435591001010 domain linker motif; other site 435591001011 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 435591001012 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 435591001013 ligand binding site [chemical binding]; other site 435591001014 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 435591001015 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591001016 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591001017 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591001018 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 435591001019 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591001020 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 435591001021 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK12461 435591001022 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 biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 435591001023 active site 435591001024 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 435591001025 malate dehydrogenase; Reviewed; Region: PRK06223 435591001026 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 435591001027 dimer interface [polypeptide binding]; other site 435591001028 NAD(P) binding site [chemical binding]; other site 435591001029 tetramer (dimer of dimers) interface [polypeptide binding]; other site 435591001030 substrate binding site [chemical binding]; other site 435591001031 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591001032 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591001033 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591001034 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591001035 SusD family; Region: SusD; pfam07980 435591001036 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 435591001037 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 435591001038 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 435591001039 putative RNA binding site [nucleotide binding]; other site 435591001040 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 435591001041 S-adenosylmethionine binding site [chemical binding]; other site 435591001042 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 435591001043 catalytic site [active] 435591001044 putative active site [active] 435591001045 putative substrate binding site [chemical binding]; other site 435591001046 4Fe-4S binding domain; Region: Fer4_5; pfam12801 435591001047 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 435591001048 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 435591001049 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 435591001050 photosystem I iron-sulfur protein PsaC; Region: PS_I_psaC; TIGR03048 435591001051 4Fe-4S binding domain; Region: Fer4; pfam00037 435591001052 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 435591001053 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 435591001054 active site 435591001055 catalytic tetrad [active] 435591001056 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 435591001057 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 435591001058 active site 435591001059 catalytic tetrad [active] 435591001060 4Fe-4S binding domain; Region: Fer4_5; pfam12801 435591001061 4Fe-4S binding domain; Region: Fer4_5; pfam12801 435591001062 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 435591001063 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 435591001064 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 435591001065 photosystem I iron-sulfur protein PsaC; Region: PS_I_psaC; TIGR03048 435591001066 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 435591001067 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 435591001068 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 435591001069 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 435591001070 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 435591001071 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 435591001072 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 435591001073 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435591001074 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435591001075 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 435591001076 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 435591001077 active site 435591001078 catalytic site [active] 435591001079 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 435591001080 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591001081 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 435591001082 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 (16,20)...; Region: OM_channels; cl17244 435591001083 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 435591001084 metal-binding site [ion binding] 435591001085 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591001086 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591001087 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591001088 DNA binding residues [nucleotide binding] 435591001089 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591001090 NigD-like protein; Region: NigD; pfam12667 435591001091 NigD-like protein; Region: NigD; pfam12667 435591001092 Yip1 domain; Region: Yip1; cl17815 435591001093 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 435591001094 SmpB-tmRNA interface; other site 435591001095 Nucleoside recognition; Region: Gate; pfam07670 435591001096 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 435591001097 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 435591001098 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 435591001099 substrate binding pocket [chemical binding]; other site 435591001100 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 435591001101 B12 binding site [chemical binding]; other site 435591001102 cobalt ligand [ion binding]; other site 435591001103 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 435591001104 Uncharacterized conserved protein [Function unknown]; Region: COG5476 435591001105 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 435591001106 MlrC C-terminus; Region: MlrC_C; pfam07171 435591001107 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591001108 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591001109 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591001110 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591001111 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591001112 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591001113 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 435591001114 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 435591001115 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 435591001116 active site 435591001117 DNA binding site [nucleotide binding] 435591001118 Int/Topo IB signature motif; other site 435591001119 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 435591001120 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 435591001121 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 435591001122 NAD(P) binding site [chemical binding]; other site 435591001123 homodimer interface [polypeptide binding]; other site 435591001124 substrate binding site [chemical binding]; other site 435591001125 active site 435591001126 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; cl17915 435591001127 motif I; other site 435591001128 active site 435591001129 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 435591001130 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435591001131 tyrosine kinase; Provisional; Region: PRK11519 435591001132 Chain length determinant protein; Region: Wzz; pfam02706 435591001133 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 435591001134 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435591001135 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 435591001136 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 435591001137 inhibitor-cofactor binding pocket; inhibition site 435591001138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591001139 catalytic residue [active] 435591001140 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435591001141 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435591001142 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435591001143 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 435591001144 D-cysteine desulfhydrase; Validated; Region: PRK03910 435591001145 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435591001146 catalytic residue [active] 435591001147 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 435591001148 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 435591001149 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 435591001150 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435591001151 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 435591001152 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 435591001153 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 435591001154 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 435591001155 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 435591001156 putative active site [active] 435591001157 putative metal binding site [ion binding]; other site 435591001158 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 435591001159 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 435591001160 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 435591001161 putative active site [active] 435591001162 putative metal binding site [ion binding]; other site 435591001163 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 435591001164 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591001165 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591001166 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 435591001167 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591001168 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 435591001169 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 435591001170 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435591001171 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591001172 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435591001173 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591001174 Peptidase M15; Region: Peptidase_M15_3; cl01194 435591001175 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 435591001176 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 435591001177 Melibiase; Region: Melibiase; pfam02065 435591001178 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 435591001179 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591001180 active site 435591001181 HIGH motif; other site 435591001182 nucleotide binding site [chemical binding]; other site 435591001183 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591001184 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591001185 active site 435591001186 KMSKS motif; other site 435591001187 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 435591001188 tRNA binding surface [nucleotide binding]; other site 435591001189 anticodon binding site; other site 435591001190 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 435591001191 lipoprotein signal peptidase; Provisional; Region: PRK14788 435591001192 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 435591001193 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 435591001194 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 435591001195 Surface antigen; Region: Bac_surface_Ag; pfam01103 435591001196 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 435591001197 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591001198 catalytic residues [active] 435591001199 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 435591001200 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 435591001201 RmuC family; Region: RmuC; pfam02646 435591001202 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 435591001203 dimer interface [polypeptide binding]; other site 435591001204 catalytic triad [active] 435591001205 peroxidatic and resolving cysteines [active] 435591001206 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 435591001207 H+ Antiporter protein; Region: 2A0121; TIGR00900 435591001208 putative substrate translocation pore; other site 435591001209 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 435591001210 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 435591001211 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 435591001212 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 435591001213 active site 435591001214 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 435591001215 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 435591001216 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 435591001217 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 435591001218 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 435591001219 Ligand binding site [chemical binding]; other site 435591001220 Electron transfer flavoprotein domain; Region: ETF; pfam01012 435591001221 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591001222 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 435591001223 putative substrate translocation pore; other site 435591001224 glycine dehydrogenase; Provisional; Region: PRK05367 435591001225 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 435591001226 tetramer interface [polypeptide binding]; other site 435591001227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591001228 catalytic residue [active] 435591001229 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 435591001230 tetramer interface [polypeptide binding]; other site 435591001231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591001232 catalytic residue [active] 435591001233 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 435591001234 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 435591001235 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 435591001236 S-adenosylmethionine binding site [chemical binding]; other site 435591001237 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 435591001238 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 435591001239 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 435591001240 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591001241 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591001242 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591001243 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 435591001244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591001245 Coenzyme A binding pocket [chemical binding]; other site 435591001246 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 435591001247 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 435591001248 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 435591001249 hinge; other site 435591001250 active site 435591001251 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 435591001252 RimM N-terminal domain; Region: RimM; pfam01782 435591001253 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 435591001254 Peptidase family M23; Region: Peptidase_M23; pfam01551 435591001255 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 435591001256 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 435591001257 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 435591001258 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 435591001259 RIP metalloprotease RseP; Region: TIGR00054 435591001260 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 435591001261 active site 435591001262 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 435591001263 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 435591001264 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 435591001265 putative substrate binding region [chemical binding]; other site 435591001266 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 435591001267 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 435591001268 hexamer interface [polypeptide binding]; other site 435591001269 ligand binding site [chemical binding]; other site 435591001270 putative active site [active] 435591001271 NAD(P) binding site [chemical binding]; other site 435591001272 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 435591001273 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 435591001274 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 435591001275 nucleotide binding region [chemical binding]; other site 435591001276 ATP-binding site [chemical binding]; other site 435591001277 SEC-C motif; Region: SEC-C; pfam02810 435591001278 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 435591001279 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 435591001280 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 435591001281 nucleotide binding site [chemical binding]; other site 435591001282 N-acetyl-L-glutamate binding site [chemical binding]; other site 435591001283 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591001284 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591001285 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591001286 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591001287 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 (16,20)...; Region: OM_channels; cl17244 435591001288 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 435591001289 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591001290 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 435591001291 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 435591001292 Walker A/P-loop; other site 435591001293 ATP binding site [chemical binding]; other site 435591001294 Q-loop/lid; other site 435591001295 ABC transporter signature motif; other site 435591001296 Walker B; other site 435591001297 D-loop; other site 435591001298 H-loop/switch region; other site 435591001299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591001300 Walker A/P-loop; other site 435591001301 ATP binding site [chemical binding]; other site 435591001302 Q-loop/lid; other site 435591001303 ABC transporter signature motif; other site 435591001304 Walker B; other site 435591001305 D-loop; other site 435591001306 H-loop/switch region; other site 435591001307 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591001308 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591001309 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591001310 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591001311 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591001312 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591001313 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591001314 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591001315 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 (16,20)...; Region: OM_channels; cl17244 435591001316 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 435591001317 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591001318 Lipid-binding putative hydrolase; Region: Lipid_bd; pfam12888 435591001319 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 435591001320 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 435591001321 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 435591001322 active site 435591001323 DNA binding site [nucleotide binding] 435591001324 Int/Topo IB signature motif; other site 435591001325 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591001326 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591001327 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591001328 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591001329 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591001330 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591001331 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591001332 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591001333 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 (16,20)...; Region: OM_channels; cl17244 435591001334 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591001335 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591001336 recombination factor protein RarA; Reviewed; Region: PRK13342 435591001337 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591001338 Walker A motif; other site 435591001339 ATP binding site [chemical binding]; other site 435591001340 Walker B motif; other site 435591001341 arginine finger; other site 435591001342 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 435591001343 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 435591001344 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435591001345 catalytic residue [active] 435591001346 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 435591001347 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 435591001348 putative ligand binding site [chemical binding]; other site 435591001349 putative NAD binding site [chemical binding]; other site 435591001350 Uncharacterized conserved protein [Function unknown]; Region: COG4198 435591001351 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 435591001352 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 435591001353 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 435591001354 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591001355 dimer interface [polypeptide binding]; other site 435591001356 phosphorylation site [posttranslational modification] 435591001357 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 435591001358 ATP binding site [chemical binding]; other site 435591001359 Mg2+ binding site [ion binding]; other site 435591001360 G-X-G motif; other site 435591001361 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 435591001362 active site 435591001363 phosphorylation site [posttranslational modification] 435591001364 intermolecular recognition site; other site 435591001365 dimerization interface [polypeptide binding]; other site 435591001366 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 435591001367 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 435591001368 active site 435591001369 phosphorylation site [posttranslational modification] 435591001370 intermolecular recognition site; other site 435591001371 dimerization interface [polypeptide binding]; other site 435591001372 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 435591001373 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 435591001374 NAD binding site [chemical binding]; other site 435591001375 homodimer interface [polypeptide binding]; other site 435591001376 active site 435591001377 substrate binding site [chemical binding]; other site 435591001378 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 435591001379 electron transport complex RsxE subunit; Provisional; Region: PRK12405 435591001380 FMN-binding domain; Region: FMN_bind; cl01081 435591001381 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 435591001382 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 435591001383 SLBB domain; Region: SLBB; pfam10531 435591001384 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 435591001385 ferredoxin; Validated; Region: PRK07118 435591001386 4Fe-4S binding domain; Region: Fer4; pfam00037 435591001387 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 435591001388 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 435591001389 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 435591001390 CTP synthetase; Validated; Region: pyrG; PRK05380 435591001391 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 435591001392 Catalytic site [active] 435591001393 active site 435591001394 UTP binding site [chemical binding]; other site 435591001395 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 435591001396 active site 435591001397 putative oxyanion hole; other site 435591001398 catalytic triad [active] 435591001399 membrane protein insertase; Provisional; Region: PRK01318 435591001400 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 435591001401 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 435591001402 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 435591001403 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 435591001404 Ligand binding site; other site 435591001405 oligomer interface; other site 435591001406 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 435591001407 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 435591001408 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 435591001409 TrkA-C domain; Region: TrkA_C; pfam02080 435591001410 TrkA-C domain; Region: TrkA_C; pfam02080 435591001411 Divergent AAA domain; Region: AAA_4; pfam04326 435591001412 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 435591001413 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 435591001414 dimer interface [polypeptide binding]; other site 435591001415 active site residues [active] 435591001416 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 435591001417 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591001418 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591001419 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591001420 DNA binding residues [nucleotide binding] 435591001421 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 435591001422 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 435591001423 acyl-activating enzyme (AAE) consensus motif; other site 435591001424 putative AMP binding site [chemical binding]; other site 435591001425 putative active site [active] 435591001426 putative CoA binding site [chemical binding]; other site 435591001427 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 435591001428 Transglycosylase; Region: Transgly; cl17702 435591001429 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 435591001430 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 435591001431 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 435591001432 FMN binding site [chemical binding]; other site 435591001433 active site 435591001434 catalytic residues [active] 435591001435 substrate binding site [chemical binding]; other site 435591001436 Family of unknown function (DUF490); Region: DUF490; pfam04357 435591001437 UGMP family protein; Validated; Region: PRK09604 435591001438 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 435591001439 Competence-damaged protein; Region: CinA; pfam02464 435591001440 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_6; cd01844 435591001441 active site 435591001442 catalytic triad [active] 435591001443 oxyanion hole [active] 435591001444 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 435591001445 active site 435591001446 catalytic triad [active] 435591001447 oxyanion hole [active] 435591001448 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 435591001449 Histidine kinase; Region: His_kinase; pfam06580 435591001450 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591001451 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 435591001452 active site 435591001453 phosphorylation site [posttranslational modification] 435591001454 intermolecular recognition site; other site 435591001455 dimerization interface [polypeptide binding]; other site 435591001456 LytTr DNA-binding domain; Region: LytTR; smart00850 435591001457 NlpC/P60 family; Region: NLPC_P60; pfam00877 435591001458 seryl-tRNA synthetase; Provisional; Region: PRK05431 435591001459 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 435591001460 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 435591001461 dimer interface [polypeptide binding]; other site 435591001462 active site 435591001463 motif 1; other site 435591001464 motif 2; other site 435591001465 motif 3; other site 435591001466 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 435591001467 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 435591001468 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435591001469 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435591001470 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 435591001471 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 435591001472 active site residue [active] 435591001473 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 435591001474 CPxP motif; other site 435591001475 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 435591001476 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 435591001477 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 435591001478 Dihydroorotate dehydrogenase (DHOD) like proteins. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD...; Region: DHOD_like; cd04739 435591001479 putative active site [active] 435591001480 putative FMN binding site [chemical binding]; other site 435591001481 putative substrate binding site [chemical binding]; other site 435591001482 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 435591001483 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435591001484 catalytic residue [active] 435591001485 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 435591001486 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 435591001487 active site 435591001488 DNA binding site [nucleotide binding] 435591001489 Int/Topo IB signature motif; other site 435591001490 Transcription antiterminator [Transcription]; Region: NusG; COG0250 435591001491 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435591001492 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 435591001493 homodimer interface [polypeptide binding]; other site 435591001494 aspartate aminotransferase; Provisional; Region: PRK06290 435591001495 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435591001496 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 435591001497 amidase catalytic site [active] 435591001498 Zn binding residues [ion binding]; other site 435591001499 substrate binding site [chemical binding]; other site 435591001500 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591001501 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 435591001502 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 435591001503 VirE N-terminal domain; Region: VirE_N; pfam08800 435591001504 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 435591001505 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591001506 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 435591001507 ATP-grasp domain; Region: ATP-grasp_4; cl17255 435591001508 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 435591001509 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 435591001510 putative active site [active] 435591001511 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 435591001512 putative active site [active] 435591001513 putative metal binding site [ion binding]; other site 435591001514 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 435591001515 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 435591001516 classical (c) SDRs; Region: SDR_c; cd05233 435591001517 NAD(P) binding site [chemical binding]; other site 435591001518 active site 435591001519 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 435591001520 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 435591001521 dimer interface [polypeptide binding]; other site 435591001522 active site 435591001523 CoA binding pocket [chemical binding]; other site 435591001524 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 435591001525 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 435591001526 AMP binding site [chemical binding]; other site 435591001527 active site 435591001528 acyl-activating enzyme (AAE) consensus motif; other site 435591001529 CoA binding site [chemical binding]; other site 435591001530 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 435591001531 classical (c) SDRs; Region: SDR_c; cd05233 435591001532 NAD(P) binding site [chemical binding]; other site 435591001533 active site 435591001534 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591001535 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 435591001536 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 435591001537 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 435591001538 NAD(P) binding site [chemical binding]; other site 435591001539 homodimer interface [polypeptide binding]; other site 435591001540 substrate binding site [chemical binding]; other site 435591001541 active site 435591001542 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 435591001543 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435591001544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591001545 NAD(P) binding site [chemical binding]; other site 435591001546 active site 435591001547 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 435591001548 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 435591001549 active site 435591001550 homodimer interface [polypeptide binding]; other site 435591001551 putative glycosyl transferase; Provisional; Region: PRK10307 435591001552 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 435591001553 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 435591001554 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 435591001555 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 435591001556 active site 435591001557 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 435591001558 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 435591001559 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 435591001560 catalytic site [active] 435591001561 subunit interface [polypeptide binding]; other site 435591001562 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 435591001563 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435591001564 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 435591001565 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 435591001566 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435591001567 ATP-grasp domain; Region: ATP-grasp_4; cl17255 435591001568 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 435591001569 probable substrate binding site [chemical binding]; other site 435591001570 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591001571 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 435591001572 ligand binding site [chemical binding]; other site 435591001573 flexible hinge region; other site 435591001574 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 435591001575 Cysteine-rich domain; Region: CCG; pfam02754 435591001576 Cysteine-rich domain; Region: CCG; pfam02754 435591001577 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 435591001578 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 435591001579 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 435591001580 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 435591001581 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 435591001582 dimer interface [polypeptide binding]; other site 435591001583 active site 435591001584 metal binding site [ion binding]; metal-binding site 435591001585 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 435591001586 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 435591001587 substrate binding site [chemical binding]; other site 435591001588 active site 435591001589 catalytic residues [active] 435591001590 heterodimer interface [polypeptide binding]; other site 435591001591 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 435591001592 active site 435591001593 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 435591001594 active site 435591001595 ribulose/triose binding site [chemical binding]; other site 435591001596 phosphate binding site [ion binding]; other site 435591001597 substrate (anthranilate) binding pocket [chemical binding]; other site 435591001598 product (indole) binding pocket [chemical binding]; other site 435591001599 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 435591001600 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 435591001601 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 435591001602 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 435591001603 Glutamine amidotransferase class-I; Region: GATase; pfam00117 435591001604 glutamine binding [chemical binding]; other site 435591001605 catalytic triad [active] 435591001606 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 435591001607 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 435591001608 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 435591001609 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 435591001610 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 435591001611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591001612 catalytic residue [active] 435591001613 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 435591001614 Aspartase; Region: Aspartase; cd01357 435591001615 active sites [active] 435591001616 tetramer interface [polypeptide binding]; other site 435591001617 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435591001618 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591001619 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591001620 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591001621 DNA binding residues [nucleotide binding] 435591001622 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 435591001623 catalytic core [active] 435591001624 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 435591001625 Protein of unknown function, DUF488; Region: DUF488; cl01246 435591001626 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591001627 FecR protein; Region: FecR; pfam04773 435591001628 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591001629 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591001630 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591001631 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 (16,20)...; Region: OM_channels; cl17244 435591001632 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 435591001633 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591001634 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591001635 Homo sapiens CSTP1 and related proteins, metallophosphatase domain; Region: MPP_CSTP1; cd07395 435591001636 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591001637 putative active site [active] 435591001638 putative metal binding site [ion binding]; other site 435591001639 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591001640 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591001641 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591001642 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591001643 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 (16,20)...; Region: OM_channels; cl17244 435591001644 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 435591001645 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591001646 hypothetical protein; Region: PHA01748 435591001647 nickel responsive regulator; Provisional; Region: PRK04460 435591001648 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 435591001649 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 435591001650 N-terminal plug; other site 435591001651 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 435591001652 ligand-binding site [chemical binding]; other site 435591001653 Response regulator receiver domain; Region: Response_reg; pfam00072 435591001654 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 435591001655 active site 435591001656 phosphorylation site [posttranslational modification] 435591001657 intermolecular recognition site; other site 435591001658 dimerization interface [polypeptide binding]; other site 435591001659 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 435591001660 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 435591001661 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 435591001662 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 435591001663 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 435591001664 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591001665 Peptidase C10 family; Region: Peptidase_C10; pfam01640 435591001666 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 435591001667 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 435591001668 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 435591001669 acyl-activating enzyme (AAE) consensus motif; other site 435591001670 acyl-activating enzyme (AAE) consensus motif; other site 435591001671 putative AMP binding site [chemical binding]; other site 435591001672 putative active site [active] 435591001673 putative CoA binding site [chemical binding]; other site 435591001674 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 435591001675 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 435591001676 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 435591001677 ATP binding site [chemical binding]; other site 435591001678 putative Mg++ binding site [ion binding]; other site 435591001679 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 435591001680 nucleotide binding region [chemical binding]; other site 435591001681 ATP-binding site [chemical binding]; other site 435591001682 TRCF domain; Region: TRCF; pfam03461 435591001683 short chain dehydrogenase; Provisional; Region: PRK06940 435591001684 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 435591001685 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 435591001686 dimerization interface [polypeptide binding]; other site 435591001687 DPS ferroxidase diiron center [ion binding]; other site 435591001688 ion pore; other site 435591001689 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591001690 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 435591001691 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 435591001692 dimerization interface [polypeptide binding]; other site 435591001693 DPS ferroxidase diiron center [ion binding]; other site 435591001694 ion pore; other site 435591001695 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591001696 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591001697 dimer interface [polypeptide binding]; other site 435591001698 phosphorylation site [posttranslational modification] 435591001699 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 435591001700 ATP binding site [chemical binding]; other site 435591001701 Mg2+ binding site [ion binding]; other site 435591001702 G-X-G motif; other site 435591001703 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 435591001704 active site 435591001705 phosphorylation site [posttranslational modification] 435591001706 intermolecular recognition site; other site 435591001707 dimerization interface [polypeptide binding]; other site 435591001708 Response regulator receiver domain; Region: Response_reg; pfam00072 435591001709 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 435591001710 active site 435591001711 phosphorylation site [posttranslational modification] 435591001712 intermolecular recognition site; other site 435591001713 dimerization interface [polypeptide binding]; other site 435591001714 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 435591001715 Transcriptional regulator [Transcription]; Region: IclR; COG1414 435591001716 Bacterial transcriptional regulator; Region: IclR; pfam01614 435591001717 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 435591001718 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 435591001719 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 435591001720 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; cl10015 435591001721 homotrimer interaction site [polypeptide binding]; other site 435591001722 putative active site [active] 435591001723 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 435591001724 homotrimer interaction site [polypeptide binding]; other site 435591001725 putative active site [active] 435591001726 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 435591001727 NPCBM/NEW2 domain; Region: NPCBM; cl07060 435591001728 NPCBM/NEW2 domain; Region: NPCBM; cl07060 435591001729 Uncharacterized conserved protein [Function unknown]; Region: COG1262 435591001730 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 435591001731 ResB-like family; Region: ResB; pfam05140 435591001732 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 435591001733 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 435591001734 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 435591001735 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 435591001736 DAK2 domain; Region: Dak2; pfam02734 435591001737 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 435591001738 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 435591001739 putative active site; other site 435591001740 catalytic residue [active] 435591001741 FOG: WD40 repeat [General function prediction only]; Region: COG2319 435591001742 muropeptide transporter; Reviewed; Region: ampG; PRK11902 435591001743 muropeptide transporter; Validated; Region: ampG; cl17669 435591001744 Domain of unknown function (DUF377); Region: DUF377; pfam04041 435591001745 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 435591001746 active site 435591001747 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 435591001748 Sulfatase; Region: Sulfatase; pfam00884 435591001749 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591001750 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591001751 dimer interface [polypeptide binding]; other site 435591001752 phosphorylation site [posttranslational modification] 435591001753 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 435591001754 ATP binding site [chemical binding]; other site 435591001755 Mg2+ binding site [ion binding]; other site 435591001756 G-X-G motif; other site 435591001757 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 435591001758 Response regulator receiver domain; Region: Response_reg; pfam00072 435591001759 active site 435591001760 phosphorylation site [posttranslational modification] 435591001761 intermolecular recognition site; other site 435591001762 dimerization interface [polypeptide binding]; other site 435591001763 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 435591001764 Predicted membrane protein [Function unknown]; Region: COG2311 435591001765 Protein of unknown function (DUF418); Region: DUF418; cl12135 435591001766 Protein of unknown function (DUF418); Region: DUF418; pfam04235 435591001767 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 435591001768 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 435591001769 active site 435591001770 phosphorylation site [posttranslational modification] 435591001771 intermolecular recognition site; other site 435591001772 dimerization interface [polypeptide binding]; other site 435591001773 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591001774 Walker A motif; other site 435591001775 ATP binding site [chemical binding]; other site 435591001776 Walker B motif; other site 435591001777 arginine finger; other site 435591001778 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435591001779 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591001780 Coenzyme A binding pocket [chemical binding]; other site 435591001781 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 435591001782 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 435591001783 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 435591001784 TrkA-C domain; Region: TrkA_C; pfam02080 435591001785 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 435591001786 TrkA-C domain; Region: TrkA_C; pfam02080 435591001787 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 435591001788 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 435591001789 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435591001790 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 435591001791 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 435591001792 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 435591001793 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 435591001794 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 435591001795 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 435591001796 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 435591001797 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 435591001798 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 435591001799 putative active site [active] 435591001800 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 435591001801 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 435591001802 substrate binding site; other site 435591001803 tetramer interface; other site 435591001804 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 435591001805 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 435591001806 NADP binding site [chemical binding]; other site 435591001807 active site 435591001808 putative substrate binding site [chemical binding]; other site 435591001809 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 435591001810 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 435591001811 NADP-binding site; other site 435591001812 homotetramer interface [polypeptide binding]; other site 435591001813 substrate binding site [chemical binding]; other site 435591001814 homodimer interface [polypeptide binding]; other site 435591001815 active site 435591001816 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435591001817 ligand binding site [chemical binding]; other site 435591001818 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 435591001819 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 435591001820 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 435591001821 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435591001822 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 435591001823 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 435591001824 active site 435591001825 catalytic residues [active] 435591001826 metal binding site [ion binding]; metal-binding site 435591001827 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 435591001828 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 435591001829 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 435591001830 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 435591001831 carboxyltransferase (CT) interaction site; other site 435591001832 biotinylation site [posttranslational modification]; other site 435591001833 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 435591001834 binding surface 435591001835 TPR motif; other site 435591001836 TPR repeat; Region: TPR_11; pfam13414 435591001837 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591001838 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 435591001839 binding surface 435591001840 TPR motif; other site 435591001841 TPR repeat; Region: TPR_11; pfam13414 435591001842 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 435591001843 binding surface 435591001844 TPR motif; other site 435591001845 TPR repeat; Region: TPR_11; pfam13414 435591001846 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 435591001847 binding surface 435591001848 TPR motif; other site 435591001849 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 435591001850 TPR motif; other site 435591001851 Tetratricopeptide repeat; Region: TPR_16; pfam13432 435591001852 binding surface 435591001853 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 435591001854 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 435591001855 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 435591001856 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 435591001857 active site 435591001858 dimer interface [polypeptide binding]; other site 435591001859 motif 1; other site 435591001860 motif 2; other site 435591001861 motif 3; other site 435591001862 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 435591001863 anticodon binding site; other site 435591001864 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 435591001865 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 435591001866 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 435591001867 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 435591001868 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 435591001869 23S rRNA binding site [nucleotide binding]; other site 435591001870 L21 binding site [polypeptide binding]; other site 435591001871 L13 binding site [polypeptide binding]; other site 435591001872 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 435591001873 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 435591001874 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 435591001875 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 435591001876 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 435591001877 active site 435591001878 Fn3 associated; Region: Fn3_assoc; pfam13287 435591001879 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 435591001880 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591001881 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591001882 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 435591001883 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 435591001884 Cl binding site [ion binding]; other site 435591001885 oligomer interface [polypeptide binding]; other site 435591001886 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 435591001887 active pocket/dimerization site; other site 435591001888 phosphorylation site [posttranslational modification] 435591001889 replicative DNA helicase; Region: DnaB; TIGR00665 435591001890 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 435591001891 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 435591001892 Walker A motif; other site 435591001893 ATP binding site [chemical binding]; other site 435591001894 Walker B motif; other site 435591001895 DNA binding loops [nucleotide binding] 435591001896 Phosphoglycerate kinase; Region: PGK; pfam00162 435591001897 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 435591001898 substrate binding site [chemical binding]; other site 435591001899 hinge regions; other site 435591001900 ADP binding site [chemical binding]; other site 435591001901 catalytic site [active] 435591001902 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 435591001903 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 435591001904 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 435591001905 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591001906 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591001907 dimer interface [polypeptide binding]; other site 435591001908 phosphorylation site [posttranslational modification] 435591001909 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 435591001910 ATP binding site [chemical binding]; other site 435591001911 Mg2+ binding site [ion binding]; other site 435591001912 G-X-G motif; other site 435591001913 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 435591001914 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 435591001915 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 435591001916 active site 435591001917 nucleophile elbow; other site 435591001918 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 435591001919 catalytic residues [active] 435591001920 heat shock protein 90; Provisional; Region: PRK05218 435591001921 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 435591001922 ATP binding site [chemical binding]; other site 435591001923 Mg2+ binding site [ion binding]; other site 435591001924 G-X-G motif; other site 435591001925 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 435591001926 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 435591001927 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591001928 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591001929 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 435591001930 Transcriptional regulators [Transcription]; Region: MarR; COG1846 435591001931 MarR family; Region: MarR_2; pfam12802 435591001932 flavodoxin FldA; Validated; Region: PRK09267 435591001933 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 435591001934 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 435591001935 tetramer interface [polypeptide binding]; other site 435591001936 TPP-binding site [chemical binding]; other site 435591001937 heterodimer interface [polypeptide binding]; other site 435591001938 phosphorylation loop region [posttranslational modification] 435591001939 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 435591001940 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 435591001941 PYR/PP interface [polypeptide binding]; other site 435591001942 dimer interface [polypeptide binding]; other site 435591001943 TPP binding site [chemical binding]; other site 435591001944 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 435591001945 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 435591001946 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 435591001947 E3 interaction surface; other site 435591001948 lipoyl attachment site [posttranslational modification]; other site 435591001949 e3 binding domain; Region: E3_binding; pfam02817 435591001950 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 435591001951 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 435591001952 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 435591001953 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 435591001954 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435591001955 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 435591001956 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 435591001957 dimer interface [polypeptide binding]; other site 435591001958 FMN binding site [chemical binding]; other site 435591001959 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 435591001960 ribosomal protein L33; Region: rpl33; CHL00104 435591001961 DNA polymerase III subunit beta; Validated; Region: PRK05643 435591001962 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 435591001963 putative DNA binding surface [nucleotide binding]; other site 435591001964 dimer interface [polypeptide binding]; other site 435591001965 beta-clamp/translesion DNA polymerase binding surface; other site 435591001966 beta-clamp/clamp loader binding surface; other site 435591001967 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 435591001968 active site 435591001969 catalytic site [active] 435591001970 substrate binding site [chemical binding]; other site 435591001971 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 435591001972 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 435591001973 dimer interface [polypeptide binding]; other site 435591001974 active site 435591001975 metal binding site [ion binding]; metal-binding site 435591001976 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 435591001977 Flavoprotein; Region: Flavoprotein; pfam02441 435591001978 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 435591001979 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 435591001980 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 435591001981 Walker A/P-loop; other site 435591001982 ATP binding site [chemical binding]; other site 435591001983 Q-loop/lid; other site 435591001984 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 435591001985 ABC transporter signature motif; other site 435591001986 Walker B; other site 435591001987 D-loop; other site 435591001988 H-loop/switch region; other site 435591001989 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 435591001990 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 435591001991 active site 435591001992 phosphorylation site [posttranslational modification] 435591001993 intermolecular recognition site; other site 435591001994 dimerization interface [polypeptide binding]; other site 435591001995 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 435591001996 Histidine kinase; Region: His_kinase; pfam06580 435591001997 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 435591001998 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591001999 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591002000 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591002001 thymidine kinase; Provisional; Region: PRK04296 435591002002 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 435591002003 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 435591002004 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 435591002005 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 435591002006 homotrimer interaction site [polypeptide binding]; other site 435591002007 putative active site [active] 435591002008 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 435591002009 hypothetical protein; Provisional; Region: PRK00955 435591002010 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 435591002011 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 435591002012 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 435591002013 NAD(P) binding site [chemical binding]; other site 435591002014 LDH/MDH dimer interface [polypeptide binding]; other site 435591002015 substrate binding site [chemical binding]; other site 435591002016 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 435591002017 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 435591002018 Uncharacterized conserved protein [Function unknown]; Region: COG1359 435591002019 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 435591002020 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591002021 Methyltransferase domain; Region: Methyltransf_31; pfam13847 435591002022 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 435591002023 S-adenosylmethionine binding site [chemical binding]; other site 435591002024 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 435591002025 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 435591002026 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 435591002027 Integrase core domain; Region: rve; pfam00665 435591002028 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591002029 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 435591002030 Walker A motif; other site 435591002031 ATP binding site [chemical binding]; other site 435591002032 Walker B motif; other site 435591002033 Uncharacterized protein conserved in Bacteroidetes; Region: DUF4425; cd11379 435591002034 dimer interface [polypeptide binding]; other site 435591002035 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591002036 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 435591002037 ligand binding site [chemical binding]; other site 435591002038 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 435591002039 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 435591002040 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 435591002041 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 435591002042 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 435591002043 P-loop; other site 435591002044 Magnesium ion binding site [ion binding]; other site 435591002045 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 435591002046 Magnesium ion binding site [ion binding]; other site 435591002047 Abi-like protein; Region: Abi_2; pfam07751 435591002048 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 435591002049 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 435591002050 catalytic residues [active] 435591002051 catalytic nucleophile [active] 435591002052 Presynaptic Site I dimer interface [polypeptide binding]; other site 435591002053 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 435591002054 Synaptic Flat tetramer interface [polypeptide binding]; other site 435591002055 Synaptic Site I dimer interface [polypeptide binding]; other site 435591002056 DNA binding site [nucleotide binding] 435591002057 Fic/DOC family; Region: Fic; pfam02661 435591002058 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 435591002059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 435591002060 Integrase core domain; Region: rve; pfam00665 435591002061 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591002062 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 435591002063 Walker A motif; other site 435591002064 ATP binding site [chemical binding]; other site 435591002065 Walker B motif; other site 435591002066 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 435591002067 Int/Topo IB signature motif; other site 435591002068 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 435591002069 Int/Topo IB signature motif; other site 435591002070 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 435591002071 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591002072 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591002073 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 435591002074 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 435591002075 active site 435591002076 DNA binding site [nucleotide binding] 435591002077 Int/Topo IB signature motif; other site 435591002078 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 435591002079 ATP binding site [chemical binding]; other site 435591002080 chromosome segregation protein; Provisional; Region: PRK03918 435591002081 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 435591002082 ligand binding site [chemical binding]; other site 435591002083 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 435591002084 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435591002085 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 435591002086 active site 435591002087 Int/Topo IB signature motif; other site 435591002088 DNA binding site [nucleotide binding] 435591002089 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 435591002090 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591002091 putative substrate translocation pore; other site 435591002092 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 435591002093 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435591002094 TSCPD domain; Region: TSCPD; cl14834 435591002095 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435591002096 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 435591002097 active site 435591002098 phosphorylation site [posttranslational modification] 435591002099 intermolecular recognition site; other site 435591002100 dimerization interface [polypeptide binding]; other site 435591002101 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 435591002102 DNA binding site [nucleotide binding] 435591002103 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591002104 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591002105 dimer interface [polypeptide binding]; other site 435591002106 phosphorylation site [posttranslational modification] 435591002107 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 435591002108 ATP binding site [chemical binding]; other site 435591002109 Mg2+ binding site [ion binding]; other site 435591002110 G-X-G motif; other site 435591002111 PAS domain; Region: PAS_9; pfam13426 435591002112 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591002113 dimer interface [polypeptide binding]; other site 435591002114 phosphorylation site [posttranslational modification] 435591002115 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 435591002116 ATP binding site [chemical binding]; other site 435591002117 Mg2+ binding site [ion binding]; other site 435591002118 G-X-G motif; other site 435591002119 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 435591002120 active site 435591002121 phosphorylation site [posttranslational modification] 435591002122 intermolecular recognition site; other site 435591002123 dimerization interface [polypeptide binding]; other site 435591002124 Response regulator receiver domain; Region: Response_reg; pfam00072 435591002125 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 435591002126 active site 435591002127 phosphorylation site [posttranslational modification] 435591002128 intermolecular recognition site; other site 435591002129 dimerization interface [polypeptide binding]; other site 435591002130 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591002131 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591002132 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 435591002133 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 435591002134 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591002135 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 (16,20)...; Region: OM_channels; cl17244 435591002136 MarC family integral membrane protein; Region: MarC; cl00919 435591002137 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 435591002138 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 435591002139 putative active site [active] 435591002140 PhoH-like protein; Region: PhoH; pfam02562 435591002141 Uncharacterized conserved protein [Function unknown]; Region: COG1359 435591002142 Predicted permeases [General function prediction only]; Region: COG0795 435591002143 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 435591002144 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 435591002145 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 435591002146 4Fe-4S binding domain; Region: Fer4_5; pfam12801 435591002147 4Fe-4S binding domain; Region: Fer4_5; pfam12801 435591002148 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 435591002149 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 435591002150 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 435591002151 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 435591002152 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 435591002153 Uncharacterized conserved protein [Function unknown]; Region: COG2006 435591002154 Domain of unknown function (DUF362); Region: DUF362; pfam04015 435591002155 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 435591002156 active site 435591002157 catalytic residues [active] 435591002158 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 435591002159 TrkA-N domain; Region: TrkA_N; pfam02254 435591002160 TrkA-C domain; Region: TrkA_C; pfam02080 435591002161 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 435591002162 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 435591002163 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 435591002164 nudix motif; other site 435591002165 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 435591002166 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 435591002167 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 435591002168 nucleotide binding site [chemical binding]; other site 435591002169 xylose isomerase; Provisional; Region: PRK05474 435591002170 xylose isomerase; Region: xylose_isom_A; TIGR02630 435591002171 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 435591002172 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 435591002173 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 435591002174 putative substrate translocation pore; other site 435591002175 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591002176 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 435591002177 FtsX-like permease family; Region: FtsX; pfam02687 435591002178 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591002179 FtsX-like permease family; Region: FtsX; pfam02687 435591002180 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 435591002181 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 435591002182 dimer interface [polypeptide binding]; other site 435591002183 active site 435591002184 glycine loop; other site 435591002185 [benzylsuccinate synthase]-activating enzyme; Region: rSAM_BssD; TIGR04003 435591002186 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 435591002187 4Fe-4S binding domain; Region: Fer4; pfam00037 435591002188 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591002189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591002190 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591002191 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591002192 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591002193 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591002194 Protein export membrane protein; Region: SecD_SecF; cl14618 435591002195 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 435591002196 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 435591002197 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...; Region: CysQ; cd01638 435591002198 active site 435591002199 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; cl17221 435591002200 transmembrane helices; other site 435591002201 TrkA-C domain; Region: TrkA_C; pfam02080 435591002202 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 435591002203 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 435591002204 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 435591002205 ligand-binding site [chemical binding]; other site 435591002206 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 435591002207 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 435591002208 Active Sites [active] 435591002209 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 435591002210 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 435591002211 CysD dimerization site [polypeptide binding]; other site 435591002212 G1 box; other site 435591002213 putative GEF interaction site [polypeptide binding]; other site 435591002214 GTP/Mg2+ binding site [chemical binding]; other site 435591002215 Switch I region; other site 435591002216 G2 box; other site 435591002217 G3 box; other site 435591002218 Switch II region; other site 435591002219 G4 box; other site 435591002220 G5 box; other site 435591002221 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 CysN...; Region: CysN_NodQ_II; cd03695 435591002222 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 CysN...; Region: CysN_NoDQ_III; cd04095 435591002223 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 435591002224 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 435591002225 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 435591002226 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 435591002227 nucleotide binding pocket [chemical binding]; other site 435591002228 K-X-D-G motif; other site 435591002229 catalytic site [active] 435591002230 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 435591002231 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 435591002232 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 435591002233 Dimer interface [polypeptide binding]; other site 435591002234 BRCT sequence motif; other site 435591002235 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 435591002236 dihydrodipicolinate synthase; Region: dapA; TIGR00674 435591002237 dimer interface [polypeptide binding]; other site 435591002238 active site 435591002239 catalytic residue [active] 435591002240 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 435591002241 Outer membrane efflux protein; Region: OEP; pfam02321 435591002242 Outer membrane efflux protein; Region: OEP; pfam02321 435591002243 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591002244 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591002245 Histidine kinase; Region: His_kinase; pfam06580 435591002246 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591002247 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 435591002248 active site 435591002249 phosphorylation site [posttranslational modification] 435591002250 intermolecular recognition site; other site 435591002251 dimerization interface [polypeptide binding]; other site 435591002252 LytTr DNA-binding domain; Region: LytTR; smart00850 435591002253 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591002254 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 435591002255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591002256 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591002257 dimer interface [polypeptide binding]; other site 435591002258 phosphorylation site [posttranslational modification] 435591002259 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 435591002260 ATP binding site [chemical binding]; other site 435591002261 Mg2+ binding site [ion binding]; other site 435591002262 G-X-G motif; other site 435591002263 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 435591002264 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591002265 dimer interface [polypeptide binding]; other site 435591002266 phosphorylation site [posttranslational modification] 435591002267 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 435591002268 ATP binding site [chemical binding]; other site 435591002269 Mg2+ binding site [ion binding]; other site 435591002270 G-X-G motif; other site 435591002271 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435591002272 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 435591002273 active site 435591002274 phosphorylation site [posttranslational modification] 435591002275 intermolecular recognition site; other site 435591002276 dimerization interface [polypeptide binding]; other site 435591002277 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 435591002278 DNA binding site [nucleotide binding] 435591002279 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 435591002280 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 435591002281 active site 435591002282 metal binding site [ion binding]; metal-binding site 435591002283 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 435591002284 active site 435591002285 catalytic site [active] 435591002286 substrate binding site [chemical binding]; other site 435591002287 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 435591002288 DNA-binding site [nucleotide binding]; DNA binding site 435591002289 RNA-binding motif; other site 435591002290 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 435591002291 oligomerization interface [polypeptide binding]; other site 435591002292 active site 435591002293 metal binding site [ion binding]; metal-binding site 435591002294 PAP2_like_5 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_5; cd03394 435591002295 active site 435591002296 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 435591002297 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 435591002298 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435591002299 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 435591002300 catalytic triad [active] 435591002301 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 435591002302 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 435591002303 ATP-binding site [chemical binding]; other site 435591002304 Sugar specificity; other site 435591002305 Pyrimidine base specificity; other site 435591002306 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591002307 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435591002308 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435591002309 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435591002310 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 435591002311 ligand binding site [chemical binding]; other site 435591002312 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 435591002313 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435591002314 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435591002315 catalytic residue [active] 435591002316 glutaminase; Reviewed; Region: PRK12356 435591002317 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 435591002318 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 435591002319 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 435591002320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591002321 catalytic residue [active] 435591002322 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 435591002323 putative substrate translocation pore; other site 435591002324 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591002325 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435591002326 EamA-like transporter family; Region: EamA; pfam00892 435591002327 EamA-like transporter family; Region: EamA; pfam00892 435591002328 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435591002329 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591002330 Coenzyme A binding pocket [chemical binding]; other site 435591002331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435591002332 V-type ATP synthase subunit E; Provisional; Region: PRK01558 435591002333 V-type ATP synthase subunit E; Provisional; Region: PRK01005 435591002334 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 435591002335 V-type ATP synthase subunit A; Provisional; Region: PRK04192 435591002336 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 435591002337 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 435591002338 Walker A motif/ATP binding site; other site 435591002339 Walker B motif; other site 435591002340 V-type ATP synthase subunit B; Provisional; Region: PRK02118 435591002341 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 435591002342 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 435591002343 Walker A motif homologous position; other site 435591002344 Walker B motif; other site 435591002345 V-type ATP synthase subunit D; Provisional; Region: PRK02195 435591002346 V-type ATP synthase subunit I; Validated; Region: PRK05771 435591002347 V-type ATP synthase subunit K; Validated; Region: PRK06558 435591002348 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 435591002349 Penicillinase repressor; Region: Pencillinase_R; pfam03965 435591002350 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 435591002351 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 435591002352 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 435591002353 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 435591002354 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 435591002355 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 435591002356 dimer interface [polypeptide binding]; other site 435591002357 motif 1; other site 435591002358 active site 435591002359 motif 2; other site 435591002360 motif 3; other site 435591002361 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 435591002362 Domain of unknown function DUF21; Region: DUF21; pfam01595 435591002363 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 435591002364 Transporter associated domain; Region: CorC_HlyC; smart01091 435591002365 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591002366 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 435591002367 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 435591002368 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 435591002369 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 435591002370 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 435591002371 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 435591002372 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 435591002373 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 435591002374 non-specific DNA binding site [nucleotide binding]; other site 435591002375 salt bridge; other site 435591002376 sequence-specific DNA binding site [nucleotide binding]; other site 435591002377 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 435591002378 Catalytic site [active] 435591002379 putative fimbrial outer membrane usher protein; Provisional; Region: PRK15304 435591002380 Protein of unknown function (DUF2693); Region: DUF2693; pfam10902 435591002381 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 435591002382 DNA binding residues [nucleotide binding] 435591002383 dimerization interface [polypeptide binding]; other site 435591002384 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 435591002385 AAA domain; Region: AAA_24; pfam13479 435591002386 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 435591002387 DEAD-like helicases superfamily; Region: DEXDc; smart00487 435591002388 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 435591002389 ATP binding site [chemical binding]; other site 435591002390 putative Mg++ binding site [ion binding]; other site 435591002391 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 435591002392 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 435591002393 nucleotide binding region [chemical binding]; other site 435591002394 ATP-binding site [chemical binding]; other site 435591002395 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 435591002396 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 435591002397 cofactor binding site; other site 435591002398 DNA binding site [nucleotide binding] 435591002399 substrate interaction site [chemical binding]; other site 435591002400 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 435591002401 YopX protein; Region: YopX; pfam09643 435591002402 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 435591002403 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 435591002404 dimer interface [polypeptide binding]; other site 435591002405 ssDNA binding site [nucleotide binding]; other site 435591002406 tetramer (dimer of dimers) interface [polypeptide binding]; other site 435591002407 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 435591002408 The ASCH domain adopts a beta-barrel fold similar to that of the PUA domain; Region: ASCH; smart01022 435591002409 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 435591002410 Ligand Binding Site [chemical binding]; other site 435591002411 ParB-like nuclease domain; Region: ParBc; cl02129 435591002412 Phage terminase large subunit; Region: Terminase_3; cl12054 435591002413 Terminase-like family; Region: Terminase_6; pfam03237 435591002414 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 435591002415 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 435591002416 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 435591002417 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 435591002418 non-specific DNA binding site [nucleotide binding]; other site 435591002419 salt bridge; other site 435591002420 sequence-specific DNA binding site [nucleotide binding]; other site 435591002421 Head fiber protein; Region: Phage_head_fibr; pfam11133 435591002422 tape measure domain; Region: tape_meas_nterm; TIGR02675 435591002423 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 435591002424 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 435591002425 NTP binding site [chemical binding]; other site 435591002426 NTP binding site [chemical binding]; other site 435591002427 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 435591002428 virion protein; Provisional; Region: V; PHA02564 435591002429 Domain of unknown function (DUF955); Region: DUF955; cl01076 435591002430 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 435591002431 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 435591002432 active site 435591002433 DNA binding site [nucleotide binding] 435591002434 Int/Topo IB signature motif; other site 435591002435 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 435591002436 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 435591002437 active site 435591002438 dimer interface [polypeptide binding]; other site 435591002439 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 435591002440 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 435591002441 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 435591002442 active site 435591002443 Domain of unknown function (DUF386); Region: DUF386; cl01047 435591002444 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 435591002445 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 435591002446 metal-binding site [ion binding] 435591002447 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 435591002448 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 435591002449 motif II; other site 435591002450 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 435591002451 metal-binding site [ion binding] 435591002452 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 435591002453 Haemolysin-III related; Region: HlyIII; cl03831 435591002454 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 435591002455 protease TldD; Provisional; Region: tldD; PRK10735 435591002456 anaerobic sulfatase-maturase; Provisional; Region: PRK13745 435591002457 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 435591002458 FeS/SAM binding site; other site 435591002459 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 435591002460 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 435591002461 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 435591002462 AAA domain; Region: AAA_21; pfam13304 435591002463 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 435591002464 Ion channel; Region: Ion_trans_2; pfam07885 435591002465 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 435591002466 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 435591002467 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 435591002468 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 435591002469 Uncharacterized conserved protein [Function unknown]; Region: COG1739 435591002470 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 435591002471 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 435591002472 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 435591002473 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 435591002474 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 435591002475 Ca binding site [ion binding]; other site 435591002476 active site 435591002477 catalytic site [active] 435591002478 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 435591002479 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 435591002480 active site 435591002481 Na/Ca binding site [ion binding]; other site 435591002482 catalytic site [active] 435591002483 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 435591002484 Transglycosylase; Region: Transgly; pfam00912 435591002485 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 435591002486 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 435591002487 MG2 domain; Region: A2M_N; pfam01835 435591002488 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 435591002489 Alpha-2-macroglobulin family; Region: A2M; pfam00207 435591002490 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 435591002491 surface patch; other site 435591002492 thioester region; other site 435591002493 specificity defining residues; other site 435591002494 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 435591002495 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435591002496 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 435591002497 DNA binding site [nucleotide binding] 435591002498 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 (16,20)...; Region: OM_channels; cl17244 435591002499 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591002500 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 435591002501 Part of AAA domain; Region: AAA_19; pfam13245 435591002502 Family description; Region: UvrD_C_2; pfam13538 435591002503 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 435591002504 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 435591002505 dimer interface [polypeptide binding]; other site 435591002506 active site 435591002507 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435591002508 catalytic residues [active] 435591002509 substrate binding site [chemical binding]; other site 435591002510 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 435591002511 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 435591002512 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435591002513 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 435591002514 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 435591002515 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 435591002516 FeS/SAM binding site; other site 435591002517 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 435591002518 IHF - DNA interface [nucleotide binding]; other site 435591002519 IHF dimer interface [polypeptide binding]; other site 435591002520 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 435591002521 IHF - DNA interface [nucleotide binding]; other site 435591002522 IHF dimer interface [polypeptide binding]; other site 435591002523 MoxR-like ATPases [General function prediction only]; Region: COG0714 435591002524 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591002525 Walker A motif; other site 435591002526 ATP binding site [chemical binding]; other site 435591002527 Walker B motif; other site 435591002528 arginine finger; other site 435591002529 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 435591002530 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 435591002531 metal ion-dependent adhesion site (MIDAS); other site 435591002532 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 435591002533 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 435591002534 metal ion-dependent adhesion site (MIDAS); other site 435591002535 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 435591002536 metal ion-dependent adhesion site (MIDAS); other site 435591002537 TPR repeat; Region: TPR_11; pfam13414 435591002538 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 435591002539 TPR motif; other site 435591002540 binding surface 435591002541 Tetratricopeptide repeat; Region: TPR_16; pfam13432 435591002542 Oxygen tolerance; Region: BatD; pfam13584 435591002543 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 435591002544 binding surface 435591002545 Tetratricopeptide repeat; Region: TPR_16; pfam13432 435591002546 TPR motif; other site 435591002547 Bacterial SH3 domain; Region: SH3_3; cl17532 435591002548 PAP2_like_4 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_4; cd03395 435591002549 active site 435591002550 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 435591002551 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 435591002552 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 435591002553 Ligand Binding Site [chemical binding]; other site 435591002554 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 435591002555 Ligand Binding Site [chemical binding]; other site 435591002556 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 435591002557 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 435591002558 active site 435591002559 oxyanion hole [active] 435591002560 catalytic triad [active] 435591002561 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 435591002562 active site 435591002563 oxyanion hole [active] 435591002564 catalytic triad [active] 435591002565 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 435591002566 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 435591002567 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435591002568 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 435591002569 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435591002570 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 435591002571 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 435591002572 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 435591002573 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 435591002574 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 435591002575 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 435591002576 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 435591002577 Peptidase family M1; Region: Peptidase_M1; pfam01433 435591002578 Zn binding site [ion binding]; other site 435591002579 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 435591002580 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 435591002581 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 435591002582 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 435591002583 histidinol dehydrogenase; Region: hisD; TIGR00069 435591002584 NAD binding site [chemical binding]; other site 435591002585 dimerization interface [polypeptide binding]; other site 435591002586 product binding site; other site 435591002587 substrate binding site [chemical binding]; other site 435591002588 zinc binding site [ion binding]; other site 435591002589 catalytic residues [active] 435591002590 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 435591002591 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 435591002592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591002593 homodimer interface [polypeptide binding]; other site 435591002594 catalytic residue [active] 435591002595 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 435591002596 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 435591002597 active site 435591002598 motif I; other site 435591002599 motif II; other site 435591002600 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 435591002601 putative active site pocket [active] 435591002602 4-fold oligomerization interface [polypeptide binding]; other site 435591002603 metal binding residues [ion binding]; metal-binding site 435591002604 3-fold/trimer interface [polypeptide binding]; other site 435591002605 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 435591002606 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 435591002607 dimer interface [polypeptide binding]; other site 435591002608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591002609 catalytic residue [active] 435591002610 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 435591002611 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591002612 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591002613 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 435591002614 E3 interaction surface; other site 435591002615 lipoyl attachment site [posttranslational modification]; other site 435591002616 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591002617 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591002618 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591002619 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 435591002620 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 435591002621 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 435591002622 active site 435591002623 catalytic triad [active] 435591002624 oxyanion hole [active] 435591002625 Domain of unknown function (DUF1793); Region: DUF1793; pfam08760 435591002626 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591002627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591002628 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591002629 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591002630 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 435591002631 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 435591002632 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 435591002633 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 435591002634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591002635 homodimer interface [polypeptide binding]; other site 435591002636 catalytic residue [active] 435591002637 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 435591002638 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591002639 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591002640 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591002641 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 435591002642 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 435591002643 putative substrate translocation pore; other site 435591002644 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591002645 TIGR03987 family protein; Region: TIGR03987 435591002646 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 435591002647 pyruvate dehydrogenase; Provisional; Region: PRK06546 435591002648 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 435591002649 PYR/PP interface [polypeptide binding]; other site 435591002650 tetramer interface [polypeptide binding]; other site 435591002651 dimer interface [polypeptide binding]; other site 435591002652 TPP binding site [chemical binding]; other site 435591002653 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435591002654 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 435591002655 TPP-binding site [chemical binding]; other site 435591002656 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591002657 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591002658 prolyl-tRNA synthetase; Provisional; Region: PRK08661 435591002659 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 435591002660 dimer interface [polypeptide binding]; other site 435591002661 motif 1; other site 435591002662 active site 435591002663 motif 2; other site 435591002664 motif 3; other site 435591002665 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 435591002666 anticodon binding site; other site 435591002667 zinc-binding site [ion binding]; other site 435591002668 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591002669 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591002670 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591002671 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 435591002672 binding surface 435591002673 TPR motif; other site 435591002674 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591002675 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 435591002676 binding surface 435591002677 TPR motif; other site 435591002678 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591002679 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591002680 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591002681 dimer interface [polypeptide binding]; other site 435591002682 phosphorylation site [posttranslational modification] 435591002683 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 435591002684 ATP binding site [chemical binding]; other site 435591002685 Mg2+ binding site [ion binding]; other site 435591002686 G-X-G motif; other site 435591002687 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 435591002688 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 435591002689 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435591002690 ligand binding site [chemical binding]; other site 435591002691 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591002692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 435591002693 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 435591002694 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 435591002695 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 435591002696 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 435591002697 Tic20-like protein; Region: Tic20; pfam09685 435591002698 Double zinc ribbon; Region: DZR; pfam12773 435591002699 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 435591002700 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 435591002701 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 435591002702 Potassium binding sites [ion binding]; other site 435591002703 Cesium cation binding sites [ion binding]; other site 435591002704 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 435591002705 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 435591002706 active site 435591002707 SAM binding site [chemical binding]; other site 435591002708 homodimer interface [polypeptide binding]; other site 435591002709 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 435591002710 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 435591002711 putative ligand binding site [chemical binding]; other site 435591002712 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 435591002713 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 435591002714 ABC-ATPase subunit interface; other site 435591002715 dimer interface [polypeptide binding]; other site 435591002716 putative PBP binding regions; other site 435591002717 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 435591002718 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 435591002719 Walker A/P-loop; other site 435591002720 ATP binding site [chemical binding]; other site 435591002721 Q-loop/lid; other site 435591002722 ABC transporter signature motif; other site 435591002723 Walker B; other site 435591002724 D-loop; other site 435591002725 H-loop/switch region; other site 435591002726 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591002727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591002728 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 435591002729 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 435591002730 active site 435591002731 DNA binding site [nucleotide binding] 435591002732 Int/Topo IB signature motif; other site 435591002733 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 435591002734 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 435591002735 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435591002736 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 435591002737 4Fe-4S binding domain; Region: Fer4; pfam00037 435591002738 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 435591002739 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 435591002740 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591002741 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 435591002742 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 435591002743 probable metal-binding protein; Region: matur_matur; TIGR03853 435591002744 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 435591002745 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 435591002746 substrate binding pocket [chemical binding]; other site 435591002747 membrane-bound complex binding site; other site 435591002748 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435591002749 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435591002750 catalytic residue [active] 435591002751 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 435591002752 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 435591002753 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 435591002754 S-adenosylmethionine binding site [chemical binding]; other site 435591002755 pyruvate phosphate dikinase; Provisional; Region: PRK09279 435591002756 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 435591002757 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 435591002758 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 435591002759 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591002760 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591002761 dimer interface [polypeptide binding]; other site 435591002762 phosphorylation site [posttranslational modification] 435591002763 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 435591002764 ATP binding site [chemical binding]; other site 435591002765 Mg2+ binding site [ion binding]; other site 435591002766 G-X-G motif; other site 435591002767 LytTr DNA-binding domain; Region: LytTR; smart00850 435591002768 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 435591002769 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 435591002770 phosphopeptide binding site; other site 435591002771 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 435591002772 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 435591002773 phosphopeptide binding site; other site 435591002774 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 435591002775 Protein phosphatase 2C; Region: PP2C; pfam00481 435591002776 active site 435591002777 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 435591002778 Catalytic domain of Protein Kinases; Region: PKc; cd00180 435591002779 active site 435591002780 ATP binding site [chemical binding]; other site 435591002781 substrate binding site [chemical binding]; other site 435591002782 activation loop (A-loop); other site 435591002783 kelch-like protein; Provisional; Region: PHA03098 435591002784 serine O-acetyltransferase; Region: cysE; TIGR01172 435591002785 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 435591002786 trimer interface [polypeptide binding]; other site 435591002787 active site 435591002788 substrate binding site [chemical binding]; other site 435591002789 CoA binding site [chemical binding]; other site 435591002790 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 435591002791 dimer interface [polypeptide binding]; other site 435591002792 [2Fe-2S] cluster binding site [ion binding]; other site 435591002793 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 435591002794 dimer interface [polypeptide binding]; other site 435591002795 [2Fe-2S] cluster binding site [ion binding]; other site 435591002796 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 435591002797 SLBB domain; Region: SLBB; pfam10531 435591002798 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 435591002799 4Fe-4S binding domain; Region: Fer4; pfam00037 435591002800 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 435591002801 4Fe-4S binding domain; Region: Fer4; pfam00037 435591002802 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 435591002803 catalytic loop [active] 435591002804 iron binding site [ion binding]; other site 435591002805 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 435591002806 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 435591002807 4Fe-4S binding domain; Region: Fer4; pfam00037 435591002808 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 435591002809 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 435591002810 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 435591002811 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 435591002812 putative dimer interface [polypeptide binding]; other site 435591002813 [2Fe-2S] cluster binding site [ion binding]; other site 435591002814 Repair protein; Region: Repair_PSII; pfam04536 435591002815 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 435591002816 LemA family; Region: LemA; pfam04011 435591002817 Haem-binding domain; Region: Haem_bd; pfam14376 435591002818 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 435591002819 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 435591002820 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 435591002821 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435591002822 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 435591002823 NAD binding site [chemical binding]; other site 435591002824 putative substrate binding site 2 [chemical binding]; other site 435591002825 putative substrate binding site 1 [chemical binding]; other site 435591002826 active site 435591002827 Outer membrane efflux protein; Region: OEP; pfam02321 435591002828 Outer membrane efflux protein; Region: OEP; pfam02321 435591002829 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591002830 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 435591002831 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591002832 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 435591002833 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435591002834 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 435591002835 active site 435591002836 phosphorylation site [posttranslational modification] 435591002837 intermolecular recognition site; other site 435591002838 dimerization interface [polypeptide binding]; other site 435591002839 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 435591002840 DNA binding site [nucleotide binding] 435591002841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591002842 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591002843 dimer interface [polypeptide binding]; other site 435591002844 phosphorylation site [posttranslational modification] 435591002845 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 435591002846 ATP binding site [chemical binding]; other site 435591002847 Mg2+ binding site [ion binding]; other site 435591002848 G-X-G motif; other site 435591002849 Transglycosylase; Region: Transgly; pfam00912 435591002850 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 435591002851 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 435591002852 putative ligand binding site [chemical binding]; other site 435591002853 putative NAD binding site [chemical binding]; other site 435591002854 catalytic site [active] 435591002855 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 435591002856 active site 435591002857 nucleophile elbow; other site 435591002858 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 435591002859 ThiC-associated domain; Region: ThiC-associated; pfam13667 435591002860 ThiC family; Region: ThiC; pfam01964 435591002861 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 435591002862 thiamine phosphate binding site [chemical binding]; other site 435591002863 active site 435591002864 pyrophosphate binding site [ion binding]; other site 435591002865 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 435591002866 thiamine phosphate binding site [chemical binding]; other site 435591002867 active site 435591002868 pyrophosphate binding site [ion binding]; other site 435591002869 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 435591002870 dimer interface [polypeptide binding]; other site 435591002871 substrate binding site [chemical binding]; other site 435591002872 ATP binding site [chemical binding]; other site 435591002873 Surface antigen; Region: Bac_surface_Ag; pfam01103 435591002874 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 435591002875 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 435591002876 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 435591002877 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 435591002878 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 435591002879 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 435591002880 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 435591002881 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 435591002882 active site 435591002883 SAM binding site [chemical binding]; other site 435591002884 homodimer interface [polypeptide binding]; other site 435591002885 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 435591002886 active site 435591002887 putative homodimer interface [polypeptide binding]; other site 435591002888 SAM binding site [chemical binding]; other site 435591002889 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 435591002890 S-adenosylmethionine binding site [chemical binding]; other site 435591002891 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 435591002892 active site 435591002893 SAM binding site [chemical binding]; other site 435591002894 homodimer interface [polypeptide binding]; other site 435591002895 Precorrin-8X methylmutase; Region: CbiC; pfam02570 435591002896 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 435591002897 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 435591002898 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 435591002899 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 435591002900 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 435591002901 N-terminal plug; other site 435591002902 ligand-binding site [chemical binding]; other site 435591002903 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 435591002904 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 435591002905 active site 435591002906 C-terminal domain interface [polypeptide binding]; other site 435591002907 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 435591002908 active site 435591002909 N-terminal domain interface [polypeptide binding]; other site 435591002910 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 435591002911 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 435591002912 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 435591002913 aspartate aminotransferase; Provisional; Region: PRK09275 435591002914 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 435591002915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591002916 homodimer interface [polypeptide binding]; other site 435591002917 catalytic residue [active] 435591002918 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 435591002919 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 435591002920 substrate binding site [chemical binding]; other site 435591002921 ligand binding site [chemical binding]; other site 435591002922 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 435591002923 substrate binding site [chemical binding]; other site 435591002924 isocitrate dehydrogenase; Validated; Region: PRK07362 435591002925 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 435591002926 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 glyoxylate...; Region: citrate_synt_like_1_2; cd06113 435591002927 dimer interface [polypeptide binding]; other site 435591002928 Citrate synthase; Region: Citrate_synt; pfam00285 435591002929 active site 435591002930 citrylCoA binding site [chemical binding]; other site 435591002931 oxalacetate/citrate binding site [chemical binding]; other site 435591002932 coenzyme A binding site [chemical binding]; other site 435591002933 catalytic triad [active] 435591002934 Uncharacterized conserved protein [Function unknown]; Region: COG1359 435591002935 Predicted membrane protein [Function unknown]; Region: COG2246 435591002936 GtrA-like protein; Region: GtrA; pfam04138 435591002937 amino acid transporter; Region: 2A0306; TIGR00909 435591002938 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 435591002939 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 435591002940 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 435591002941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591002942 NAD(P) binding site [chemical binding]; other site 435591002943 active site 435591002944 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 435591002945 Acyltransferase family; Region: Acyl_transf_3; pfam01757 435591002946 hypothetical protein; Validated; Region: PRK09104 435591002947 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 435591002948 metal binding site [ion binding]; metal-binding site 435591002949 putative dimer interface [polypeptide binding]; other site 435591002950 N-ethylammeline chlorohydrolase; Provisional; Region: PRK08393 435591002951 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 435591002952 active site 435591002953 putative substrate binding pocket [chemical binding]; other site 435591002954 purine nucleoside phosphorylase; Provisional; Region: PRK08202 435591002955 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 435591002956 Clp amino terminal domain; Region: Clp_N; pfam02861 435591002957 Clp amino terminal domain; Region: Clp_N; pfam02861 435591002958 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591002959 Walker A motif; other site 435591002960 ATP binding site [chemical binding]; other site 435591002961 Walker B motif; other site 435591002962 arginine finger; other site 435591002963 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591002964 Walker A motif; other site 435591002965 ATP binding site [chemical binding]; other site 435591002966 Walker B motif; other site 435591002967 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 435591002968 DNA gyrase subunit A; Validated; Region: PRK05560 435591002969 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 435591002970 CAP-like domain; other site 435591002971 active site 435591002972 primary dimer interface [polypeptide binding]; other site 435591002973 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435591002974 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435591002975 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435591002976 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435591002977 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435591002978 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435591002979 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 435591002980 binding surface 435591002981 TPR motif; other site 435591002982 TPR repeat; Region: TPR_11; pfam13414 435591002983 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 435591002984 binding surface 435591002985 TPR motif; other site 435591002986 TPR repeat; Region: TPR_11; pfam13414 435591002987 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 435591002988 TPR motif; other site 435591002989 binding surface 435591002990 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591002991 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 435591002992 ATP binding site [chemical binding]; other site 435591002993 Mg2+ binding site [ion binding]; other site 435591002994 G-X-G motif; other site 435591002995 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 435591002996 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 435591002997 active site 435591002998 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 435591002999 DRTGG domain; Region: DRTGG; pfam07085 435591003000 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 435591003001 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 435591003002 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 435591003003 Putative Fe-S cluster; Region: FeS; cl17515 435591003004 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 435591003005 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 435591003006 ATP binding site [chemical binding]; other site 435591003007 G-X-G motif; other site 435591003008 DRTGG domain; Region: DRTGG; pfam07085 435591003009 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 435591003010 proline aminopeptidase P II; Provisional; Region: PRK10879 435591003011 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 435591003012 active site 435591003013 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 435591003014 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591003015 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 435591003016 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 435591003017 Walker A/P-loop; other site 435591003018 ATP binding site [chemical binding]; other site 435591003019 Q-loop/lid; other site 435591003020 ABC transporter signature motif; other site 435591003021 Walker B; other site 435591003022 D-loop; other site 435591003023 H-loop/switch region; other site 435591003024 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435591003025 DNA-binding site [nucleotide binding]; DNA binding site 435591003026 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591003027 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 (16,20)...; Region: OM_channels; cl17244 435591003028 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591003029 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 435591003030 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 435591003031 phosphoserine phosphatase SerB; Region: serB; TIGR00338 435591003032 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 435591003033 motif II; other site 435591003034 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 435591003035 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 435591003036 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 435591003037 MgtC family; Region: MgtC; pfam02308 435591003038 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 435591003039 putative active site [active] 435591003040 putative catalytic site [active] 435591003041 putative DNA binding site [nucleotide binding]; other site 435591003042 putative phosphate binding site [ion binding]; other site 435591003043 metal binding site A [ion binding]; metal-binding site 435591003044 putative AP binding site [nucleotide binding]; other site 435591003045 putative metal binding site B [ion binding]; other site 435591003046 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 435591003047 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 435591003048 heterodimer interface [polypeptide binding]; other site 435591003049 active site 435591003050 FMN binding site [chemical binding]; other site 435591003051 homodimer interface [polypeptide binding]; other site 435591003052 substrate binding site [chemical binding]; other site 435591003053 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 435591003054 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 435591003055 FAD binding pocket [chemical binding]; other site 435591003056 FAD binding motif [chemical binding]; other site 435591003057 phosphate binding motif [ion binding]; other site 435591003058 beta-alpha-beta structure motif; other site 435591003059 NAD binding pocket [chemical binding]; other site 435591003060 Iron coordination center [ion binding]; other site 435591003061 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 435591003062 non-specific DNA binding site [nucleotide binding]; other site 435591003063 salt bridge; other site 435591003064 sequence-specific DNA binding site [nucleotide binding]; other site 435591003065 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 435591003066 DNA polymerase III, delta subunit; Region: holA; TIGR01128 435591003067 AMP nucleosidase; Provisional; Region: PRK07115 435591003068 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 435591003069 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 435591003070 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 435591003071 catalytic loop [active] 435591003072 iron binding site [ion binding]; other site 435591003073 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 435591003074 FAD binding pocket [chemical binding]; other site 435591003075 FAD binding motif [chemical binding]; other site 435591003076 phosphate binding motif [ion binding]; other site 435591003077 beta-alpha-beta structure motif; other site 435591003078 NAD binding pocket [chemical binding]; other site 435591003079 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 435591003080 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 435591003081 Rubredoxin; Region: Rubredoxin; pfam00301 435591003082 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 435591003083 iron binding site [ion binding]; other site 435591003084 FMN-binding domain; Region: FMN_bind; cl01081 435591003085 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 435591003086 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 435591003087 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 435591003088 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 435591003089 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 435591003090 guanine deaminase; Provisional; Region: PRK09228 435591003091 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 435591003092 active site 435591003093 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 435591003094 Cation efflux family; Region: Cation_efflux; pfam01545 435591003095 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 435591003096 Hpt domain; Region: Hpt; pfam01627 435591003097 AAA domain; Region: AAA_11; pfam13086 435591003098 Part of AAA domain; Region: AAA_19; pfam13245 435591003099 AAA domain; Region: AAA_30; pfam13604 435591003100 AAA domain; Region: AAA_12; pfam13087 435591003101 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 435591003102 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 435591003103 active site 435591003104 motif I; other site 435591003105 motif II; other site 435591003106 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 435591003107 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 435591003108 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 435591003109 active site 435591003110 motif I; other site 435591003111 motif II; other site 435591003112 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 435591003113 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 435591003114 CoenzymeA binding site [chemical binding]; other site 435591003115 subunit interaction site [polypeptide binding]; other site 435591003116 PHB binding site; other site 435591003117 chorismate binding enzyme; Region: Chorismate_bind; cl10555 435591003118 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 435591003119 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 435591003120 dimer interface [polypeptide binding]; other site 435591003121 tetramer interface [polypeptide binding]; other site 435591003122 PYR/PP interface [polypeptide binding]; other site 435591003123 TPP binding site [chemical binding]; other site 435591003124 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 435591003125 TPP-binding site [chemical binding]; other site 435591003126 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 435591003127 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 435591003128 substrate binding site [chemical binding]; other site 435591003129 oxyanion hole (OAH) forming residues; other site 435591003130 trimer interface [polypeptide binding]; other site 435591003131 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 435591003132 O-succinylbenzoate synthase; Provisional; Region: PRK02714 435591003133 active site 435591003134 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 435591003135 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 435591003136 AMP binding site [chemical binding]; other site 435591003137 active site 435591003138 acyl-activating enzyme (AAE) consensus motif; other site 435591003139 CoA binding site [chemical binding]; other site 435591003140 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 435591003141 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 435591003142 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 435591003143 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 435591003144 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 435591003145 Domain of Unknown Function with PDB structure (DUF3858); Region: DUF3858; pfam12970 435591003146 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 435591003147 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 435591003148 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 435591003149 minor groove reading motif; other site 435591003150 helix-hairpin-helix signature motif; other site 435591003151 substrate binding pocket [chemical binding]; other site 435591003152 active site 435591003153 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 435591003154 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 435591003155 Chain length determinant protein; Region: Wzz; cl15801 435591003156 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 435591003157 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435591003158 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 435591003159 SLBB domain; Region: SLBB; pfam10531 435591003160 SLBB domain; Region: SLBB; pfam10531 435591003161 polysaccharide export protein Wza; Provisional; Region: PRK15078 435591003162 SLBB domain; Region: SLBB; pfam10531 435591003163 putative hydrolase; Provisional; Region: PRK02113 435591003164 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 435591003165 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 435591003166 FAD binding domain; Region: FAD_binding_4; pfam01565 435591003167 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 435591003168 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 435591003169 IHF dimer interface [polypeptide binding]; other site 435591003170 IHF - DNA interface [nucleotide binding]; other site 435591003171 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435591003172 active site 435591003173 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 435591003174 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591003175 dimer interface [polypeptide binding]; other site 435591003176 phosphorylation site [posttranslational modification] 435591003177 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 435591003178 ATP binding site [chemical binding]; other site 435591003179 Mg2+ binding site [ion binding]; other site 435591003180 G-X-G motif; other site 435591003181 HEAT repeats; Region: HEAT_2; pfam13646 435591003182 HEAT repeats; Region: HEAT_2; pfam13646 435591003183 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591003184 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591003185 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591003186 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591003187 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591003188 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591003189 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591003190 Sulfatase; Region: Sulfatase; pfam00884 435591003191 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591003192 SusD family; Region: SusD; pfam07980 435591003193 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591003194 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591003195 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591003196 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 (16,20)...; Region: OM_channels; cl17244 435591003197 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591003198 FecR protein; Region: FecR; pfam04773 435591003199 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591003200 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591003201 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591003202 DNA binding residues [nucleotide binding] 435591003203 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 435591003204 DEAD-like helicases superfamily; Region: DEXDc; smart00487 435591003205 ATP binding site [chemical binding]; other site 435591003206 Mg++ binding site [ion binding]; other site 435591003207 motif III; other site 435591003208 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 435591003209 nucleotide binding region [chemical binding]; other site 435591003210 ATP-binding site [chemical binding]; other site 435591003211 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 435591003212 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 435591003213 ATP binding site [chemical binding]; other site 435591003214 putative Mg++ binding site [ion binding]; other site 435591003215 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 435591003216 nucleotide binding region [chemical binding]; other site 435591003217 ATP-binding site [chemical binding]; other site 435591003218 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 435591003219 HRDC domain; Region: HRDC; pfam00570 435591003220 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591003221 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591003222 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591003223 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 435591003224 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 435591003225 homodimer interface [polypeptide binding]; other site 435591003226 active site 435591003227 FMN binding site [chemical binding]; other site 435591003228 substrate binding site [chemical binding]; other site 435591003229 4Fe-4S binding domain; Region: Fer4; pfam00037 435591003230 hypothetical protein; Provisional; Region: PRK07101 435591003231 para-aminobenzoate synthase component I; Validated; Region: PRK07093 435591003232 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 435591003233 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 435591003234 putative active site; other site 435591003235 catalytic triad [active] 435591003236 putative dimer interface [polypeptide binding]; other site 435591003237 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 435591003238 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 435591003239 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 435591003240 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591003241 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 435591003242 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 435591003243 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 435591003244 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 435591003245 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 435591003246 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 435591003247 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 435591003248 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 435591003249 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 435591003250 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 435591003251 GAF domain; Region: GAF_2; pfam13185 435591003252 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 435591003253 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 435591003254 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435591003255 active site 435591003256 catalytic tetrad [active] 435591003257 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591003258 Sulfatase; Region: Sulfatase; pfam00884 435591003259 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 435591003260 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 435591003261 Outer membrane lipoprotein; Region: YfiO; pfam13525 435591003262 ACT domain-containing protein [General function prediction only]; Region: COG4747 435591003263 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 435591003264 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 435591003265 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 435591003266 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 435591003267 acyl-activating enzyme (AAE) consensus motif; other site 435591003268 AMP binding site [chemical binding]; other site 435591003269 active site 435591003270 CoA binding site [chemical binding]; other site 435591003271 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591003272 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 435591003273 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 435591003274 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 435591003275 motif II; other site 435591003276 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 435591003277 Peptidase family C69; Region: Peptidase_C69; cl17793 435591003278 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 435591003279 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 435591003280 endonuclease IV; Provisional; Region: PRK01060 435591003281 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 435591003282 AP (apurinic/apyrimidinic) site pocket; other site 435591003283 DNA interaction; other site 435591003284 Metal-binding active site; metal-binding site 435591003285 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 435591003286 CoenzymeA binding site [chemical binding]; other site 435591003287 subunit interaction site [polypeptide binding]; other site 435591003288 PHB binding site; other site 435591003289 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 435591003290 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 435591003291 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 435591003292 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 435591003293 NigD-like protein; Region: NigD; pfam12667 435591003294 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 435591003295 PA14 domain; Region: PA14; cl08459 435591003296 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 435591003297 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 435591003298 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 435591003299 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 435591003300 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 435591003301 active site 435591003302 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 435591003303 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 435591003304 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 435591003305 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 435591003306 motif II; other site 435591003307 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 435591003308 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591003309 active site 435591003310 metal binding site [ion binding]; metal-binding site 435591003311 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 435591003312 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 435591003313 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 435591003314 putative catalytic site [active] 435591003315 putative metal binding site [ion binding]; other site 435591003316 putative phosphate binding site [ion binding]; other site 435591003317 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 435591003318 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435591003319 ligand binding site [chemical binding]; other site 435591003320 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591003321 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591003322 dimer interface [polypeptide binding]; other site 435591003323 phosphorylation site [posttranslational modification] 435591003324 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 435591003325 ATP binding site [chemical binding]; other site 435591003326 Mg2+ binding site [ion binding]; other site 435591003327 G-X-G motif; other site 435591003328 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 435591003329 Clp amino terminal domain; Region: Clp_N; pfam02861 435591003330 Clp amino terminal domain; Region: Clp_N; pfam02861 435591003331 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591003332 Walker A motif; other site 435591003333 ATP binding site [chemical binding]; other site 435591003334 Walker B motif; other site 435591003335 arginine finger; other site 435591003336 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591003337 Walker A motif; other site 435591003338 ATP binding site [chemical binding]; other site 435591003339 Walker B motif; other site 435591003340 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 435591003341 hypothetical protein; Validated; Region: PRK02101 435591003342 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 435591003343 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591003344 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591003345 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591003346 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 435591003347 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 435591003348 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 435591003349 protein binding site [polypeptide binding]; other site 435591003350 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 435591003351 Domain interface; other site 435591003352 Peptide binding site; other site 435591003353 Active site tetrad [active] 435591003354 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 435591003355 hypothetical protein; Provisional; Region: PRK12378 435591003356 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 435591003357 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 435591003358 putative tRNA-binding site [nucleotide binding]; other site 435591003359 B3/4 domain; Region: B3_4; pfam03483 435591003360 tRNA synthetase B5 domain; Region: B5; pfam03484 435591003361 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 435591003362 dimer interface [polypeptide binding]; other site 435591003363 motif 1; other site 435591003364 motif 3; other site 435591003365 motif 2; other site 435591003366 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 435591003367 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 435591003368 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435591003369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591003370 NAD(P) binding site [chemical binding]; other site 435591003371 active site 435591003372 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 435591003373 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); Region: KBL_like; cd06454 435591003374 substrate-cofactor binding pocket; other site 435591003375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591003376 catalytic residue [active] 435591003377 histidinol-phosphatase; Provisional; Region: PRK07328 435591003378 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 435591003379 active site 435591003380 dimer interface [polypeptide binding]; other site 435591003381 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 435591003382 chaperone protein DnaJ; Provisional; Region: PRK14289 435591003383 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 435591003384 HSP70 interaction site [polypeptide binding]; other site 435591003385 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 435591003386 substrate binding site [polypeptide binding]; other site 435591003387 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 435591003388 Zn binding sites [ion binding]; other site 435591003389 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 435591003390 dimer interface [polypeptide binding]; other site 435591003391 GrpE; Region: GrpE; pfam01025 435591003392 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 435591003393 dimer interface [polypeptide binding]; other site 435591003394 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 435591003395 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 435591003396 protein binding site [polypeptide binding]; other site 435591003397 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 435591003398 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 435591003399 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 435591003400 MutS domain III; Region: MutS_III; pfam05192 435591003401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591003402 Walker A/P-loop; other site 435591003403 ATP binding site [chemical binding]; other site 435591003404 Q-loop/lid; other site 435591003405 ABC transporter signature motif; other site 435591003406 Walker B; other site 435591003407 D-loop; other site 435591003408 H-loop/switch region; other site 435591003409 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 435591003410 Smr domain; Region: Smr; pfam01713 435591003411 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 435591003412 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 435591003413 oligomer interface [polypeptide binding]; other site 435591003414 metal binding site [ion binding]; metal-binding site 435591003415 metal binding site [ion binding]; metal-binding site 435591003416 Cl binding site [ion binding]; other site 435591003417 aspartate ring; other site 435591003418 basic sphincter; other site 435591003419 putative hydrophobic gate; other site 435591003420 periplasmic entrance; other site 435591003421 multiple promoter invertase; Provisional; Region: mpi; PRK13413 435591003422 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 435591003423 catalytic residues [active] 435591003424 catalytic nucleophile [active] 435591003425 Presynaptic Site I dimer interface [polypeptide binding]; other site 435591003426 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 435591003427 Synaptic Flat tetramer interface [polypeptide binding]; other site 435591003428 Synaptic Site I dimer interface [polypeptide binding]; other site 435591003429 DNA binding site [nucleotide binding] 435591003430 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 435591003431 DNA-binding interface [nucleotide binding]; DNA binding site 435591003432 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 435591003433 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 435591003434 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591003435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591003436 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 435591003437 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 435591003438 Hexokinase [Carbohydrate transport and metabolism]; Region: COG5026 435591003439 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435591003440 nucleotide binding site [chemical binding]; other site 435591003441 Hexokinase; Region: Hexokinase_2; pfam03727 435591003442 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435591003443 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 435591003444 DNA binding residues [nucleotide binding] 435591003445 dimerization interface [polypeptide binding]; other site 435591003446 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 435591003447 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 435591003448 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591003449 homodimer interface [polypeptide binding]; other site 435591003450 catalytic residue [active] 435591003451 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 435591003452 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435591003453 DNA-binding site [nucleotide binding]; DNA binding site 435591003454 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 435591003455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591003456 homodimer interface [polypeptide binding]; other site 435591003457 catalytic residue [active] 435591003458 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 435591003459 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 435591003460 active site 435591003461 DNA binding site [nucleotide binding] 435591003462 Int/Topo IB signature motif; other site 435591003463 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 435591003464 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 435591003465 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 435591003466 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 435591003467 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 435591003468 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 435591003469 ligand binding site [chemical binding]; other site 435591003470 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 435591003471 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 435591003472 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591003473 active site 435591003474 DNA binding site [nucleotide binding] 435591003475 Int/Topo IB signature motif; other site 435591003476 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 435591003477 active site 435591003478 Int/Topo IB signature motif; other site 435591003479 DNA binding site [nucleotide binding] 435591003480 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 435591003481 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591003482 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 435591003483 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591003484 ABC transporter; Region: ABC_tran_2; pfam12848 435591003485 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591003486 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591003487 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 435591003488 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 435591003489 dimer interface [polypeptide binding]; other site 435591003490 active site 435591003491 glycine-pyridoxal phosphate binding site [chemical binding]; other site 435591003492 folate binding site [chemical binding]; other site 435591003493 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 435591003494 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 435591003495 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 435591003496 active site 435591003497 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 435591003498 PA14 domain; Region: PA14; cl08459 435591003499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591003500 Coenzyme A binding pocket [chemical binding]; other site 435591003501 Predicted amidohydrolase [General function prediction only]; Region: COG0388 435591003502 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 435591003503 putative active site [active] 435591003504 catalytic triad [active] 435591003505 putative dimer interface [polypeptide binding]; other site 435591003506 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 435591003507 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 435591003508 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 435591003509 Response regulator receiver domain; Region: Response_reg; pfam00072 435591003510 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 435591003511 active site 435591003512 phosphorylation site [posttranslational modification] 435591003513 intermolecular recognition site; other site 435591003514 dimerization interface [polypeptide binding]; other site 435591003515 Bacterial sugar transferase; Region: Bac_transf; cl00939 435591003516 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435591003517 Outer membrane efflux protein; Region: OEP; pfam02321 435591003518 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 435591003519 O-Antigen ligase; Region: Wzy_C; pfam04932 435591003520 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 435591003521 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 435591003522 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 435591003523 DXD motif; other site 435591003524 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 435591003525 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591003526 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 435591003527 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 435591003528 trimer interface [polypeptide binding]; other site 435591003529 active site 435591003530 substrate binding site [chemical binding]; other site 435591003531 CoA binding site [chemical binding]; other site 435591003532 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 435591003533 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 435591003534 colanic acid exporter; Provisional; Region: PRK10459 435591003535 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 435591003536 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591003537 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 435591003538 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 435591003539 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 435591003540 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591003541 active site 435591003542 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 435591003543 replicative DNA helicase; Region: DnaB; TIGR00665 435591003544 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 435591003545 Walker A motif; other site 435591003546 ATP binding site [chemical binding]; other site 435591003547 Walker B motif; other site 435591003548 DNA binding loops [nucleotide binding] 435591003549 CHC2 zinc finger; Region: zf-CHC2; cl17510 435591003550 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 435591003551 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 435591003552 active site 435591003553 metal binding site [ion binding]; metal-binding site 435591003554 interdomain interaction site; other site 435591003555 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591003556 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 435591003557 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 435591003558 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 435591003559 DXD motif; other site 435591003560 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 435591003561 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 435591003562 Probable Catalytic site; other site 435591003563 metal-binding site 435591003564 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 435591003565 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 435591003566 DXD motif; other site 435591003567 Response regulator receiver domain; Region: Response_reg; pfam00072 435591003568 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 435591003569 active site 435591003570 phosphorylation site [posttranslational modification] 435591003571 intermolecular recognition site; other site 435591003572 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591003573 dimerization interface [polypeptide binding]; other site 435591003574 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591003575 dimer interface [polypeptide binding]; other site 435591003576 phosphorylation site [posttranslational modification] 435591003577 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 435591003578 ATP binding site [chemical binding]; other site 435591003579 Mg2+ binding site [ion binding]; other site 435591003580 G-X-G motif; other site 435591003581 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 435591003582 active site 435591003583 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 435591003584 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 435591003585 FeS/SAM binding site; other site 435591003586 dihydroorotase; Reviewed; Region: PRK09236 435591003587 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 435591003588 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 435591003589 active site 435591003590 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 435591003591 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 435591003592 Ligand binding site; other site 435591003593 Putative Catalytic site; other site 435591003594 DXD motif; other site 435591003595 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 435591003596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435591003597 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 435591003598 dimerization interface [polypeptide binding]; other site 435591003599 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591003600 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591003601 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591003602 DNA binding residues [nucleotide binding] 435591003603 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591003604 FecR protein; Region: FecR; pfam04773 435591003605 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591003606 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591003607 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 435591003608 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 435591003609 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591003610 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435591003611 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 435591003612 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591003613 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591003614 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591003615 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591003616 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 435591003617 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 435591003618 active site 435591003619 substrate binding site [chemical binding]; other site 435591003620 Mg2+ binding site [ion binding]; other site 435591003621 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 435591003622 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 435591003623 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435591003624 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591003625 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 435591003626 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 435591003627 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 435591003628 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 435591003629 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 435591003630 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 435591003631 intersubunit interface [polypeptide binding]; other site 435591003632 active site 435591003633 Zn2+ binding site [ion binding]; other site 435591003634 rhamnose-proton symporter; Provisional; Region: PRK13499 435591003635 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 435591003636 L-rhamnose isomerase; Provisional; Region: PRK01076 435591003637 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 435591003638 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 435591003639 N- and C-terminal domain interface [polypeptide binding]; other site 435591003640 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 435591003641 active site 435591003642 putative catalytic site [active] 435591003643 metal binding site [ion binding]; metal-binding site 435591003644 ATP binding site [chemical binding]; other site 435591003645 carbohydrate binding site [chemical binding]; other site 435591003646 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435591003647 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591003648 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591003649 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591003650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 435591003651 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 435591003652 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591003653 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 435591003654 ATP binding site [chemical binding]; other site 435591003655 Mg2+ binding site [ion binding]; other site 435591003656 G-X-G motif; other site 435591003657 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 435591003658 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 435591003659 active site 435591003660 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 435591003661 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 435591003662 dimer interface [polypeptide binding]; other site 435591003663 active site 435591003664 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435591003665 substrate binding site [chemical binding]; other site 435591003666 catalytic residue [active] 435591003667 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 435591003668 homotrimer interaction site [polypeptide binding]; other site 435591003669 putative active site [active] 435591003670 fructuronate transporter; Provisional; Region: PRK10034; cl15264 435591003671 GntP family permease; Region: GntP_permease; pfam02447 435591003672 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 435591003673 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 435591003674 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 435591003675 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 435591003676 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 435591003677 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 435591003678 Walker A/P-loop; other site 435591003679 ATP binding site [chemical binding]; other site 435591003680 Q-loop/lid; other site 435591003681 ABC transporter signature motif; other site 435591003682 Walker B; other site 435591003683 D-loop; other site 435591003684 H-loop/switch region; other site 435591003685 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 435591003686 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591003687 Outer membrane efflux protein; Region: OEP; pfam02321 435591003688 Outer membrane efflux protein; Region: OEP; pfam02321 435591003689 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435591003690 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435591003691 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 435591003692 putative substrate binding site [chemical binding]; other site 435591003693 active site 435591003694 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 435591003695 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 435591003696 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 435591003697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 435591003698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 435591003699 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 435591003700 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 435591003701 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591003702 active site 435591003703 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 435591003704 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 435591003705 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 435591003706 B12 binding site [chemical binding]; other site 435591003707 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 435591003708 FeS/SAM binding site; other site 435591003709 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 435591003710 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 435591003711 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 435591003712 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 435591003713 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 435591003714 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 435591003715 substrate binding site [chemical binding]; other site 435591003716 hexamer interface [polypeptide binding]; other site 435591003717 metal binding site [ion binding]; metal-binding site 435591003718 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 435591003719 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 435591003720 putative NAD(P) binding site [chemical binding]; other site 435591003721 catalytic Zn binding site [ion binding]; other site 435591003722 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 435591003723 substrate binding site; other site 435591003724 dimer interface; other site 435591003725 colanic acid exporter; Provisional; Region: PRK10459 435591003726 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 435591003727 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 435591003728 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435591003729 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435591003730 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 435591003731 homodimer interface [polypeptide binding]; other site 435591003732 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591003733 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 435591003734 active site 435591003735 DNA binding site [nucleotide binding] 435591003736 Int/Topo IB signature motif; other site 435591003737 cobyric acid synthase; Provisional; Region: PRK00784 435591003738 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 435591003739 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 435591003740 catalytic triad [active] 435591003741 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591003742 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591003743 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 435591003744 Ferritin-like domain; Region: Ferritin; pfam00210 435591003745 diiron binding motif [ion binding]; other site 435591003746 DJ-1 family protein; Region: not_thiJ; TIGR01383 435591003747 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 435591003748 conserved cys residue [active] 435591003749 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591003750 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591003751 dimer interface [polypeptide binding]; other site 435591003752 phosphorylation site [posttranslational modification] 435591003753 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 435591003754 ATP binding site [chemical binding]; other site 435591003755 Mg2+ binding site [ion binding]; other site 435591003756 G-X-G motif; other site 435591003757 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 435591003758 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 435591003759 acyl-activating enzyme (AAE) consensus motif; other site 435591003760 AMP binding site [chemical binding]; other site 435591003761 active site 435591003762 CoA binding site [chemical binding]; other site 435591003763 ACT domain-containing protein [General function prediction only]; Region: COG4747 435591003764 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 435591003765 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 435591003766 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 435591003767 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 435591003768 Na binding site [ion binding]; other site 435591003769 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 435591003770 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 435591003771 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 435591003772 dimer interface [polypeptide binding]; other site 435591003773 conserved gate region; other site 435591003774 putative PBP binding loops; other site 435591003775 ABC-ATPase subunit interface; other site 435591003776 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 435591003777 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591003778 Walker A/P-loop; other site 435591003779 ATP binding site [chemical binding]; other site 435591003780 Q-loop/lid; other site 435591003781 ABC transporter signature motif; other site 435591003782 Walker B; other site 435591003783 D-loop; other site 435591003784 H-loop/switch region; other site 435591003785 PAS fold; Region: PAS_4; pfam08448 435591003786 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591003787 dimer interface [polypeptide binding]; other site 435591003788 phosphorylation site [posttranslational modification] 435591003789 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 435591003790 ATP binding site [chemical binding]; other site 435591003791 Mg2+ binding site [ion binding]; other site 435591003792 G-X-G motif; other site 435591003793 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 435591003794 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 435591003795 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 435591003796 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 435591003797 RNA binding site [nucleotide binding]; other site 435591003798 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 435591003799 putative deacylase active site [active] 435591003800 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 435591003801 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591003802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591003803 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 435591003804 Prephenate dehydratase; Region: PDT; pfam00800 435591003805 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 435591003806 putative L-Phe binding site [chemical binding]; other site 435591003807 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 435591003808 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 435591003809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591003810 homodimer interface [polypeptide binding]; other site 435591003811 catalytic residue [active] 435591003812 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 435591003813 Chorismate mutase type II; Region: CM_2; smart00830 435591003814 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 435591003815 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 435591003816 prephenate dehydrogenase; Provisional; Region: PRK06444 435591003817 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591003818 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 435591003819 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591003820 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 435591003821 ligand binding site [chemical binding]; other site 435591003822 flexible hinge region; other site 435591003823 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591003824 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 435591003825 cation binding site [ion binding]; other site 435591003826 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 435591003827 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591003828 putative substrate translocation pore; other site 435591003829 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 435591003830 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 435591003831 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 435591003832 active site 435591003833 phosphorylation site [posttranslational modification] 435591003834 intermolecular recognition site; other site 435591003835 dimerization interface [polypeptide binding]; other site 435591003836 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591003837 Walker A motif; other site 435591003838 ATP binding site [chemical binding]; other site 435591003839 Walker B motif; other site 435591003840 arginine finger; other site 435591003841 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435591003842 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 435591003843 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 435591003844 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 435591003845 ATP binding site [chemical binding]; other site 435591003846 Mg2+ binding site [ion binding]; other site 435591003847 G-X-G motif; other site 435591003848 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 435591003849 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 435591003850 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 435591003851 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591003852 active site 435591003853 HIGH motif; other site 435591003854 nucleotide binding site [chemical binding]; other site 435591003855 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591003856 active site 435591003857 KMSKS motif; other site 435591003858 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 435591003859 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 435591003860 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 435591003861 TPR motif; other site 435591003862 TPR repeat; Region: TPR_11; pfam13414 435591003863 binding surface 435591003864 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 435591003865 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 435591003866 binding surface 435591003867 TPR motif; other site 435591003868 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 435591003869 binding surface 435591003870 TPR repeat; Region: TPR_11; pfam13414 435591003871 Domain of unknown function (DUF368); Region: DUF368; pfam04018 435591003872 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 435591003873 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 435591003874 dimer interface [polypeptide binding]; other site 435591003875 PYR/PP interface [polypeptide binding]; other site 435591003876 TPP binding site [chemical binding]; other site 435591003877 substrate binding site [chemical binding]; other site 435591003878 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 435591003879 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 435591003880 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 435591003881 TPP-binding site [chemical binding]; other site 435591003882 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 435591003883 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 435591003884 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 435591003885 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 435591003886 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 435591003887 substrate binding pocket [chemical binding]; other site 435591003888 membrane-bound complex binding site; other site 435591003889 hinge residues; other site 435591003890 PAS fold; Region: PAS_4; pfam08448 435591003891 PAS fold; Region: PAS_3; pfam08447 435591003892 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591003893 dimer interface [polypeptide binding]; other site 435591003894 phosphorylation site [posttranslational modification] 435591003895 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 435591003896 ATP binding site [chemical binding]; other site 435591003897 Mg2+ binding site [ion binding]; other site 435591003898 G-X-G motif; other site 435591003899 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 435591003900 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 435591003901 ATP binding site [chemical binding]; other site 435591003902 Mg++ binding site [ion binding]; other site 435591003903 motif III; other site 435591003904 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 435591003905 nucleotide binding region [chemical binding]; other site 435591003906 ATP-binding site [chemical binding]; other site 435591003907 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 435591003908 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 435591003909 transcription termination factor Rho; Provisional; Region: PRK12608 435591003910 RNA binding site [nucleotide binding]; other site 435591003911 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 435591003912 multimer interface [polypeptide binding]; other site 435591003913 Walker A motif; other site 435591003914 ATP binding site [chemical binding]; other site 435591003915 Walker B motif; other site 435591003916 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 435591003917 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 435591003918 Ligand Binding Site [chemical binding]; other site 435591003919 TilS substrate C-terminal domain; Region: TilS_C; smart00977 435591003920 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 435591003921 Putative zinc ribbon domain; Region: DUF164; pfam02591 435591003922 Uncharacterized conserved protein [Function unknown]; Region: COG0327 435591003923 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 435591003924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 435591003925 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 435591003926 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 435591003927 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 435591003928 dimer interface [polypeptide binding]; other site 435591003929 anticodon binding site; other site 435591003930 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 435591003931 homodimer interface [polypeptide binding]; other site 435591003932 motif 1; other site 435591003933 active site 435591003934 motif 2; other site 435591003935 GAD domain; Region: GAD; pfam02938 435591003936 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 435591003937 motif 3; other site 435591003938 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435591003939 active site 435591003940 NTP binding site [chemical binding]; other site 435591003941 metal binding triad [ion binding]; metal-binding site 435591003942 antibiotic binding site [chemical binding]; other site 435591003943 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 435591003944 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591003945 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 435591003946 trimer interface [polypeptide binding]; other site 435591003947 active site 435591003948 substrate binding site [chemical binding]; other site 435591003949 CoA binding site [chemical binding]; other site 435591003950 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591003951 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591003952 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435591003953 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591003954 active site 435591003955 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 435591003956 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 435591003957 LicD family; Region: LicD; pfam04991 435591003958 Polysaccharide biosynthesis protein; Region: Polysacc_synt; pfam01943 435591003959 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591003960 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 435591003961 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 435591003962 active site 435591003963 metal-binding site 435591003964 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 435591003965 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 435591003966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591003967 homodimer interface [polypeptide binding]; other site 435591003968 catalytic residue [active] 435591003969 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 435591003970 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 435591003971 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 435591003972 Mg++ binding site [ion binding]; other site 435591003973 putative catalytic motif [active] 435591003974 substrate binding site [chemical binding]; other site 435591003975 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435591003976 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 435591003977 homodimer interface [polypeptide binding]; other site 435591003978 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591003979 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 435591003980 active site 435591003981 DNA binding site [nucleotide binding] 435591003982 Int/Topo IB signature motif; other site 435591003983 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591003984 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591003985 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591003986 Walker A/P-loop; other site 435591003987 ATP binding site [chemical binding]; other site 435591003988 Q-loop/lid; other site 435591003989 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 435591003990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591003991 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 435591003992 Walker A/P-loop; other site 435591003993 ATP binding site [chemical binding]; other site 435591003994 Q-loop/lid; other site 435591003995 ABC transporter signature motif; other site 435591003996 Walker B; other site 435591003997 D-loop; other site 435591003998 H-loop/switch region; other site 435591003999 Trehalose utilisation; Region: ThuA; pfam06283 435591004000 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 435591004001 active site 435591004002 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 435591004003 active site 435591004004 substrate binding site [chemical binding]; other site 435591004005 trimer interface [polypeptide binding]; other site 435591004006 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 435591004007 CoA binding site [chemical binding]; other site 435591004008 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591004009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591004010 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 435591004011 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591004012 homodimer interface [polypeptide binding]; other site 435591004013 catalytic residue [active] 435591004014 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 435591004015 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435591004016 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 435591004017 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435591004018 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 435591004019 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 435591004020 Probable Catalytic site; other site 435591004021 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 435591004022 recombination protein RecR; Reviewed; Region: recR; PRK00076 435591004023 RecR protein; Region: RecR; pfam02132 435591004024 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 435591004025 putative active site [active] 435591004026 putative metal-binding site [ion binding]; other site 435591004027 tetramer interface [polypeptide binding]; other site 435591004028 OPT oligopeptide transporter protein; Region: OPT; pfam03169 435591004029 putative oligopeptide transporter, OPT family; Region: TIGR00733 435591004030 Stage II sporulation protein; Region: SpoIID; pfam08486 435591004031 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 435591004032 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004033 FtsX-like permease family; Region: FtsX; pfam02687 435591004034 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004035 FtsX-like permease family; Region: FtsX; pfam02687 435591004036 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 435591004037 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 435591004038 active site 435591004039 metal binding site [ion binding]; metal-binding site 435591004040 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 435591004041 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 435591004042 Na binding site [ion binding]; other site 435591004043 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 435591004044 G1 box; other site 435591004045 GTP/Mg2+ binding site [chemical binding]; other site 435591004046 Switch I region; other site 435591004047 G2 box; other site 435591004048 G3 box; other site 435591004049 Switch II region; other site 435591004050 G4 box; other site 435591004051 G5 box; other site 435591004052 B12 binding domain; Region: B12-binding; pfam02310 435591004053 B12 binding site [chemical binding]; other site 435591004054 Radical SAM superfamily; Region: Radical_SAM; pfam04055 435591004055 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591004056 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 435591004057 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 435591004058 N-terminal plug; other site 435591004059 putative transporter; Validated; Region: PRK03818 435591004060 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 435591004061 TrkA-C domain; Region: TrkA_C; pfam02080 435591004062 TrkA-C domain; Region: TrkA_C; pfam02080 435591004063 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 435591004064 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 435591004065 Eye pigment and drug resistance transporter subfamily G of the ATP-binding cassette superfamily; Region: ABCG_EPDR; cd03213 435591004066 Walker A/P-loop; other site 435591004067 ATP binding site [chemical binding]; other site 435591004068 Q-loop/lid; other site 435591004069 ABC transporter signature motif; other site 435591004070 Walker B; other site 435591004071 D-loop; other site 435591004072 H-loop/switch region; other site 435591004073 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 435591004074 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 435591004075 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 435591004076 S-adenosylmethionine binding site [chemical binding]; other site 435591004077 PAS fold; Region: PAS_3; pfam08447 435591004078 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591004079 dimer interface [polypeptide binding]; other site 435591004080 phosphorylation site [posttranslational modification] 435591004081 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 435591004082 ATP binding site [chemical binding]; other site 435591004083 Mg2+ binding site [ion binding]; other site 435591004084 G-X-G motif; other site 435591004085 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 435591004086 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 435591004087 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 435591004088 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 435591004089 catalytic triad [active] 435591004090 recombinase A; Provisional; Region: recA; PRK09354 435591004091 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 435591004092 hexamer interface [polypeptide binding]; other site 435591004093 Walker A motif; other site 435591004094 ATP binding site [chemical binding]; other site 435591004095 Walker B motif; other site 435591004096 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 435591004097 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 435591004098 putative active site [active] 435591004099 putative catalytic site [active] 435591004100 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 435591004101 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 435591004102 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591004103 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 435591004104 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 435591004105 Methyltransferase domain; Region: Methyltransf_31; pfam13847 435591004106 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 435591004107 S-adenosylmethionine binding site [chemical binding]; other site 435591004108 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; cl00233 435591004109 catalytic center binding site [active] 435591004110 ATP binding site [chemical binding]; other site 435591004111 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 435591004112 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 435591004113 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 435591004114 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 435591004115 G1 box; other site 435591004116 GTP/Mg2+ binding site [chemical binding]; other site 435591004117 Switch I region; other site 435591004118 G2 box; other site 435591004119 G3 box; other site 435591004120 Switch II region; other site 435591004121 G4 box; other site 435591004122 G5 box; other site 435591004123 Nucleoside recognition; Region: Gate; pfam07670 435591004124 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 435591004125 Nucleoside recognition; Region: Gate; pfam07670 435591004126 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 435591004127 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 435591004128 active site 435591004129 metal binding site [ion binding]; metal-binding site 435591004130 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 435591004131 active site 435591004132 metal binding site [ion binding]; metal-binding site 435591004133 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 435591004134 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591004135 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 435591004136 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 435591004137 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 435591004138 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 435591004139 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 435591004140 active site 435591004141 metal-binding site 435591004142 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 435591004143 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 435591004144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591004145 homodimer interface [polypeptide binding]; other site 435591004146 catalytic residue [active] 435591004147 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591004148 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 435591004149 Resistant to P. syringae 6; Provisional; Region: PLN03210 435591004150 Resistant to P. syringae 6; Provisional; Region: PLN03210 435591004151 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591004152 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 435591004153 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591004154 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 435591004155 LicD family; Region: LicD; cl01378 435591004156 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 435591004157 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 435591004158 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 435591004159 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435591004160 SLBB domain; Region: SLBB; pfam10531 435591004161 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 435591004162 S1 domain; Region: S1_2; pfam13509 435591004163 GTP-binding protein LepA; Provisional; Region: PRK05433 435591004164 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 435591004165 G1 box; other site 435591004166 putative GEF interaction site [polypeptide binding]; other site 435591004167 GTP/Mg2+ binding site [chemical binding]; other site 435591004168 Switch I region; other site 435591004169 G2 box; other site 435591004170 G3 box; other site 435591004171 Switch II region; other site 435591004172 G4 box; other site 435591004173 G5 box; other site 435591004174 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 435591004175 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 435591004176 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 435591004177 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 435591004178 binding surface 435591004179 TPR motif; other site 435591004180 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591004181 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 435591004182 TPR motif; other site 435591004183 binding surface 435591004184 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591004185 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435591004186 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435591004187 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 435591004188 Rubredoxin; Region: Rubredoxin; pfam00301 435591004189 iron binding site [ion binding]; other site 435591004190 Rubrerythrin [Energy production and conversion]; Region: COG1592 435591004191 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 435591004192 diiron binding motif [ion binding]; other site 435591004193 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 435591004194 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 435591004195 putative active site; other site 435591004196 catalytic residue [active] 435591004197 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 435591004198 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591004199 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591004200 Sporulation related domain; Region: SPOR; pfam05036 435591004201 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435591004202 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 435591004203 putative substrate binding site [chemical binding]; other site 435591004204 putative ATP binding site [chemical binding]; other site 435591004205 Periplasmic binding domain of two-component sensor kinase signaling systems; Region: PBP1_sensor_kinase_like; cd06308 435591004206 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 435591004207 putative ligand binding site [chemical binding]; other site 435591004208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591004209 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591004210 dimer interface [polypeptide binding]; other site 435591004211 phosphorylation site [posttranslational modification] 435591004212 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 435591004213 ATP binding site [chemical binding]; other site 435591004214 Mg2+ binding site [ion binding]; other site 435591004215 G-X-G motif; other site 435591004216 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 435591004217 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 435591004218 active site 435591004219 phosphorylation site [posttranslational modification] 435591004220 intermolecular recognition site; other site 435591004221 dimerization interface [polypeptide binding]; other site 435591004222 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591004223 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591004224 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 435591004225 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 435591004226 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 435591004227 active site 435591004228 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD; Region: Pro_isomerase; pfam00160 435591004229 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 435591004230 Peptidase family U32; Region: Peptidase_U32; pfam01136 435591004231 Collagenase; Region: DUF3656; pfam12392 435591004232 Homoserine O-succinyltransferase; Region: HTS; pfam04204 435591004233 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 435591004234 proposed active site lysine [active] 435591004235 conserved cys residue [active] 435591004236 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 435591004237 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 435591004238 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591004239 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591004240 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 435591004241 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 435591004242 active site 435591004243 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 435591004244 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 435591004245 NAD(P) binding site [chemical binding]; other site 435591004246 homotetramer interface [polypeptide binding]; other site 435591004247 homodimer interface [polypeptide binding]; other site 435591004248 active site 435591004249 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 435591004250 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 435591004251 dimer interface [polypeptide binding]; other site 435591004252 active site 435591004253 CoA binding pocket [chemical binding]; other site 435591004254 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435591004255 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435591004256 Thermus thermophiles TTHB029 and similar proteins; Region: YdjC_TTHB029_like; cd10802 435591004257 putative active site [active] 435591004258 YdjC motif; other site 435591004259 Mg binding site [ion binding]; other site 435591004260 homodimer interface [polypeptide binding]; other site 435591004261 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 435591004262 Beta-lactamase; Region: Beta-lactamase; pfam00144 435591004263 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 435591004264 CoenzymeA binding site [chemical binding]; other site 435591004265 subunit interaction site [polypeptide binding]; other site 435591004266 PHB binding site; other site 435591004267 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435591004268 active site 435591004269 xanthine permease; Region: pbuX; TIGR03173 435591004270 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 435591004271 putative catalytic site [active] 435591004272 putative metal binding site [ion binding]; other site 435591004273 putative phosphate binding site [ion binding]; other site 435591004274 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591004275 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 435591004276 active site 435591004277 metal binding site [ion binding]; metal-binding site 435591004278 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 435591004279 active site 435591004280 metal binding site [ion binding]; metal-binding site 435591004281 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 435591004282 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 435591004283 tetramer interface [polypeptide binding]; other site 435591004284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591004285 catalytic residue [active] 435591004286 MG2 domain; Region: A2M_N; pfam01835 435591004287 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 435591004288 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591004289 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 (16,20)...; Region: OM_channels; cl17244 435591004290 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591004291 VirE N-terminal domain; Region: VirE_N; pfam08800 435591004292 Virulence-associated protein E; Region: VirE; pfam05272 435591004293 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591004294 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 435591004295 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591004296 SusD family; Region: SusD; pfam07980 435591004297 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591004298 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591004299 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591004300 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591004301 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 (16,20)...; Region: OM_channels; cl17244 435591004302 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 435591004303 Domain of unknown function DUF302; Region: DUF302; cl01364 435591004304 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 435591004305 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 435591004306 active site 435591004307 ADP/pyrophosphate binding site [chemical binding]; other site 435591004308 dimerization interface [polypeptide binding]; other site 435591004309 allosteric effector site; other site 435591004310 fructose-1,6-bisphosphate binding site; other site 435591004311 Predicted helicase [General function prediction only]; Region: COG4889 435591004312 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 435591004313 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 435591004314 ATP binding site [chemical binding]; other site 435591004315 putative Mg++ binding site [ion binding]; other site 435591004316 helicase superfamily c-terminal domain; Region: HELICc; smart00490 435591004317 ATP-binding site [chemical binding]; other site 435591004318 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 435591004319 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 435591004320 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591004321 catalytic residues [active] 435591004322 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 435591004323 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 435591004324 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 435591004325 GGGtGRT protein; Region: GGGtGRT; pfam14057 435591004326 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 435591004327 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 435591004328 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 435591004329 Nitroreductase family; Region: Nitroreductase; pfam00881 435591004330 FMN binding site [chemical binding]; other site 435591004331 dimer interface [polypeptide binding]; other site 435591004332 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 435591004333 NlpE N-terminal domain; Region: NlpE; pfam04170 435591004334 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 435591004335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591004336 Walker A/P-loop; other site 435591004337 ATP binding site [chemical binding]; other site 435591004338 ABC transporter signature motif; other site 435591004339 Walker B; other site 435591004340 D-loop; other site 435591004341 H-loop/switch region; other site 435591004342 ABC transporter; Region: ABC_tran_2; pfam12848 435591004343 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591004344 putative hydrolase; Validated; Region: PRK09248 435591004345 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 435591004346 active site 435591004347 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 435591004348 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435591004349 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 435591004350 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 435591004351 TPR motif; other site 435591004352 binding surface 435591004353 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 435591004354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 435591004355 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 435591004356 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 435591004357 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 435591004358 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 435591004359 ABC-2 type transporter; Region: ABC2_membrane; cl17235 435591004360 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591004361 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591004362 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591004363 Outer membrane efflux protein; Region: OEP; pfam02321 435591004364 Outer membrane efflux protein; Region: OEP; pfam02321 435591004365 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 435591004366 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591004367 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 435591004368 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591004369 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 435591004370 phosphopeptide binding site; other site 435591004371 PAS domain; Region: PAS; smart00091 435591004372 PAS domain; Region: PAS_9; pfam13426 435591004373 PAS fold; Region: PAS_3; pfam08447 435591004374 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591004375 dimer interface [polypeptide binding]; other site 435591004376 phosphorylation site [posttranslational modification] 435591004377 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 435591004378 ATP binding site [chemical binding]; other site 435591004379 Mg2+ binding site [ion binding]; other site 435591004380 G-X-G motif; other site 435591004381 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591004382 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591004383 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 435591004384 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 435591004385 active site 435591004386 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 435591004387 ATP-NAD kinase; Region: NAD_kinase; pfam01513 435591004388 FOG: CBS domain [General function prediction only]; Region: COG0517 435591004389 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 435591004390 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 435591004391 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...; Region: PNPsynthase; cd00003 435591004392 active site 435591004393 hydrophilic channel; other site 435591004394 dimerization interface [polypeptide binding]; other site 435591004395 catalytic residues [active] 435591004396 active site lid [active] 435591004397 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 435591004398 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 435591004399 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 435591004400 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 435591004401 DJ-1 family protein; Region: not_thiJ; TIGR01383 435591004402 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 435591004403 conserved cys residue [active] 435591004404 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 435591004405 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 435591004406 active site 435591004407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591004408 active site 435591004409 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435591004410 EamA-like transporter family; Region: EamA; pfam00892 435591004411 EamA-like transporter family; Region: EamA; pfam00892 435591004412 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 435591004413 UbiA prenyltransferase family; Region: UbiA; pfam01040 435591004414 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 435591004415 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591004416 putative substrate translocation pore; other site 435591004417 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435591004418 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435591004419 DNA binding site [nucleotide binding] 435591004420 domain linker motif; other site 435591004421 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 435591004422 dimerization interface [polypeptide binding]; other site 435591004423 ligand binding site [chemical binding]; other site 435591004424 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591004425 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591004426 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591004427 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 (16,20)...; Region: OM_channels; cl17244 435591004428 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591004429 SusE outer membrane protein; Region: SusE; pfam14292 435591004430 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cl17376 435591004431 starch binding site [chemical binding]; other site 435591004432 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 435591004433 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591004434 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 435591004435 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 435591004436 active site 435591004437 Zn binding site [ion binding]; other site 435591004438 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 435591004439 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 435591004440 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 435591004441 active site 435591004442 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 435591004443 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 435591004444 catalytic site [active] 435591004445 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 435591004446 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435591004447 active site 435591004448 catalytic tetrad [active] 435591004449 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 435591004450 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 435591004451 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 435591004452 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 435591004453 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 435591004454 active site 435591004455 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 435591004456 active site 435591004457 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 435591004458 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 435591004459 active site 435591004460 DNA polymerase IV; Validated; Region: PRK02406 435591004461 DNA binding site [nucleotide binding] 435591004462 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591004463 bifunctional fucokinase/L-fucose-1-P-guanylyltransferase; Provisional; Region: fkp; PRK13412 435591004464 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 435591004465 multiple promoter invertase; Provisional; Region: mpi; PRK13413 435591004466 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 435591004467 catalytic residues [active] 435591004468 catalytic nucleophile [active] 435591004469 Presynaptic Site I dimer interface [polypeptide binding]; other site 435591004470 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 435591004471 Synaptic Flat tetramer interface [polypeptide binding]; other site 435591004472 Synaptic Site I dimer interface [polypeptide binding]; other site 435591004473 DNA binding site [nucleotide binding] 435591004474 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 435591004475 active site 435591004476 multimer interface [polypeptide binding]; other site 435591004477 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591004478 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 435591004479 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 435591004480 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 435591004481 active site 435591004482 homodimer interface [polypeptide binding]; other site 435591004483 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 435591004484 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591004485 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435591004486 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 435591004487 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 435591004488 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 435591004489 putative NAD(P) binding site [chemical binding]; other site 435591004490 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591004491 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591004492 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591004493 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 435591004494 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591004495 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591004496 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 435591004497 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591004498 active site 435591004499 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591004500 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 435591004501 Protein of unknown function DUF86; Region: DUF86; cl01031 435591004502 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435591004503 active site 435591004504 NTP binding site [chemical binding]; other site 435591004505 metal binding triad [ion binding]; metal-binding site 435591004506 antibiotic binding site [chemical binding]; other site 435591004507 VirE N-terminal domain; Region: VirE_N; pfam08800 435591004508 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 435591004509 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 435591004510 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591004511 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 435591004512 amidase catalytic site [active] 435591004513 Zn binding residues [ion binding]; other site 435591004514 substrate binding site [chemical binding]; other site 435591004515 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 435591004516 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 435591004517 Mg++ binding site [ion binding]; other site 435591004518 putative catalytic motif [active] 435591004519 substrate binding site [chemical binding]; other site 435591004520 Chain length determinant protein; Region: Wzz; cl15801 435591004521 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 435591004522 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 435591004523 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 435591004524 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435591004525 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 435591004526 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435591004527 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; cl17915 435591004528 active site 435591004529 motif I; other site 435591004530 motif II; other site 435591004531 aspartate aminotransferase; Provisional; Region: PRK06290 435591004532 Transcription antiterminator [Transcription]; Region: NusG; COG0250 435591004533 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435591004534 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 435591004535 homodimer interface [polypeptide binding]; other site 435591004536 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 435591004537 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591004538 active site 435591004539 DNA binding site [nucleotide binding] 435591004540 Int/Topo IB signature motif; other site 435591004541 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 435591004542 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 435591004543 active site 435591004544 Zn binding site [ion binding]; other site 435591004545 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 435591004546 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 435591004547 active site 435591004548 Zn binding site [ion binding]; other site 435591004549 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 435591004550 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 435591004551 FMN binding site [chemical binding]; other site 435591004552 substrate binding site [chemical binding]; other site 435591004553 putative catalytic residue [active] 435591004554 Outer membrane efflux protein; Region: OEP; pfam02321 435591004555 Outer membrane efflux protein; Region: OEP; pfam02321 435591004556 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 435591004557 Protein export membrane protein; Region: SecD_SecF; cl14618 435591004558 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591004559 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 435591004560 E3 interaction surface; other site 435591004561 lipoyl attachment site [posttranslational modification]; other site 435591004562 ribulose-1,5-biphosphate synthetase; Provisional; Region: PRK04176 435591004563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 435591004564 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 435591004565 ParB-like nuclease domain; Region: ParB; smart00470 435591004566 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 435591004567 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 435591004568 Active Sites [active] 435591004569 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 435591004570 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 435591004571 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 435591004572 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 435591004573 PAS domain; Region: PAS_9; pfam13426 435591004574 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591004575 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591004576 dimer interface [polypeptide binding]; other site 435591004577 phosphorylation site [posttranslational modification] 435591004578 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 435591004579 ATP binding site [chemical binding]; other site 435591004580 Mg2+ binding site [ion binding]; other site 435591004581 G-X-G motif; other site 435591004582 Response regulator receiver domain; Region: Response_reg; pfam00072 435591004583 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 435591004584 active site 435591004585 phosphorylation site [posttranslational modification] 435591004586 intermolecular recognition site; other site 435591004587 dimerization interface [polypeptide binding]; other site 435591004588 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591004589 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591004590 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591004591 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591004592 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591004593 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591004594 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591004595 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591004596 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591004597 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 (16,20)...; Region: OM_channels; cl17244 435591004598 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591004599 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591004600 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591004601 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591004602 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591004603 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591004604 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591004605 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 (16,20)...; Region: OM_channels; cl17244 435591004606 N-terminal catalytic domain of mainly uncharacterized eukaryotic proteins similar to alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_like_1; cd10791 435591004607 putative active site [active] 435591004608 catalytic site [active] 435591004609 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 435591004610 putative substrate translocation pore; other site 435591004611 glucose/galactose transporter; Region: gluP; TIGR01272 435591004612 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591004613 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591004614 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 435591004615 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435591004616 nucleotide binding site [chemical binding]; other site 435591004617 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 435591004618 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 435591004619 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435591004620 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 435591004621 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591004622 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 435591004623 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004624 FtsX-like permease family; Region: FtsX; pfam02687 435591004625 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 435591004626 FtsX-like permease family; Region: FtsX; pfam02687 435591004627 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004628 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 435591004629 FtsX-like permease family; Region: FtsX; pfam02687 435591004630 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004631 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 435591004632 FtsX-like permease family; Region: FtsX; pfam02687 435591004633 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004634 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004635 FtsX-like permease family; Region: FtsX; pfam02687 435591004636 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004637 FtsX-like permease family; Region: FtsX; pfam02687 435591004638 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004639 FtsX-like permease family; Region: FtsX; pfam02687 435591004640 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 435591004641 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435591004642 Walker A/P-loop; other site 435591004643 ATP binding site [chemical binding]; other site 435591004644 Q-loop/lid; other site 435591004645 ABC transporter signature motif; other site 435591004646 Walker B; other site 435591004647 D-loop; other site 435591004648 H-loop/switch region; other site 435591004649 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591004650 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591004651 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591004652 DNA binding residues [nucleotide binding] 435591004653 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 435591004654 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 435591004655 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 435591004656 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 435591004657 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 435591004658 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 435591004659 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 435591004660 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 435591004661 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 435591004662 dimer interface [polypeptide binding]; other site 435591004663 conserved gate region; other site 435591004664 putative PBP binding loops; other site 435591004665 ABC-ATPase subunit interface; other site 435591004666 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 435591004667 dimer interface [polypeptide binding]; other site 435591004668 conserved gate region; other site 435591004669 putative PBP binding loops; other site 435591004670 ABC-ATPase subunit interface; other site 435591004671 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 435591004672 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 435591004673 Walker A/P-loop; other site 435591004674 ATP binding site [chemical binding]; other site 435591004675 Q-loop/lid; other site 435591004676 ABC transporter signature motif; other site 435591004677 Walker B; other site 435591004678 D-loop; other site 435591004679 H-loop/switch region; other site 435591004680 TOBE domain; Region: TOBE_2; pfam08402 435591004681 TOBE domain; Region: TOBE_2; pfam08402 435591004682 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 435591004683 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 435591004684 fumarate hydratase; Reviewed; Region: fumC; PRK00485 435591004685 Class II fumarases; Region: Fumarase_classII; cd01362 435591004686 active site 435591004687 tetramer interface [polypeptide binding]; other site 435591004688 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 435591004689 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 435591004690 Ligand binding site; other site 435591004691 Putative Catalytic site; other site 435591004692 DXD motif; other site 435591004693 Predicted membrane protein [Function unknown]; Region: COG2246 435591004694 GtrA-like protein; Region: GtrA; pfam04138 435591004695 Ureide permease; Region: Ureide_permease; pfam07168 435591004696 Ureide permease; Region: Ureide_permease; pfam07168 435591004697 NH_2: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_2; cd02652 435591004698 active site 435591004699 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 435591004700 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435591004701 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 435591004702 substrate binding site [chemical binding]; other site 435591004703 dimer interface [polypeptide binding]; other site 435591004704 ATP binding site [chemical binding]; other site 435591004705 Predicted transcriptional regulators [Transcription]; Region: COG1733 435591004706 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 435591004707 intracellular protease, PfpI family; Region: PfpI; TIGR01382 435591004708 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 435591004709 conserved cys residue [active] 435591004710 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591004711 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 435591004712 FtsX-like permease family; Region: FtsX; pfam02687 435591004713 FtsX-like permease family; Region: FtsX; pfam02687 435591004714 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 435591004715 active site 435591004716 catalytic residues [active] 435591004717 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 435591004718 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 435591004719 putative substrate translocation pore; other site 435591004720 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 435591004721 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 435591004722 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 435591004723 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 435591004724 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 435591004725 nudix motif; other site 435591004726 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 435591004727 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 435591004728 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 435591004729 TPP-binding site [chemical binding]; other site 435591004730 dimer interface [polypeptide binding]; other site 435591004731 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 435591004732 PYR/PP interface [polypeptide binding]; other site 435591004733 dimer interface [polypeptide binding]; other site 435591004734 TPP binding site [chemical binding]; other site 435591004735 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 435591004736 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 435591004737 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 435591004738 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 435591004739 active site 435591004740 catalytic residues [active] 435591004741 metal binding site [ion binding]; metal-binding site 435591004742 homodimer binding site [polypeptide binding]; other site 435591004743 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 435591004744 putative catalytic site [active] 435591004745 putative metal binding site [ion binding]; other site 435591004746 putative phosphate binding site [ion binding]; other site 435591004747 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 435591004748 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 435591004749 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; pfam03663 435591004750 Sulfatase; Region: Sulfatase; cl17466 435591004751 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591004752 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591004753 Sulfatase; Region: Sulfatase; pfam00884 435591004754 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591004755 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591004756 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591004757 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591004758 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591004759 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591004760 FecR protein; Region: FecR; pfam04773 435591004761 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591004762 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591004763 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591004764 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591004765 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591004766 DNA binding residues [nucleotide binding] 435591004767 FecR protein; Region: FecR; pfam04773 435591004768 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591004769 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591004770 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591004771 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591004772 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591004773 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591004774 SusD family; Region: SusD; pfam07980 435591004775 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 435591004776 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591004777 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591004778 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591004779 DNA binding residues [nucleotide binding] 435591004780 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 435591004781 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 435591004782 active site 435591004783 putative interdomain interaction site [polypeptide binding]; other site 435591004784 putative metal-binding site [ion binding]; other site 435591004785 putative nucleotide binding site [chemical binding]; other site 435591004786 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 435591004787 domain I; other site 435591004788 DNA binding groove [nucleotide binding] 435591004789 phosphate binding site [ion binding]; other site 435591004790 domain II; other site 435591004791 domain III; other site 435591004792 nucleotide binding site [chemical binding]; other site 435591004793 catalytic site [active] 435591004794 domain IV; other site 435591004795 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 435591004796 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 435591004797 nudix motif; other site 435591004798 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591004799 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 435591004800 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 435591004801 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 435591004802 active site 435591004803 substrate binding site [chemical binding]; other site 435591004804 metal binding site [ion binding]; metal-binding site 435591004805 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 435591004806 DHH family; Region: DHH; pfam01368 435591004807 DHHA1 domain; Region: DHHA1; pfam02272 435591004808 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 435591004809 Competence protein; Region: Competence; pfam03772 435591004810 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 435591004811 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 435591004812 substrate binding site [chemical binding]; other site 435591004813 hexamer interface [polypeptide binding]; other site 435591004814 metal binding site [ion binding]; metal-binding site 435591004815 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 435591004816 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591004817 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591004818 DNA binding residues [nucleotide binding] 435591004819 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 435591004820 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 435591004821 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 435591004822 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 435591004823 Ligand Binding Site [chemical binding]; other site 435591004824 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 435591004825 FMN binding site [chemical binding]; other site 435591004826 dimer interface [polypeptide binding]; other site 435591004827 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 435591004828 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 435591004829 active site 435591004830 homodimer interface [polypeptide binding]; other site 435591004831 Predicted membrane protein [Function unknown]; Region: COG2860 435591004832 UPF0126 domain; Region: UPF0126; pfam03458 435591004833 UPF0126 domain; Region: UPF0126; pfam03458 435591004834 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 435591004835 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 435591004836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591004837 Walker A/P-loop; other site 435591004838 ATP binding site [chemical binding]; other site 435591004839 Q-loop/lid; other site 435591004840 ABC transporter signature motif; other site 435591004841 Walker B; other site 435591004842 D-loop; other site 435591004843 H-loop/switch region; other site 435591004844 ABC transporter; Region: ABC_tran_2; pfam12848 435591004845 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591004846 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 435591004847 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 435591004848 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 435591004849 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 435591004850 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591004851 catalytic residues [active] 435591004852 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 435591004853 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591004854 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591004855 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 435591004856 ligand binding site [chemical binding]; other site 435591004857 flexible hinge region; other site 435591004858 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591004859 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 435591004860 ligand binding site [chemical binding]; other site 435591004861 flexible hinge region; other site 435591004862 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 435591004863 hybrid cluster protein; Provisional; Region: PRK05290 435591004864 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 435591004865 ACS interaction site; other site 435591004866 CODH interaction site; other site 435591004867 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 435591004868 hybrid metal cluster; other site 435591004869 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 435591004870 dimer interface [polypeptide binding]; other site 435591004871 pyridoxal binding site [chemical binding]; other site 435591004872 ATP binding site [chemical binding]; other site 435591004873 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 435591004874 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 435591004875 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 435591004876 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 435591004877 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 435591004878 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 435591004879 ligand binding site [chemical binding]; other site 435591004880 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 435591004881 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 435591004882 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 435591004883 active site 435591004884 catalytic site [active] 435591004885 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 435591004886 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 435591004887 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 435591004888 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 435591004889 putative FMN binding site [chemical binding]; other site 435591004890 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 435591004891 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591004892 Walker A/P-loop; other site 435591004893 ATP binding site [chemical binding]; other site 435591004894 Q-loop/lid; other site 435591004895 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591004896 Q-loop/lid; other site 435591004897 ABC transporter signature motif; other site 435591004898 Walker B; other site 435591004899 D-loop; other site 435591004900 H-loop/switch region; other site 435591004901 exonuclease subunit SbcD; Provisional; Region: PRK10966 435591004902 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 435591004903 active site 435591004904 metal binding site [ion binding]; metal-binding site 435591004905 DNA binding site [nucleotide binding] 435591004906 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 435591004907 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591004908 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591004909 dimer interface [polypeptide binding]; other site 435591004910 phosphorylation site [posttranslational modification] 435591004911 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 435591004912 ATP binding site [chemical binding]; other site 435591004913 Mg2+ binding site [ion binding]; other site 435591004914 G-X-G motif; other site 435591004915 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591004916 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 435591004917 Malic enzyme, N-terminal domain; Region: malic; pfam00390 435591004918 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 435591004919 putative NAD(P) binding site [chemical binding]; other site 435591004920 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 435591004921 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_9; cd12170 435591004922 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 435591004923 putative ligand binding site [chemical binding]; other site 435591004924 putative NAD binding site [chemical binding]; other site 435591004925 Protein of unknown function (DUF456); Region: DUF456; pfam04306 435591004926 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 435591004927 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591004928 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591004929 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591004930 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 435591004931 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 435591004932 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435591004933 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 435591004934 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 435591004935 tetramer interface [polypeptide binding]; other site 435591004936 heme binding pocket [chemical binding]; other site 435591004937 NADPH binding site [chemical binding]; other site 435591004938 Protein of unknown function (DUF454); Region: DUF454; cl01063 435591004939 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 435591004940 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 435591004941 putative active site [active] 435591004942 substrate binding site [chemical binding]; other site 435591004943 putative cosubstrate binding site; other site 435591004944 catalytic site [active] 435591004945 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 435591004946 substrate binding site [chemical binding]; other site 435591004947 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 435591004948 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 435591004949 Cl- selectivity filter; other site 435591004950 Cl- binding residues [ion binding]; other site 435591004951 pore gating glutamate residue; other site 435591004952 dimer interface [polypeptide binding]; other site 435591004953 FOG: CBS domain [General function prediction only]; Region: COG0517 435591004954 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 435591004955 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 435591004956 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435591004957 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 435591004958 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 435591004959 DHH family; Region: DHH; pfam01368 435591004960 DHHA1 domain; Region: DHHA1; pfam02272 435591004961 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 435591004962 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 435591004963 ATP binding site [chemical binding]; other site 435591004964 putative Mg++ binding site [ion binding]; other site 435591004965 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 435591004966 nucleotide binding region [chemical binding]; other site 435591004967 ATP-binding site [chemical binding]; other site 435591004968 Trehalose utilisation; Region: ThuA; pfam06283 435591004969 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 435591004970 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435591004971 nucleotide binding site [chemical binding]; other site 435591004972 putative transporter; Validated; Region: PRK03818 435591004973 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 435591004974 TrkA-C domain; Region: TrkA_C; pfam02080 435591004975 TrkA-C domain; Region: TrkA_C; pfam02080 435591004976 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 435591004977 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 435591004978 active site 435591004979 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 435591004980 Glycosyl hydrolase family 43; Region: GH43_bXyl_2; cd08991 435591004981 active site 435591004982 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 435591004983 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435591004984 DNA repair protein RadA; Provisional; Region: PRK11823 435591004985 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 435591004986 Walker A motif; other site 435591004987 ATP binding site [chemical binding]; other site 435591004988 Walker B motif; other site 435591004989 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 435591004990 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 435591004991 catalytic nucleophile [active] 435591004992 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591004993 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591004994 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 435591004995 active site 435591004996 Mn binding site [ion binding]; other site 435591004997 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 435591004998 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 435591004999 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 435591005000 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 435591005001 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 435591005002 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591005003 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591005004 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591005005 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591005006 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591005007 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 (16,20)...; Region: OM_channels; cl17244 435591005008 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591005009 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591005010 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591005011 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591005012 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 (16,20)...; Region: OM_channels; cl17244 435591005013 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 435591005014 Peptidase family M28; Region: Peptidase_M28; pfam04389 435591005015 metal binding site [ion binding]; metal-binding site 435591005016 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 435591005017 active site clefts [active] 435591005018 zinc binding site [ion binding]; other site 435591005019 dimer interface [polypeptide binding]; other site 435591005020 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 435591005021 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 435591005022 active site 435591005023 motif I; other site 435591005024 motif II; other site 435591005025 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 435591005026 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 435591005027 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435591005028 active site 435591005029 catalytic tetrad [active] 435591005030 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 435591005031 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 435591005032 AAA domain; Region: AAA_14; pfam13173 435591005033 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 435591005034 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 435591005035 homodimer interface [polypeptide binding]; other site 435591005036 substrate-cofactor binding pocket; other site 435591005037 catalytic residue [active] 435591005038 Part of AAA domain; Region: AAA_19; pfam13245 435591005039 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 435591005040 AAA domain; Region: AAA_12; pfam13087 435591005041 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 435591005042 FAD binding site [chemical binding]; other site 435591005043 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 435591005044 DNA polymerase III subunit delta'; Validated; Region: PRK08485 435591005045 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 435591005046 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591005047 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 435591005048 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 435591005049 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 435591005050 Cl- selectivity filter; other site 435591005051 Cl- binding residues [ion binding]; other site 435591005052 pore gating glutamate residue; other site 435591005053 dimer interface [polypeptide binding]; other site 435591005054 H+/Cl- coupling transport residue; other site 435591005055 TrkA-C domain; Region: TrkA_C; pfam02080 435591005056 Porin subfamily; Region: Porin_2; pfam02530 435591005057 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 435591005058 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 435591005059 Outer membrane efflux protein; Region: OEP; pfam02321 435591005060 Outer membrane efflux protein; Region: OEP; pfam02321 435591005061 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591005062 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591005063 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 435591005064 metal-binding site [ion binding] 435591005065 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 435591005066 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 435591005067 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 435591005068 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 435591005069 substrate binding pocket [chemical binding]; other site 435591005070 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 435591005071 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 435591005072 active site 435591005073 metal binding site [ion binding]; metal-binding site 435591005074 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 435591005075 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 435591005076 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 435591005077 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 435591005078 4Fe-4S binding domain; Region: Fer4; pfam00037 435591005079 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 435591005080 4Fe-4S binding domain; Region: Fer4; cl02805 435591005081 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 435591005082 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591005083 catalytic residues [active] 435591005084 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 435591005085 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 435591005086 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 435591005087 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 435591005088 dimer interface [polypeptide binding]; other site 435591005089 PYR/PP interface [polypeptide binding]; other site 435591005090 TPP binding site [chemical binding]; other site 435591005091 substrate binding site [chemical binding]; other site 435591005092 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 435591005093 TPP-binding site; other site 435591005094 YceG-like family; Region: YceG; pfam02618 435591005095 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 435591005096 dimerization interface [polypeptide binding]; other site 435591005097 multiple promoter invertase; Provisional; Region: mpi; PRK13413 435591005098 Resolvase, N terminal domain; Region: Resolvase; smart00857 435591005099 catalytic residues [active] 435591005100 catalytic nucleophile [active] 435591005101 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 435591005102 CoA binding domain; Region: CoA_binding_2; pfam13380 435591005103 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 435591005104 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 435591005105 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 435591005106 G1 box; other site 435591005107 GTP/Mg2+ binding site [chemical binding]; other site 435591005108 G2 box; other site 435591005109 Switch I region; other site 435591005110 G3 box; other site 435591005111 Switch II region; other site 435591005112 G4 box; other site 435591005113 G5 box; other site 435591005114 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 435591005115 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 435591005116 Acylphosphatase; Region: Acylphosphatase; pfam00708 435591005117 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 435591005118 HypF finger; Region: zf-HYPF; pfam07503 435591005119 HypF finger; Region: zf-HYPF; pfam07503 435591005120 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 435591005121 HupF/HypC family; Region: HupF_HypC; pfam01455 435591005122 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 435591005123 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 435591005124 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 435591005125 dimerization interface [polypeptide binding]; other site 435591005126 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 435591005127 ATP binding site [chemical binding]; other site 435591005128 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 435591005129 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 435591005130 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 435591005131 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 435591005132 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 435591005133 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; cl00859 435591005134 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 435591005135 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 435591005136 putative substrate-binding site; other site 435591005137 nickel binding site [ion binding]; other site 435591005138 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 435591005139 amphipathic channel; other site 435591005140 Asn-Pro-Ala signature motifs; other site 435591005141 glycerol kinase; Provisional; Region: glpK; PRK00047 435591005142 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 435591005143 N- and C-terminal domain interface [polypeptide binding]; other site 435591005144 active site 435591005145 MgATP binding site [chemical binding]; other site 435591005146 catalytic site [active] 435591005147 metal binding site [ion binding]; metal-binding site 435591005148 glycerol binding site [chemical binding]; other site 435591005149 homotetramer interface [polypeptide binding]; other site 435591005150 homodimer interface [polypeptide binding]; other site 435591005151 FBP binding site [chemical binding]; other site 435591005152 protein IIAGlc interface [polypeptide binding]; other site 435591005153 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 435591005154 Transglycosylase; Region: Transgly; pfam00912 435591005155 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 435591005156 Predicted membrane protein [Function unknown]; Region: COG2855 435591005157 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435591005158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435591005159 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 435591005160 putative dimerization interface [polypeptide binding]; other site 435591005161 AhpC/TSA family; Region: AhpC-TSA; pfam00578 435591005162 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591005163 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 435591005164 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591005165 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 435591005166 ATP binding site [chemical binding]; other site 435591005167 Mg2+ binding site [ion binding]; other site 435591005168 G-X-G motif; other site 435591005169 Bifunctional nuclease; Region: DNase-RNase; pfam02577 435591005170 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 435591005171 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 435591005172 Nucleoside recognition; Region: Gate; pfam07670 435591005173 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 435591005174 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 435591005175 RNA methyltransferase, RsmE family; Region: TIGR00046 435591005176 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591005177 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 435591005178 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 435591005179 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 435591005180 ATP Binding subdomain [chemical binding]; other site 435591005181 Ligand Binding sites [chemical binding]; other site 435591005182 Dimerization subdomain; other site 435591005183 GMP synthase; Reviewed; Region: guaA; PRK00074 435591005184 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 435591005185 AMP/PPi binding site [chemical binding]; other site 435591005186 candidate oxyanion hole; other site 435591005187 catalytic triad [active] 435591005188 potential glutamine specificity residues [chemical binding]; other site 435591005189 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 435591005190 ATP Binding subdomain [chemical binding]; other site 435591005191 Ligand Binding sites [chemical binding]; other site 435591005192 Dimerization subdomain; other site 435591005193 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 435591005194 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 435591005195 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 435591005196 NAD binding site [chemical binding]; other site 435591005197 substrate binding site [chemical binding]; other site 435591005198 homodimer interface [polypeptide binding]; other site 435591005199 active site 435591005200 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 435591005201 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 435591005202 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 435591005203 NAD(P) binding site [chemical binding]; other site 435591005204 homodimer interface [polypeptide binding]; other site 435591005205 substrate binding site [chemical binding]; other site 435591005206 active site 435591005207 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435591005208 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 435591005209 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 435591005210 inhibitor-cofactor binding pocket; inhibition site 435591005211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591005212 catalytic residue [active] 435591005213 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435591005214 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 435591005215 active site 435591005216 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 435591005217 LicD family; Region: LicD; pfam04991 435591005218 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 435591005219 substrate binding site; other site 435591005220 dimer interface; other site 435591005221 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 435591005222 classical (c) SDRs; Region: SDR_c; cd05233 435591005223 NAD(P) binding site [chemical binding]; other site 435591005224 active site 435591005225 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591005226 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591005227 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435591005228 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 435591005229 active site 435591005230 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 435591005231 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 435591005232 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 435591005233 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 435591005234 DNA primase, catalytic core; Region: dnaG; TIGR01391 435591005235 CHC2 zinc finger; Region: zf-CHC2; pfam01807 435591005236 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 435591005237 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 435591005238 active site 435591005239 metal binding site [ion binding]; metal-binding site 435591005240 interdomain interaction site; other site 435591005241 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 435591005242 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 435591005243 Walker A/P-loop; other site 435591005244 ATP binding site [chemical binding]; other site 435591005245 Q-loop/lid; other site 435591005246 ABC transporter signature motif; other site 435591005247 Walker B; other site 435591005248 D-loop; other site 435591005249 H-loop/switch region; other site 435591005250 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 435591005251 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 435591005252 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 435591005253 FtsH Extracellular; Region: FtsH_ext; pfam06480 435591005254 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 435591005255 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591005256 Walker A motif; other site 435591005257 ATP binding site [chemical binding]; other site 435591005258 Walker B motif; other site 435591005259 arginine finger; other site 435591005260 Peptidase family M41; Region: Peptidase_M41; pfam01434 435591005261 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 435591005262 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 435591005263 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591005264 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 435591005265 transcription antitermination factor NusB; Region: nusB; TIGR01951 435591005266 Preprotein translocase subunit; Region: YajC; pfam02699 435591005267 YbbR-like protein; Region: YbbR; pfam07949 435591005268 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 435591005269 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 435591005270 CoA-binding site [chemical binding]; other site 435591005271 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 435591005272 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435591005273 nucleotide binding site [chemical binding]; other site 435591005274 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 435591005275 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 435591005276 putative active site cavity [active] 435591005277 Pyruvate formate lyase; Region: PFL; pfam02901 435591005278 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 435591005279 Glycine radical; Region: Gly_radical; pfam01228 435591005280 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 435591005281 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 435591005282 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 435591005283 FeS/SAM binding site; other site 435591005284 maltose O-acetyltransferase; Provisional; Region: PRK10092 435591005285 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 435591005286 active site 435591005287 substrate binding site [chemical binding]; other site 435591005288 trimer interface [polypeptide binding]; other site 435591005289 CoA binding site [chemical binding]; other site 435591005290 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435591005291 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591005292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591005293 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591005294 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591005295 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591005296 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435591005297 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 435591005298 putative catalytic site [active] 435591005299 putative metal binding site [ion binding]; other site 435591005300 putative phosphate binding site [ion binding]; other site 435591005301 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 435591005302 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591005303 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591005304 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435591005305 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 435591005306 Found in ATP-dependent protease La (LON); Region: LON; smart00464 435591005307 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591005308 Walker A motif; other site 435591005309 ATP binding site [chemical binding]; other site 435591005310 Walker B motif; other site 435591005311 arginine finger; other site 435591005312 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 435591005313 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 435591005314 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 435591005315 S-adenosylmethionine binding site [chemical binding]; other site 435591005316 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 435591005317 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 435591005318 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 435591005319 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); Region: KBL_like; cd06454 435591005320 substrate-cofactor binding pocket; other site 435591005321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591005322 catalytic residue [active] 435591005323 PSP1 C-terminal conserved region; Region: PSP1; cl00770 435591005324 GldH lipoprotein; Region: GldH_lipo; cl11905 435591005325 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 435591005326 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 435591005327 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 435591005328 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 435591005329 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 435591005330 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 435591005331 rod shape-determining protein MreC; Provisional; Region: PRK13922 435591005332 rod shape-determining protein MreC; Region: MreC; pfam04085 435591005333 rod shape-determining protein MreB; Provisional; Region: PRK13927 435591005334 MreB and similar proteins; Region: MreB_like; cd10225 435591005335 nucleotide binding site [chemical binding]; other site 435591005336 Mg binding site [ion binding]; other site 435591005337 putative protofilament interaction site [polypeptide binding]; other site 435591005338 RodZ interaction site [polypeptide binding]; other site 435591005339 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 435591005340 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 435591005341 purine monophosphate binding site [chemical binding]; other site 435591005342 dimer interface [polypeptide binding]; other site 435591005343 putative catalytic residues [active] 435591005344 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 435591005345 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 435591005346 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435591005347 active site 435591005348 NTP binding site [chemical binding]; other site 435591005349 metal binding triad [ion binding]; metal-binding site 435591005350 antibiotic binding site [chemical binding]; other site 435591005351 BRO family, N-terminal domain; Region: Bro-N; smart01040 435591005352 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 435591005353 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591005354 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591005355 ABC transporter; Region: ABC_tran_2; pfam12848 435591005356 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591005357 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 435591005358 Sulfatase; Region: Sulfatase; pfam00884 435591005359 phosphodiesterase; Provisional; Region: PRK12704 435591005360 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435591005361 Zn2+ binding site [ion binding]; other site 435591005362 Mg2+ binding site [ion binding]; other site 435591005363 Cell division protein ZapA; Region: ZapA; pfam05164 435591005364 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 435591005365 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 435591005366 B3/4 domain; Region: B3_4; pfam03483 435591005367 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 435591005368 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 435591005369 GTPase CgtA; Reviewed; Region: obgE; PRK12298 435591005370 GTP1/OBG; Region: GTP1_OBG; pfam01018 435591005371 Obg GTPase; Region: Obg; cd01898 435591005372 G1 box; other site 435591005373 GTP/Mg2+ binding site [chemical binding]; other site 435591005374 Switch I region; other site 435591005375 G2 box; other site 435591005376 G3 box; other site 435591005377 Switch II region; other site 435591005378 G4 box; other site 435591005379 G5 box; other site 435591005380 adenylate kinase; Reviewed; Region: adk; PRK00279 435591005381 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 435591005382 AMP-binding site [chemical binding]; other site 435591005383 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 435591005384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435591005385 active site 435591005386 putative carbohydrate kinase; Provisional; Region: PRK10565 435591005387 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 435591005388 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 435591005389 putative substrate binding site [chemical binding]; other site 435591005390 putative ATP binding site [chemical binding]; other site 435591005391 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591005392 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591005393 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 435591005394 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591005395 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591005396 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435591005397 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591005398 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591005399 FecR protein; Region: FecR; pfam04773 435591005400 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591005401 DNA binding residues [nucleotide binding] 435591005402 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591005403 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591005404 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591005405 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591005406 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 (16,20)...; Region: OM_channels; cl17244 435591005407 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591005408 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591005409 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591005410 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 435591005411 putative catalytic site [active] 435591005412 putative metal binding site [ion binding]; other site 435591005413 putative phosphate binding site [ion binding]; other site 435591005414 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 435591005415 putative substrate translocation pore; other site 435591005416 POT family; Region: PTR2; cl17359 435591005417 biotin synthase; Region: bioB; TIGR00433 435591005418 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 435591005419 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 435591005420 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 435591005421 inhibitor-cofactor binding pocket; inhibition site 435591005422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591005423 catalytic residue [active] 435591005424 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 435591005425 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 435591005426 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435591005427 catalytic residue [active] 435591005428 Protein of unknown function (DUF452); Region: DUF452; cl01062 435591005429 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 435591005430 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 435591005431 S-adenosylmethionine binding site [chemical binding]; other site 435591005432 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 435591005433 AAA domain; Region: AAA_26; pfam13500 435591005434 Uncharacterized conserved protein [Function unknown]; Region: COG3339 435591005435 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591005436 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591005437 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591005438 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591005439 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591005440 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591005441 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591005442 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591005443 Predicted membrane protein [Function unknown]; Region: COG3059 435591005444 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591005445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591005446 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 435591005447 catalytic residues [active] 435591005448 short chain dehydrogenase; Provisional; Region: PRK07856 435591005449 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 435591005450 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591005451 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591005452 DNA binding residues [nucleotide binding] 435591005453 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005454 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005455 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435591005456 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 435591005457 active site 435591005458 phosphorylation site [posttranslational modification] 435591005459 intermolecular recognition site; other site 435591005460 dimerization interface [polypeptide binding]; other site 435591005461 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 435591005462 DNA binding site [nucleotide binding] 435591005463 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591005464 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591005465 dimer interface [polypeptide binding]; other site 435591005466 phosphorylation site [posttranslational modification] 435591005467 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 435591005468 ATP binding site [chemical binding]; other site 435591005469 Mg2+ binding site [ion binding]; other site 435591005470 G-X-G motif; other site 435591005471 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005472 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005473 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005474 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005475 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005476 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005477 Protein of unknown function (DUF3256); Region: DUF3256; pfam11644 435591005478 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 435591005479 EamA-like transporter family; Region: EamA; cl17759 435591005480 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 435591005481 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 435591005482 dimerization interface 3.5A [polypeptide binding]; other site 435591005483 active site 435591005484 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 435591005485 putative transporter; Validated; Region: PRK03818 435591005486 TrkA-C domain; Region: TrkA_C; pfam02080 435591005487 TrkA-C domain; Region: TrkA_C; pfam02080 435591005488 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 435591005489 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 435591005490 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 435591005491 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 435591005492 Protein of unknown function (DUF419); Region: DUF419; pfam04237 435591005493 AAA domain; Region: AAA_30; pfam13604 435591005494 Family description; Region: UvrD_C_2; pfam13538 435591005495 HRDC domain; Region: HRDC; pfam00570 435591005496 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 435591005497 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591005498 putative substrate translocation pore; other site 435591005499 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 435591005500 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 435591005501 Zn binding site [ion binding]; other site 435591005502 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 435591005503 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 435591005504 intersubunit interface [polypeptide binding]; other site 435591005505 active site 435591005506 zinc binding site [ion binding]; other site 435591005507 Na+ binding site [ion binding]; other site 435591005508 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 435591005509 Phosphotransferase enzyme family; Region: APH; pfam01636 435591005510 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 435591005511 HAMP domain; Region: HAMP; pfam00672 435591005512 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 435591005513 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 435591005514 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 435591005515 ATP binding site [chemical binding]; other site 435591005516 Mg2+ binding site [ion binding]; other site 435591005517 G-X-G motif; other site 435591005518 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 435591005519 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 435591005520 active site 435591005521 phosphorylation site [posttranslational modification] 435591005522 intermolecular recognition site; other site 435591005523 dimerization interface [polypeptide binding]; other site 435591005524 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591005525 Walker A motif; other site 435591005526 ATP binding site [chemical binding]; other site 435591005527 Walker B motif; other site 435591005528 arginine finger; other site 435591005529 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435591005530 Outer membrane efflux protein; Region: OEP; pfam02321 435591005531 Outer membrane efflux protein; Region: OEP; pfam02321 435591005532 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591005533 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 435591005534 active site 435591005535 phosphorylation site [posttranslational modification] 435591005536 intermolecular recognition site; other site 435591005537 dimerization interface [polypeptide binding]; other site 435591005538 LytTr DNA-binding domain; Region: LytTR; smart00850 435591005539 Histidine kinase; Region: His_kinase; pfam06580 435591005540 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 435591005541 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 435591005542 PAP2_like_5 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_5; cd03394 435591005543 active site 435591005544 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005545 FtsX-like permease family; Region: FtsX; pfam02687 435591005546 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005547 FtsX-like permease family; Region: FtsX; pfam02687 435591005548 FtsX-like permease family; Region: FtsX; pfam02687 435591005549 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005550 FtsX-like permease family; Region: FtsX; pfam02687 435591005551 FtsX-like permease family; Region: FtsX; pfam02687 435591005552 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005553 FtsX-like permease family; Region: FtsX; pfam02687 435591005554 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005555 FtsX-like permease family; Region: FtsX; pfam02687 435591005556 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005557 FtsX-like permease family; Region: FtsX; pfam02687 435591005558 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 435591005559 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 435591005560 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435591005561 Walker A/P-loop; other site 435591005562 ATP binding site [chemical binding]; other site 435591005563 Q-loop/lid; other site 435591005564 ABC transporter signature motif; other site 435591005565 Walker B; other site 435591005566 D-loop; other site 435591005567 H-loop/switch region; other site 435591005568 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005569 FtsX-like permease family; Region: FtsX; pfam02687 435591005570 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005571 FtsX-like permease family; Region: FtsX; pfam02687 435591005572 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 435591005573 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005574 FtsX-like permease family; Region: FtsX; pfam02687 435591005575 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005576 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 435591005577 FtsX-like permease family; Region: FtsX; pfam02687 435591005578 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 435591005579 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591005580 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005581 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005582 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005583 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591005584 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591005585 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591005586 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 435591005587 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 435591005588 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 435591005589 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 435591005590 catalytic residues [active] 435591005591 threonine dehydratase; Provisional; Region: PRK08198 435591005592 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 435591005593 tetramer interface [polypeptide binding]; other site 435591005594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591005595 catalytic residue [active] 435591005596 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 435591005597 Transcriptional regulators [Transcription]; Region: MarR; COG1846 435591005598 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 435591005599 metabolite-proton symporter; Region: 2A0106; TIGR00883 435591005600 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591005601 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 435591005602 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 (16,20)...; Region: OM_channels; cl17244 435591005603 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 435591005604 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 435591005605 putative ADP-ribose binding site [chemical binding]; other site 435591005606 putative active site [active] 435591005607 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 435591005608 PhoH-like protein; Region: PhoH; pfam02562 435591005609 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 435591005610 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 435591005611 ATP binding site [chemical binding]; other site 435591005612 active site 435591005613 substrate binding site [chemical binding]; other site 435591005614 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 435591005615 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 435591005616 S-adenosylmethionine binding site [chemical binding]; other site 435591005617 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 435591005618 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 435591005619 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 435591005620 shikimate binding site; other site 435591005621 NAD(P) binding site [chemical binding]; other site 435591005622 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 435591005623 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 435591005624 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 435591005625 gliding motility-associated protein GldE; Region: GldE; TIGR03520 435591005626 Domain of unknown function DUF21; Region: DUF21; pfam01595 435591005627 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 435591005628 Transporter associated domain; Region: CorC_HlyC; smart01091 435591005629 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 435591005630 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 435591005631 dimer interface [polypeptide binding]; other site 435591005632 ssDNA binding site [nucleotide binding]; other site 435591005633 tetramer (dimer of dimers) interface [polypeptide binding]; other site 435591005634 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 435591005635 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 435591005636 minor groove reading motif; other site 435591005637 helix-hairpin-helix signature motif; other site 435591005638 substrate binding pocket [chemical binding]; other site 435591005639 active site 435591005640 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 435591005641 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 435591005642 DNA binding and oxoG recognition site [nucleotide binding] 435591005643 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 435591005644 IHF - DNA interface [nucleotide binding]; other site 435591005645 IHF dimer interface [polypeptide binding]; other site 435591005646 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 435591005647 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 435591005648 homodimer interface [polypeptide binding]; other site 435591005649 oligonucleotide binding site [chemical binding]; other site 435591005650 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 435591005651 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 435591005652 nucleotide binding site [chemical binding]; other site 435591005653 NEF interaction site [polypeptide binding]; other site 435591005654 SBD interface [polypeptide binding]; other site 435591005655 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 435591005656 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591005657 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591005658 dimer interface [polypeptide binding]; other site 435591005659 phosphorylation site [posttranslational modification] 435591005660 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 435591005661 ATP binding site [chemical binding]; other site 435591005662 Mg2+ binding site [ion binding]; other site 435591005663 G-X-G motif; other site 435591005664 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591005665 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591005666 dimer interface [polypeptide binding]; other site 435591005667 phosphorylation site [posttranslational modification] 435591005668 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 435591005669 ATP binding site [chemical binding]; other site 435591005670 Mg2+ binding site [ion binding]; other site 435591005671 G-X-G motif; other site 435591005672 muropeptide transporter; Reviewed; Region: ampG; PRK11902 435591005673 muropeptide transporter; Validated; Region: ampG; cl17669 435591005674 C-N hydrolase family amidase; Provisional; Region: PRK10438 435591005675 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 435591005676 putative active site [active] 435591005677 catalytic triad [active] 435591005678 dimer interface [polypeptide binding]; other site 435591005679 multimer interface [polypeptide binding]; other site 435591005680 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 435591005681 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 435591005682 putative acyl-acceptor binding pocket; other site 435591005683 U1 snRNP-specific protein C [RNA processing and modification]; Region: COG5136 435591005684 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 435591005685 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591005686 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 435591005687 putative homodimer interface [polypeptide binding]; other site 435591005688 putative active site pocket [active] 435591005689 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 435591005690 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 435591005691 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 435591005692 Putative esterase; Region: Esterase; pfam00756 435591005693 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 435591005694 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591005695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591005696 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 435591005697 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 435591005698 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 435591005699 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 435591005700 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_3; cd08975 435591005701 putative DNA binding site [nucleotide binding]; other site 435591005702 catalytic residue [active] 435591005703 putative H2TH interface [polypeptide binding]; other site 435591005704 putative catalytic residues [active] 435591005705 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 435591005706 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 435591005707 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 435591005708 non-specific DNA binding site [nucleotide binding]; other site 435591005709 salt bridge; other site 435591005710 sequence-specific DNA binding site [nucleotide binding]; other site 435591005711 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 435591005712 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 435591005713 putative active site [active] 435591005714 oxyanion strand; other site 435591005715 catalytic triad [active] 435591005716 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 435591005717 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 435591005718 catalytic residues [active] 435591005719 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 435591005720 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 435591005721 substrate binding site [chemical binding]; other site 435591005722 glutamase interaction surface [polypeptide binding]; other site 435591005723 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 435591005724 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 435591005725 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 435591005726 metal binding site [ion binding]; metal-binding site 435591005727 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 435591005728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591005729 Walker A/P-loop; other site 435591005730 ATP binding site [chemical binding]; other site 435591005731 Q-loop/lid; other site 435591005732 ABC transporter signature motif; other site 435591005733 Walker B; other site 435591005734 D-loop; other site 435591005735 H-loop/switch region; other site 435591005736 aspartate kinase III; Validated; Region: PRK09084 435591005737 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 435591005738 nucleotide binding site [chemical binding]; other site 435591005739 substrate binding site [chemical binding]; other site 435591005740 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 435591005741 dimer interface [polypeptide binding]; other site 435591005742 allosteric regulatory binding pocket; other site 435591005743 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 435591005744 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 435591005745 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 435591005746 active site 435591005747 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435591005748 substrate binding site [chemical binding]; other site 435591005749 catalytic residues [active] 435591005750 dimer interface [polypeptide binding]; other site 435591005751 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 435591005752 active site 435591005753 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 435591005754 additional DNA contacts [nucleotide binding]; other site 435591005755 mismatch recognition site; other site 435591005756 active site 435591005757 zinc binding site [ion binding]; other site 435591005758 DNA intercalation site [nucleotide binding]; other site 435591005759 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 435591005760 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591005761 FtsX-like permease family; Region: FtsX; pfam02687 435591005762 aspartate aminotransferase; Provisional; Region: PRK07568 435591005763 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 435591005764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591005765 homodimer interface [polypeptide binding]; other site 435591005766 catalytic residue [active] 435591005767 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 435591005768 Uncharacterized conserved protein [Function unknown]; Region: COG1284 435591005769 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 435591005770 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 435591005771 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 435591005772 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 435591005773 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591005774 putative substrate translocation pore; other site 435591005775 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 435591005776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591005777 Walker A/P-loop; other site 435591005778 ATP binding site [chemical binding]; other site 435591005779 Q-loop/lid; other site 435591005780 ABC transporter signature motif; other site 435591005781 Walker B; other site 435591005782 D-loop; other site 435591005783 H-loop/switch region; other site 435591005784 ABC transporter; Region: ABC_tran_2; pfam12848 435591005785 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435591005786 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 435591005787 ligand binding site [chemical binding]; other site 435591005788 active site 435591005789 UGI interface [polypeptide binding]; other site 435591005790 catalytic site [active] 435591005791 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 435591005792 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 435591005793 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 435591005794 DNA binding site [nucleotide binding] 435591005795 active site 435591005796 methionine sulfoxide reductase A; Provisional; Region: PRK14054 435591005797 methionine sulfoxide reductase B; Provisional; Region: PRK00222 435591005798 SelR domain; Region: SelR; pfam01641 435591005799 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591005800 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 435591005801 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 435591005802 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 435591005803 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435591005804 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 435591005805 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 435591005806 Predicted acetyltransferase [General function prediction only]; Region: COG2388 435591005807 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 435591005808 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435591005809 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591005810 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591005811 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591005812 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 435591005813 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591005814 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591005815 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 435591005816 HD domain; Region: HD_4; pfam13328 435591005817 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 435591005818 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 435591005819 synthetase active site [active] 435591005820 NTP binding site [chemical binding]; other site 435591005821 metal binding site [ion binding]; metal-binding site 435591005822 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 435591005823 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 435591005824 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 435591005825 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 435591005826 active site 435591005827 NTP binding site [chemical binding]; other site 435591005828 metal binding triad [ion binding]; metal-binding site 435591005829 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 435591005830 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435591005831 Zn2+ binding site [ion binding]; other site 435591005832 Mg2+ binding site [ion binding]; other site 435591005833 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 435591005834 Conserved TM helix; Region: TM_helix; pfam05552 435591005835 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435591005836 TPR repeat; Region: TPR_11; pfam13414 435591005837 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 435591005838 binding surface 435591005839 TPR motif; other site 435591005840 TPR repeat; Region: TPR_11; pfam13414 435591005841 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 435591005842 binding surface 435591005843 TPR motif; other site 435591005844 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 435591005845 tartrate dehydrogenase; Region: TTC; TIGR02089 435591005846 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 435591005847 active site 435591005848 dimer interfaces [polypeptide binding]; other site 435591005849 catalytic residues [active] 435591005850 (R)-citramalate synthase; Provisional; Region: PRK09389 435591005851 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 435591005852 active site 435591005853 catalytic residues [active] 435591005854 metal binding site [ion binding]; metal-binding site 435591005855 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 435591005856 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 435591005857 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 435591005858 substrate binding site [chemical binding]; other site 435591005859 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 435591005860 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 435591005861 substrate binding site [chemical binding]; other site 435591005862 ligand binding site [chemical binding]; other site 435591005863 2-isopropylmalate synthase; Validated; Region: PRK00915 435591005864 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 435591005865 active site 435591005866 catalytic residues [active] 435591005867 metal binding site [ion binding]; metal-binding site 435591005868 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 435591005869 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 435591005870 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 435591005871 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 435591005872 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 435591005873 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 435591005874 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 435591005875 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 435591005876 active site 435591005877 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 435591005878 putative valine binding site [chemical binding]; other site 435591005879 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 435591005880 dimer interface [polypeptide binding]; other site 435591005881 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 435591005882 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 435591005883 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 435591005884 PYR/PP interface [polypeptide binding]; other site 435591005885 dimer interface [polypeptide binding]; other site 435591005886 TPP binding site [chemical binding]; other site 435591005887 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435591005888 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 435591005889 TPP-binding site [chemical binding]; other site 435591005890 dimer interface [polypeptide binding]; other site 435591005891 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 435591005892 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591005893 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 435591005894 FecR protein; Region: FecR; pfam04773 435591005895 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591005896 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591005897 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591005898 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591005899 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591005900 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591005901 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591005902 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591005903 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591005904 SusD family; Region: SusD; pfam07980 435591005905 Sulfatase; Region: Sulfatase; cl17466 435591005906 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591005907 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591005908 Sulfatase; Region: Sulfatase; pfam00884 435591005909 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 435591005910 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 435591005911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591005912 homodimer interface [polypeptide binding]; other site 435591005913 catalytic residue [active] 435591005914 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 435591005915 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435591005916 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 435591005917 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 435591005918 Tetramer interface [polypeptide binding]; other site 435591005919 active site 435591005920 FMN-binding site [chemical binding]; other site 435591005921 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 435591005922 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 435591005923 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 435591005924 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 435591005925 dimerization interface [polypeptide binding]; other site 435591005926 active site 435591005927 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 435591005928 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 435591005929 NAD binding site [chemical binding]; other site 435591005930 catalytic residues [active] 435591005931 substrate binding site [chemical binding]; other site 435591005932 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 435591005933 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591005934 Walker A motif; other site 435591005935 ATP binding site [chemical binding]; other site 435591005936 Walker B motif; other site 435591005937 arginine finger; other site 435591005938 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 435591005939 Septum formation initiator; Region: DivIC; pfam04977 435591005940 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 435591005941 Kinesin motor; Region: Kinesin-relat_1; pfam12711 435591005942 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 435591005943 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 435591005944 metal binding site [ion binding]; metal-binding site 435591005945 dimer interface [polypeptide binding]; other site 435591005946 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 435591005947 putative catalytic site [active] 435591005948 putative metal binding site [ion binding]; other site 435591005949 putative phosphate binding site [ion binding]; other site 435591005950 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 435591005951 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 435591005952 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 435591005953 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 435591005954 Peptidase family M23; Region: Peptidase_M23; pfam01551 435591005955 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 435591005956 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 435591005957 active site 435591005958 substrate binding site [chemical binding]; other site 435591005959 metal binding site [ion binding]; metal-binding site 435591005960 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 435591005961 active site 435591005962 catalytic motif [active] 435591005963 Zn binding site [ion binding]; other site 435591005964 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 435591005965 S-adenosylmethionine binding site [chemical binding]; other site 435591005966 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 435591005967 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435591005968 phosphoribosylaminoimidazole synthetase; Region: purM; TIGR00878 435591005969 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 435591005970 dimerization interface [polypeptide binding]; other site 435591005971 ATP binding site [chemical binding]; other site 435591005972 peptide chain release factor 1; Validated; Region: prfA; PRK00591 435591005973 This domain is found in peptide chain release factors; Region: PCRF; smart00937 435591005974 RF-1 domain; Region: RF-1; pfam00472 435591005975 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 435591005976 active site 435591005977 dimer interface [polypeptide binding]; other site 435591005978 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 435591005979 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 435591005980 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; Region: LbH_LpxD; cd03352 435591005981 trimer interface [polypeptide binding]; other site 435591005982 active site 435591005983 UDP-GlcNAc binding site [chemical binding]; other site 435591005984 lipid binding site [chemical binding]; lipid-binding site 435591005985 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 435591005986 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 435591005987 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 435591005988 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 435591005989 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 biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 435591005990 active site 435591005991 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 435591005992 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 435591005993 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 435591005994 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 435591005995 Protein of unknown function, DUF486; Region: DUF486; cl01236 435591005996 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 435591005997 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 435591005998 Ligand Binding Site [chemical binding]; other site 435591005999 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 435591006000 binding surface 435591006001 Tetratricopeptide repeat; Region: TPR_16; pfam13432 435591006002 TPR motif; other site 435591006003 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591006004 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 435591006005 hypothetical protein; Provisional; Region: PRK13665 435591006006 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 435591006007 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 435591006008 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 435591006009 tetramer (dimer of dimers) interface [polypeptide binding]; other site 435591006010 active site 435591006011 dimer interface [polypeptide binding]; other site 435591006012 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 435591006013 dimer interface [polypeptide binding]; other site 435591006014 FMN binding site [chemical binding]; other site 435591006015 NADPH bind site [chemical binding]; other site 435591006016 AAA domain; Region: AAA_22; pfam13401 435591006017 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591006018 Walker A motif; other site 435591006019 ATP binding site [chemical binding]; other site 435591006020 Walker B motif; other site 435591006021 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 435591006022 4Fe-4S binding domain; Region: Fer4; pfam00037 435591006023 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 435591006024 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 435591006025 trmE is a tRNA modification GTPase; Region: trmE; cd04164 435591006026 G1 box; other site 435591006027 GTP/Mg2+ binding site [chemical binding]; other site 435591006028 Switch I region; other site 435591006029 G2 box; other site 435591006030 Switch II region; other site 435591006031 G3 box; other site 435591006032 G4 box; other site 435591006033 G5 box; other site 435591006034 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 435591006035 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591006036 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591006037 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 435591006038 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 435591006039 Int/Topo IB signature motif; other site 435591006040 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 435591006041 putative metal binding site [ion binding]; other site 435591006042 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 435591006043 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591006044 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 435591006045 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591006046 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 435591006047 Walker A motif; other site 435591006048 ATP binding site [chemical binding]; other site 435591006049 Walker B motif; other site 435591006050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 435591006051 Integrase core domain; Region: rve; pfam00665 435591006052 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 435591006053 non-specific DNA binding site [nucleotide binding]; other site 435591006054 salt bridge; other site 435591006055 sequence-specific DNA binding site [nucleotide binding]; other site 435591006056 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 435591006057 DNA methylase; Region: N6_N4_Mtase; pfam01555 435591006058 DNA methylase; Region: N6_N4_Mtase; cl17433 435591006059 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 435591006060 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 435591006061 AAA domain; Region: AAA_23; pfam13476 435591006062 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591006063 Walker A/P-loop; other site 435591006064 ATP binding site [chemical binding]; other site 435591006065 Q-loop/lid; other site 435591006066 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 435591006067 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 435591006068 Int/Topo IB signature motif; other site 435591006069 Phage associated DNA primase [General function prediction only]; Region: COG3378 435591006070 CHC2 zinc finger; Region: zf-CHC2; cl17510 435591006071 Toprim-like; Region: Toprim_2; pfam13155 435591006072 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 435591006073 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 435591006074 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 435591006075 FeS/SAM binding site; other site 435591006076 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 435591006077 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 435591006078 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 435591006079 FeS/SAM binding site; other site 435591006080 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 435591006081 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 435591006082 AAA-like domain; Region: AAA_10; pfam12846 435591006083 Protein of unknown function DUF262; Region: DUF262; pfam03235 435591006084 Uncharacterized conserved protein [Function unknown]; Region: COG1479 435591006085 Uncharacterized conserved protein [Function unknown]; Region: COG3472 435591006086 HipA N-terminal domain; Region: Couple_hipA; cl11853 435591006087 HipA-like N-terminal domain; Region: HipA_N; pfam07805 435591006088 HipA-like C-terminal domain; Region: HipA_C; pfam07804 435591006089 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 435591006090 non-specific DNA binding site [nucleotide binding]; other site 435591006091 salt bridge; other site 435591006092 sequence-specific DNA binding site [nucleotide binding]; other site 435591006093 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 435591006094 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 435591006095 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 435591006096 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 435591006097 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591006098 putative active site [active] 435591006099 putative metal binding site [ion binding]; other site 435591006100 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 435591006101 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 435591006102 conserved cys residue [active] 435591006103 VirE N-terminal domain; Region: VirE_N; pfam08800 435591006104 Virulence-associated protein E; Region: VirE; pfam05272 435591006105 Domain of unknonw function from B. Theta Gene description (DUF3874); Region: DUF3874; pfam12990 435591006106 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435591006107 active site 435591006108 NTP binding site [chemical binding]; other site 435591006109 metal binding triad [ion binding]; metal-binding site 435591006110 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 435591006111 Formaldehyde dehydrogenases; Region: FDH_like; cd05278 435591006112 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 435591006113 catalytic Zn binding site [ion binding]; other site 435591006114 NAD(P) binding site [chemical binding]; other site 435591006115 structural Zn binding site [ion binding]; other site 435591006116 flavodoxin; Provisional; Region: PRK07116 435591006117 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 435591006118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591006119 TIGR01777 family protein; Region: yfcH 435591006120 NAD(P) binding site [chemical binding]; other site 435591006121 active site 435591006122 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 435591006123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591006124 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 435591006125 NAD(P) binding site [chemical binding]; other site 435591006126 active site 435591006127 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 435591006128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435591006129 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435591006130 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435591006131 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435591006132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591006133 Coenzyme A binding pocket [chemical binding]; other site 435591006134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435591006135 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 435591006136 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 435591006137 putative substrate binding site [chemical binding]; other site 435591006138 active site 435591006139 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 435591006140 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 435591006141 active site 435591006142 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591006143 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 435591006144 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591006145 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591006146 putative trimer interface [polypeptide binding]; other site 435591006147 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 435591006148 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 435591006149 putative CoA binding site [chemical binding]; other site 435591006150 putative trimer interface [polypeptide binding]; other site 435591006151 putative active site [active] 435591006152 putative substrate binding site [chemical binding]; other site 435591006153 putative CoA binding site [chemical binding]; other site 435591006154 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 435591006155 putative SAM binding site [chemical binding]; other site 435591006156 homodimer interface [polypeptide binding]; other site 435591006157 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 435591006158 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 435591006159 S-adenosylmethionine binding site [chemical binding]; other site 435591006160 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 435591006161 Uncharacterized conserved protein [Function unknown]; Region: COG2433 435591006162 polyphosphate kinase; Provisional; Region: PRK05443 435591006163 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 435591006164 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 435591006165 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 435591006166 domain interface [polypeptide binding]; other site 435591006167 active site 435591006168 catalytic site [active] 435591006169 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 435591006170 domain interface [polypeptide binding]; other site 435591006171 active site 435591006172 catalytic site [active] 435591006173 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 435591006174 active site 435591006175 metal binding site [ion binding]; metal-binding site 435591006176 homotetramer interface [polypeptide binding]; other site 435591006177 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 435591006178 nudix motif; other site 435591006179 lipoyl synthase; Provisional; Region: PRK05481 435591006180 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 435591006181 FeS/SAM binding site; other site 435591006182 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 435591006183 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591006184 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 435591006185 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 435591006186 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 435591006187 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 435591006188 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591006189 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 435591006190 plasma-membrane calcium-translocating P-type ATPase; Region: ATPase-IIB_Ca; TIGR01517 435591006191 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 435591006192 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 435591006193 Soluble P-type ATPase [General function prediction only]; Region: COG4087 435591006194 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 435591006195 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 435591006196 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 435591006197 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 435591006198 active site 435591006199 Cupin domain; Region: Cupin_2; cl17218 435591006200 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 435591006201 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 435591006202 NADP binding site [chemical binding]; other site 435591006203 active site 435591006204 putative substrate binding site [chemical binding]; other site 435591006205 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 435591006206 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 435591006207 NADP-binding site; other site 435591006208 homotetramer interface [polypeptide binding]; other site 435591006209 substrate binding site [chemical binding]; other site 435591006210 homodimer interface [polypeptide binding]; other site 435591006211 active site 435591006212 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 435591006213 metal-binding site 435591006214 putative acyl transferase; Provisional; Region: PRK10502 435591006215 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 435591006216 putative trimer interface [polypeptide binding]; other site 435591006217 putative active site [active] 435591006218 putative substrate binding site [chemical binding]; other site 435591006219 putative CoA binding site [chemical binding]; other site 435591006220 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 435591006221 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591006222 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591006223 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 435591006224 Maintenance of mitochondrial structure and function; Region: MitMem_reg; pfam13012 435591006225 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 435591006226 putative glycosyl transferase; Provisional; Region: PRK10073 435591006227 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591006228 active site 435591006229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 435591006230 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 435591006231 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591006232 active site 435591006233 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591006234 active site 435591006235 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 435591006236 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435591006237 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591006238 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435591006239 This family is most closely related to the GT1 family of glycosyltransferases. AmsK is involved in the biosynthesis of amylovoran, which functions as a virulence factor. It functions as a glycosyl transferase which transfers galactose from UDP-galactose...; Region: GT1_AmsK_like; cd04946 435591006240 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591006241 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 435591006242 putative active site [active] 435591006243 putative metal binding site [ion binding]; other site 435591006244 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591006245 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 435591006246 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 435591006247 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435591006248 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591006249 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435591006250 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 435591006251 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 435591006252 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 435591006253 Chain length determinant protein; Region: Wzz; cl15801 435591006254 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 435591006255 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 435591006256 P-loop; other site 435591006257 Magnesium ion binding site [ion binding]; other site 435591006258 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 435591006259 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435591006260 SLBB domain; Region: SLBB; pfam10531 435591006261 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 435591006262 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 435591006263 Mg++ binding site [ion binding]; other site 435591006264 putative catalytic motif [active] 435591006265 substrate binding site [chemical binding]; other site 435591006266 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 435591006267 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 435591006268 active site 435591006269 DNA binding site [nucleotide binding] 435591006270 Int/Topo IB signature motif; other site 435591006271 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 435591006272 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 435591006273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 435591006274 Transposase; Region: DEDD_Tnp_IS110; pfam01548 435591006275 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 435591006276 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 435591006277 Helix-turn-helix domain; Region: HTH_17; cl17695 435591006278 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591006279 KilA-N domain; Region: KilA-N; pfam04383 435591006280 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 435591006281 Int/Topo IB signature motif; other site 435591006282 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 (16,20)...; Region: OM_channels; cl17244 435591006283 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435591006284 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 435591006285 Dienelactone hydrolase family; Region: DLH; pfam01738 435591006286 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591006287 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 435591006288 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 435591006289 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435591006290 Peptidase C1-like family; Region: Peptidase_C1_2; cl17447 435591006291 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 435591006292 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 435591006293 Proline dehydrogenase; Region: Pro_dh; cl03282 435591006294 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 435591006295 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 435591006296 Glutamate binding site [chemical binding]; other site 435591006297 NAD binding site [chemical binding]; other site 435591006298 catalytic residues [active] 435591006299 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 435591006300 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 435591006301 non-specific DNA binding site [nucleotide binding]; other site 435591006302 salt bridge; other site 435591006303 sequence-specific DNA binding site [nucleotide binding]; other site 435591006304 Cupin domain; Region: Cupin_2; pfam07883 435591006305 Medium-chain acyl-CoA synthetase (MACS) of AAE_MA like; Region: MACS_AAE_MA_like; cd05970 435591006306 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 435591006307 active site 435591006308 acyl-activating enzyme (AAE) consensus motif; other site 435591006309 putative CoA binding site [chemical binding]; other site 435591006310 AMP binding site [chemical binding]; other site 435591006311 gamma-glutamyl kinase; Provisional; Region: PRK05429 435591006312 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 435591006313 nucleotide binding site [chemical binding]; other site 435591006314 homotetrameric interface [polypeptide binding]; other site 435591006315 putative phosphate binding site [ion binding]; other site 435591006316 putative allosteric binding site; other site 435591006317 PUA domain; Region: PUA; pfam01472 435591006318 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 435591006319 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 435591006320 putative catalytic cysteine [active] 435591006321 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591006322 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591006323 dimer interface [polypeptide binding]; other site 435591006324 phosphorylation site [posttranslational modification] 435591006325 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 435591006326 ATP binding site [chemical binding]; other site 435591006327 Mg2+ binding site [ion binding]; other site 435591006328 G-X-G motif; other site 435591006329 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 435591006330 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 435591006331 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 435591006332 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 435591006333 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591006334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591006335 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 435591006336 putative catalytic site [active] 435591006337 putative metal binding site [ion binding]; other site 435591006338 putative phosphate binding site [ion binding]; other site 435591006339 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 435591006340 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 435591006341 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 435591006342 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 435591006343 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 435591006344 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 435591006345 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 435591006346 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 435591006347 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 435591006348 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 435591006349 DNA binding site [nucleotide binding] 435591006350 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 435591006351 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 435591006352 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 435591006353 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 435591006354 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 435591006355 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 435591006356 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 435591006357 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 435591006358 RPB3 interaction site [polypeptide binding]; other site 435591006359 RPB1 interaction site [polypeptide binding]; other site 435591006360 RPB11 interaction site [polypeptide binding]; other site 435591006361 RPB10 interaction site [polypeptide binding]; other site 435591006362 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 435591006363 core dimer interface [polypeptide binding]; other site 435591006364 peripheral dimer interface [polypeptide binding]; other site 435591006365 L10 interface [polypeptide binding]; other site 435591006366 L11 interface [polypeptide binding]; other site 435591006367 putative EF-Tu interaction site [polypeptide binding]; other site 435591006368 putative EF-G interaction site [polypeptide binding]; other site 435591006369 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 435591006370 23S rRNA interface [nucleotide binding]; other site 435591006371 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 435591006372 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 435591006373 mRNA/rRNA interface [nucleotide binding]; other site 435591006374 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 435591006375 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 435591006376 23S rRNA interface [nucleotide binding]; other site 435591006377 L7/L12 interface [polypeptide binding]; other site 435591006378 putative thiostrepton binding site; other site 435591006379 L25 interface [polypeptide binding]; other site 435591006380 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 435591006381 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 435591006382 putative homodimer interface [polypeptide binding]; other site 435591006383 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 435591006384 heterodimer interface [polypeptide binding]; other site 435591006385 homodimer interface [polypeptide binding]; other site 435591006386 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 435591006387 elongation factor Tu; Reviewed; Region: PRK12735 435591006388 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 435591006389 G1 box; other site 435591006390 GEF interaction site [polypeptide binding]; other site 435591006391 GTP/Mg2+ binding site [chemical binding]; other site 435591006392 Switch I region; other site 435591006393 G2 box; other site 435591006394 G3 box; other site 435591006395 Switch II region; other site 435591006396 G4 box; other site 435591006397 G5 box; other site 435591006398 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 435591006399 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 435591006400 Antibiotic Binding Site [chemical binding]; other site 435591006401 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 435591006402 30S subunit binding site; other site 435591006403 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 435591006404 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591006405 active site 435591006406 DNA binding site [nucleotide binding] 435591006407 Int/Topo IB signature motif; other site 435591006408 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 435591006409 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 435591006410 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 435591006411 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591006412 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 435591006413 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 435591006414 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 435591006415 active site 435591006416 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 435591006417 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 435591006418 trimer interface [polypeptide binding]; other site 435591006419 putative metal binding site [ion binding]; other site 435591006420 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 435591006421 Beta-lactamase; Region: Beta-lactamase; pfam00144 435591006422 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 435591006423 putative ligand binding site [chemical binding]; other site 435591006424 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 435591006425 trimer interface [polypeptide binding]; other site 435591006426 active site 435591006427 G bulge; other site 435591006428 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 435591006429 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 435591006430 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 435591006431 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 435591006432 HIGH motif; other site 435591006433 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 435591006434 active site 435591006435 KMSKS motif; other site 435591006436 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 435591006437 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 435591006438 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435591006439 Zn2+ binding site [ion binding]; other site 435591006440 Mg2+ binding site [ion binding]; other site 435591006441 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591006442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591006443 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 435591006444 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 435591006445 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 435591006446 Low molecular weight phosphatase family; Region: LMWPc; cd00115 435591006447 active site 435591006448 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 435591006449 primosomal protein N' Region: priA; TIGR00595 435591006450 ATP binding site [chemical binding]; other site 435591006451 putative Mg++ binding site [ion binding]; other site 435591006452 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 435591006453 ATP-binding site [chemical binding]; other site 435591006454 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591006455 2,3-dihydroxybenzoate-AMP ligase; Region: DHB_AMP_lig; TIGR02275 435591006456 pantothenate kinase; Provisional; Region: PRK13317 435591006457 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 435591006458 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 435591006459 active site 435591006460 substrate binding site [chemical binding]; other site 435591006461 coenzyme B12 binding site [chemical binding]; other site 435591006462 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 435591006463 B12 binding site [chemical binding]; other site 435591006464 cobalt ligand [ion binding]; other site 435591006465 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 435591006466 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 435591006467 heterodimer interface [polypeptide binding]; other site 435591006468 substrate interaction site [chemical binding]; other site 435591006469 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 435591006470 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435591006471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591006472 NAD(P) binding site [chemical binding]; other site 435591006473 active site 435591006474 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 435591006475 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 435591006476 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435591006477 AP (apurinic/apyrimidinic) site pocket; other site 435591006478 DNA interaction; other site 435591006479 Metal-binding active site; metal-binding site 435591006480 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 435591006481 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 435591006482 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591006483 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591006484 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 (16,20)...; Region: OM_channels; cl17244 435591006485 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 (16,20)...; Region: OM_channels; cl17244 435591006486 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591006487 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591006488 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 (16,20)...; Region: OM_channels; cl17244 435591006489 AAA domain; Region: AAA_30; pfam13604 435591006490 PIF1-like helicase; Region: PIF1; pfam05970 435591006491 Family description; Region: UvrD_C_2; pfam13538 435591006492 TPR repeat; Region: TPR_11; pfam13414 435591006493 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 435591006494 binding surface 435591006495 TPR motif; other site 435591006496 TPR repeat; Region: TPR_11; pfam13414 435591006497 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 435591006498 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 435591006499 Sporulation related domain; Region: SPOR; pfam05036 435591006500 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591006501 Sulfatase; Region: Sulfatase; pfam00884 435591006502 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591006503 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591006504 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591006505 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591006506 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591006507 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591006508 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591006509 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591006510 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591006511 FecR protein; Region: FecR; pfam04773 435591006512 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591006513 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591006514 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591006515 DNA binding residues [nucleotide binding] 435591006516 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591006517 Sulfatase; Region: Sulfatase; pfam00884 435591006518 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591006519 Sulfatase; Region: Sulfatase; pfam00884 435591006520 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591006521 Sulfatase; Region: Sulfatase; pfam00884 435591006522 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591006523 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591006524 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591006525 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591006526 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591006527 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591006528 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591006529 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591006530 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591006531 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591006532 FecR protein; Region: FecR; pfam04773 435591006533 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591006534 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591006535 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591006536 DNA binding residues [nucleotide binding] 435591006537 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435591006538 Zn2+ binding site [ion binding]; other site 435591006539 Mg2+ binding site [ion binding]; other site 435591006540 Archaeal ATPase; Region: Arch_ATPase; pfam01637 435591006541 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591006542 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 435591006543 active site 435591006544 phosphorylation site [posttranslational modification] 435591006545 intermolecular recognition site; other site 435591006546 dimerization interface [polypeptide binding]; other site 435591006547 LytTr DNA-binding domain; Region: LytTR; smart00850 435591006548 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435591006549 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 435591006550 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 435591006551 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 435591006552 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 435591006553 putative acyl-acceptor binding pocket; other site 435591006554 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591006555 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591006556 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591006557 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591006558 SusD family; Region: SusD; pfam07980 435591006559 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591006560 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591006561 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591006562 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591006563 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591006564 FecR protein; Region: FecR; pfam04773 435591006565 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591006566 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591006567 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591006568 DNA binding residues [nucleotide binding] 435591006569 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 435591006570 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 435591006571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591006572 homodimer interface [polypeptide binding]; other site 435591006573 catalytic residue [active] 435591006574 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 435591006575 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 435591006576 Beta-lactamase; Region: Beta-lactamase; cl17358 435591006577 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 435591006578 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591006579 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591006580 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591006581 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 (16,20)...; Region: OM_channels; cl17244 435591006582 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 435591006583 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 435591006584 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 435591006585 Histidine kinase; Region: His_kinase; pfam06580 435591006586 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591006587 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 435591006588 active site 435591006589 phosphorylation site [posttranslational modification] 435591006590 intermolecular recognition site; other site 435591006591 dimerization interface [polypeptide binding]; other site 435591006592 LytTr DNA-binding domain; Region: LytTR; smart00850 435591006593 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591006594 LytTr DNA-binding domain; Region: LytTR; smart00850 435591006595 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 435591006596 Kelch motif; Region: Kelch_1; pfam01344 435591006597 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 435591006598 Kelch motif; Region: Kelch_1; pfam01344 435591006599 enolase; Provisional; Region: eno; PRK00077 435591006600 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 435591006601 dimer interface [polypeptide binding]; other site 435591006602 metal binding site [ion binding]; metal-binding site 435591006603 substrate binding pocket [chemical binding]; other site 435591006604 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 435591006605 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 435591006606 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 435591006607 alphaNTD - beta interaction site [polypeptide binding]; other site 435591006608 alphaNTD homodimer interface [polypeptide binding]; other site 435591006609 alphaNTD - beta' interaction site [polypeptide binding]; other site 435591006610 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 435591006611 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 435591006612 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 435591006613 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 435591006614 RNA binding surface [nucleotide binding]; other site 435591006615 30S ribosomal protein S11; Validated; Region: PRK05309 435591006616 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 435591006617 30S ribosomal protein S13; Region: bact_S13; TIGR03631 435591006618 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 435591006619 rRNA binding site [nucleotide binding]; other site 435591006620 predicted 30S ribosome binding site; other site 435591006621 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 435591006622 active site 435591006623 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 435591006624 SecY translocase; Region: SecY; pfam00344 435591006625 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 435591006626 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 435591006627 23S rRNA binding site [nucleotide binding]; other site 435591006628 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 435591006629 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 435591006630 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 435591006631 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 435591006632 5S rRNA interface [nucleotide binding]; other site 435591006633 L27 interface [polypeptide binding]; other site 435591006634 23S rRNA interface [nucleotide binding]; other site 435591006635 L5 interface [polypeptide binding]; other site 435591006636 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 435591006637 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 435591006638 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 435591006639 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 435591006640 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 435591006641 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 435591006642 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 435591006643 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 435591006644 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 435591006645 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 435591006646 RNA binding site [nucleotide binding]; other site 435591006647 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 435591006648 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 435591006649 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 435591006650 23S rRNA interface [nucleotide binding]; other site 435591006651 putative translocon interaction site; other site 435591006652 signal recognition particle (SRP54) interaction site; other site 435591006653 L23 interface [polypeptide binding]; other site 435591006654 trigger factor interaction site; other site 435591006655 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 435591006656 23S rRNA interface [nucleotide binding]; other site 435591006657 5S rRNA interface [nucleotide binding]; other site 435591006658 putative antibiotic binding site [chemical binding]; other site 435591006659 L25 interface [polypeptide binding]; other site 435591006660 L27 interface [polypeptide binding]; other site 435591006661 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 435591006662 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 435591006663 G-X-X-G motif; other site 435591006664 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 435591006665 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 435591006666 putative translocon binding site; other site 435591006667 protein-rRNA interface [nucleotide binding]; other site 435591006668 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 435591006669 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 435591006670 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 435591006671 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 435591006672 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 435591006673 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 435591006674 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 435591006675 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 435591006676 elongation factor G; Reviewed; Region: PRK12739 435591006677 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 435591006678 G1 box; other site 435591006679 putative GEF interaction site [polypeptide binding]; other site 435591006680 GTP/Mg2+ binding site [chemical binding]; other site 435591006681 Switch I region; other site 435591006682 G2 box; other site 435591006683 G3 box; other site 435591006684 Switch II region; other site 435591006685 G4 box; other site 435591006686 G5 box; other site 435591006687 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 435591006688 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 435591006689 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 435591006690 30S ribosomal protein S7; Validated; Region: PRK05302 435591006691 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 435591006692 S17 interaction site [polypeptide binding]; other site 435591006693 S8 interaction site; other site 435591006694 16S rRNA interaction site [nucleotide binding]; other site 435591006695 streptomycin interaction site [chemical binding]; other site 435591006696 23S rRNA interaction site [nucleotide binding]; other site 435591006697 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 435591006698 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591006699 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 435591006700 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 435591006701 ATP binding site [chemical binding]; other site 435591006702 Mg2+ binding site [ion binding]; other site 435591006703 G-X-G motif; other site 435591006704 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 435591006705 ATP binding site [chemical binding]; other site 435591006706 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 435591006707 OstA-like protein; Region: OstA_2; pfam13100 435591006708 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 435591006709 SurA N-terminal domain; Region: SurA_N; pfam09312 435591006710 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 435591006711 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 435591006712 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 435591006713 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 435591006714 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 435591006715 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 435591006716 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 435591006717 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 435591006718 active site 435591006719 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 435591006720 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 435591006721 ATP binding site [chemical binding]; other site 435591006722 putative Mg++ binding site [ion binding]; other site 435591006723 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 435591006724 nucleotide binding region [chemical binding]; other site 435591006725 ATP-binding site [chemical binding]; other site 435591006726 RQC domain; Region: RQC; pfam09382 435591006727 HRDC domain; Region: HRDC; pfam00570 435591006728 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 435591006729 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 435591006730 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591006731 Walker A motif; other site 435591006732 ATP binding site [chemical binding]; other site 435591006733 Walker B motif; other site 435591006734 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 435591006735 Clp protease; Region: CLP_protease; pfam00574 435591006736 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 435591006737 oligomer interface [polypeptide binding]; other site 435591006738 active site residues [active] 435591006739 trigger factor; Region: tig; TIGR00115 435591006740 CAAX protease self-immunity; Region: Abi; pfam02517 435591006741 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 435591006742 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 435591006743 Walker A/P-loop; other site 435591006744 ATP binding site [chemical binding]; other site 435591006745 Q-loop/lid; other site 435591006746 ABC transporter signature motif; other site 435591006747 Walker B; other site 435591006748 D-loop; other site 435591006749 H-loop/switch region; other site 435591006750 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 435591006751 active site 435591006752 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 435591006753 Permease; Region: Permease; pfam02405 435591006754 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 435591006755 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 435591006756 Walker A/P-loop; other site 435591006757 ATP binding site [chemical binding]; other site 435591006758 Q-loop/lid; other site 435591006759 ABC transporter signature motif; other site 435591006760 Walker B; other site 435591006761 D-loop; other site 435591006762 H-loop/switch region; other site 435591006763 S-adenosylmethionine synthetase; Validated; Region: PRK05250 435591006764 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 435591006765 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 435591006766 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 435591006767 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 435591006768 catalytic center binding site [active] 435591006769 ATP binding site [chemical binding]; other site 435591006770 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 435591006771 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 435591006772 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 435591006773 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 435591006774 RNA binding site [nucleotide binding]; other site 435591006775 active site 435591006776 Bacitracin resistance protein BacA; Region: BacA; pfam02673 435591006777 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 435591006778 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 435591006779 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 435591006780 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 435591006781 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591006782 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591006783 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591006784 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 (16,20)...; Region: OM_channels; cl17244 435591006785 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591006786 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591006787 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 435591006788 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 435591006789 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 435591006790 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 435591006791 FeS/SAM binding site; other site 435591006792 TRAM domain; Region: TRAM; pfam01938 435591006793 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 435591006794 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 435591006795 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 435591006796 PBP superfamily domain; Region: PBP_like_2; pfam12849 435591006797 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 435591006798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 435591006799 dimer interface [polypeptide binding]; other site 435591006800 conserved gate region; other site 435591006801 putative PBP binding loops; other site 435591006802 ABC-ATPase subunit interface; other site 435591006803 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 435591006804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 435591006805 dimer interface [polypeptide binding]; other site 435591006806 conserved gate region; other site 435591006807 putative PBP binding loops; other site 435591006808 ABC-ATPase subunit interface; other site 435591006809 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14245 435591006810 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 435591006811 Walker A/P-loop; other site 435591006812 ATP binding site [chemical binding]; other site 435591006813 Q-loop/lid; other site 435591006814 ABC transporter signature motif; other site 435591006815 Walker B; other site 435591006816 D-loop; other site 435591006817 H-loop/switch region; other site 435591006818 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 435591006819 PhoU domain; Region: PhoU; pfam01895 435591006820 PhoU domain; Region: PhoU; pfam01895 435591006821 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 435591006822 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 435591006823 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435591006824 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 435591006825 Walker A/P-loop; other site 435591006826 ATP binding site [chemical binding]; other site 435591006827 Q-loop/lid; other site 435591006828 ABC transporter signature motif; other site 435591006829 Walker B; other site 435591006830 D-loop; other site 435591006831 H-loop/switch region; other site 435591006832 putative lipoprotein, rSAM/lipoprotein system; Region: lipo_with_rSAM; TIGR04134 435591006833 putative lipoprotein, rSAM/lipoprotein system; Region: lipo_with_rSAM; TIGR04134 435591006834 radical SAM enzyme, rSAM/lipoprotein system; Region: rSAM_w_lipo; TIGR04133 435591006835 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 435591006836 FeS/SAM binding site; other site 435591006837 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 435591006838 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 435591006839 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 435591006840 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 435591006841 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 435591006842 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 435591006843 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 435591006844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 435591006845 GTP-binding protein Der; Reviewed; Region: PRK00093 435591006846 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 435591006847 G1 box; other site 435591006848 GTP/Mg2+ binding site [chemical binding]; other site 435591006849 Switch I region; other site 435591006850 G2 box; other site 435591006851 Switch II region; other site 435591006852 G3 box; other site 435591006853 G4 box; other site 435591006854 G5 box; other site 435591006855 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 435591006856 G1 box; other site 435591006857 GTP/Mg2+ binding site [chemical binding]; other site 435591006858 Switch I region; other site 435591006859 G2 box; other site 435591006860 G3 box; other site 435591006861 Switch II region; other site 435591006862 G4 box; other site 435591006863 G5 box; other site 435591006864 GTPase Era; Reviewed; Region: era; PRK00089 435591006865 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 435591006866 G1 box; other site 435591006867 GTP/Mg2+ binding site [chemical binding]; other site 435591006868 Switch I region; other site 435591006869 G2 box; other site 435591006870 Switch II region; other site 435591006871 G3 box; other site 435591006872 G4 box; other site 435591006873 G5 box; other site 435591006874 KH domain; Region: KH_2; pfam07650 435591006875 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 435591006876 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 435591006877 dimer interface [polypeptide binding]; other site 435591006878 active site 435591006879 CoA binding pocket [chemical binding]; other site 435591006880 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 435591006881 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591006882 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 435591006883 phosphorylation site [posttranslational modification] 435591006884 dimer interface [polypeptide binding]; other site 435591006885 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 435591006886 ATP binding site [chemical binding]; other site 435591006887 Mg2+ binding site [ion binding]; other site 435591006888 G-X-G motif; other site 435591006889 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 435591006890 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 435591006891 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 435591006892 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 435591006893 Phage protein D [General function prediction only]; Region: COG3500 435591006894 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 435591006895 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 435591006896 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 435591006897 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 435591006898 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 435591006899 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591006900 Walker A motif; other site 435591006901 ATP binding site [chemical binding]; other site 435591006902 Walker B motif; other site 435591006903 arginine finger; other site 435591006904 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 435591006905 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591006906 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591006907 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 435591006908 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 435591006909 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 435591006910 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 435591006911 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 435591006912 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 435591006913 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 435591006914 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591006915 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591006916 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591006917 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591006918 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591006919 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591006920 FecR protein; Region: FecR; pfam04773 435591006921 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591006922 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591006923 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591006924 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 435591006925 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591006926 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591006927 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591006928 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591006929 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591006930 SusD family; Region: SusD; pfam07980 435591006931 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591006932 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591006933 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591006934 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591006935 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591006936 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591006937 FecR protein; Region: FecR; pfam04773 435591006938 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591006939 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591006940 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591006941 DNA binding residues [nucleotide binding] 435591006942 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591006943 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 (16,20)...; Region: OM_channels; cl17244 435591006944 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591006945 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591006946 dimer interface [polypeptide binding]; other site 435591006947 phosphorylation site [posttranslational modification] 435591006948 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 435591006949 ATP binding site [chemical binding]; other site 435591006950 Mg2+ binding site [ion binding]; other site 435591006951 G-X-G motif; other site 435591006952 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435591006953 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 435591006954 active site 435591006955 phosphorylation site [posttranslational modification] 435591006956 intermolecular recognition site; other site 435591006957 dimerization interface [polypeptide binding]; other site 435591006958 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 435591006959 DNA binding site [nucleotide binding] 435591006960 Carbon starvation protein CstA; Region: CstA; pfam02554 435591006961 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 435591006962 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 435591006963 Yqey-like protein; Region: YqeY; pfam09424 435591006964 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 435591006965 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 435591006966 nucleotide binding site [chemical binding]; other site 435591006967 SulA interaction site; other site 435591006968 cell division protein FtsA; Region: ftsA; TIGR01174 435591006969 Cell division protein FtsA; Region: FtsA; smart00842 435591006970 Cell division protein FtsA; Region: FtsA; pfam14450 435591006971 Cell division protein FtsQ; Region: FtsQ; pfam03799 435591006972 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 435591006973 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 435591006974 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435591006975 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435591006976 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 435591006977 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 435591006978 homodimer interface [polypeptide binding]; other site 435591006979 active site 435591006980 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 435591006981 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 435591006982 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435591006983 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435591006984 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 435591006985 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 435591006986 Mg++ binding site [ion binding]; other site 435591006987 putative catalytic motif [active] 435591006988 putative substrate binding site [chemical binding]; other site 435591006989 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 435591006990 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 435591006991 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435591006992 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435591006993 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 435591006994 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 435591006995 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 435591006996 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 435591006997 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 435591006998 MraW methylase family; Region: Methyltransf_5; cl17771 435591006999 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 435591007000 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 435591007001 putative acyl-acceptor binding pocket; other site 435591007002 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 435591007003 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 435591007004 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591007005 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 435591007006 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 435591007007 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 435591007008 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 435591007009 putative active site [active] 435591007010 catalytic site [active] 435591007011 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 435591007012 putative active site [active] 435591007013 catalytic site [active] 435591007014 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 435591007015 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 435591007016 S-adenosylmethionine binding site [chemical binding]; other site 435591007017 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 435591007018 AAA domain; Region: AAA_30; pfam13604 435591007019 Family description; Region: UvrD_C_2; pfam13538 435591007020 Predicted methyltransferases [General function prediction only]; Region: COG0313 435591007021 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 435591007022 putative SAM binding site [chemical binding]; other site 435591007023 putative homodimer interface [polypeptide binding]; other site 435591007024 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 435591007025 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 435591007026 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 435591007027 motif II; other site 435591007028 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 435591007029 ApbE family; Region: ApbE; pfam02424 435591007030 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 435591007031 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 435591007032 G1 box; other site 435591007033 putative GEF interaction site [polypeptide binding]; other site 435591007034 GTP/Mg2+ binding site [chemical binding]; other site 435591007035 Switch I region; other site 435591007036 G2 box; other site 435591007037 G3 box; other site 435591007038 Switch II region; other site 435591007039 G4 box; other site 435591007040 G5 box; other site 435591007041 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 435591007042 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 435591007043 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 435591007044 NADP binding site [chemical binding]; other site 435591007045 active site 435591007046 putative substrate binding site [chemical binding]; other site 435591007047 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 435591007048 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 435591007049 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 435591007050 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 435591007051 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591007052 SusD family; Region: SusD; pfam07980 435591007053 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591007054 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591007055 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591007056 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 (16,20)...; Region: OM_channels; cl17244 435591007057 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 435591007058 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 435591007059 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 435591007060 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 435591007061 active site 435591007062 Fn3 associated; Region: Fn3_assoc; pfam13287 435591007063 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 435591007064 FOG: WD40 repeat [General function prediction only]; Region: COG2319 435591007065 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 435591007066 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591007067 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591007068 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591007069 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591007070 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 (16,20)...; Region: OM_channels; cl17244 435591007071 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591007072 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 435591007073 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 435591007074 dimerization interface [polypeptide binding]; other site 435591007075 ATP binding site [chemical binding]; other site 435591007076 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 435591007077 dimerization interface [polypeptide binding]; other site 435591007078 ATP binding site [chemical binding]; other site 435591007079 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 435591007080 putative active site [active] 435591007081 catalytic triad [active] 435591007082 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591007083 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591007084 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 (16,20)...; Region: OM_channels; cl17244 435591007085 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591007086 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 435591007087 active site 435591007088 metal binding site [ion binding]; metal-binding site 435591007089 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 435591007090 AAA domain; Region: AAA_14; pfam13173 435591007091 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 435591007092 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 435591007093 active site 435591007094 DNA binding site [nucleotide binding] 435591007095 Int/Topo IB signature motif; other site 435591007096 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591007097 Phage replication protein CRI; Region: Phage_CRI; pfam05144 435591007098 T5orf172 domain; Region: T5orf172; pfam10544 435591007099 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 435591007100 active site 435591007101 dimer interface [polypeptide binding]; other site 435591007102 metal binding site [ion binding]; metal-binding site 435591007103 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 435591007104 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 435591007105 motif 1; other site 435591007106 active site 435591007107 motif 2; other site 435591007108 motif 3; other site 435591007109 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 435591007110 DHHA1 domain; Region: DHHA1; pfam02272 435591007111 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 435591007112 Peptidase family M23; Region: Peptidase_M23; pfam01551 435591007113 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 435591007114 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 435591007115 DNA binding residues [nucleotide binding] 435591007116 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 435591007117 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 435591007118 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 435591007119 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 435591007120 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591007121 SusD family; Region: SusD; pfam07980 435591007122 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591007123 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591007124 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591007125 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 (16,20)...; Region: OM_channels; cl17244 435591007126 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 435591007127 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435591007128 Zn2+ binding site [ion binding]; other site 435591007129 Mg2+ binding site [ion binding]; other site 435591007130 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 435591007131 synthetase active site [active] 435591007132 NTP binding site [chemical binding]; other site 435591007133 metal binding site [ion binding]; metal-binding site 435591007134 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 435591007135 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 435591007136 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 435591007137 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 435591007138 putative DNA binding site [nucleotide binding]; other site 435591007139 putative Zn2+ binding site [ion binding]; other site 435591007140 AsnC family; Region: AsnC_trans_reg; pfam01037 435591007141 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 435591007142 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 435591007143 homodimer interface [polypeptide binding]; other site 435591007144 substrate-cofactor binding pocket; other site 435591007145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591007146 catalytic residue [active] 435591007147 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591007148 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 435591007149 active site 435591007150 phosphorylation site [posttranslational modification] 435591007151 intermolecular recognition site; other site 435591007152 dimerization interface [polypeptide binding]; other site 435591007153 LytTr DNA-binding domain; Region: LytTR; smart00850 435591007154 Histidine kinase; Region: His_kinase; pfam06580 435591007155 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 435591007156 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435591007157 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435591007158 catalytic residue [active] 435591007159 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435591007160 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435591007161 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 435591007162 ParB-like nuclease domain; Region: ParBc; pfam02195 435591007163 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 435591007164 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 435591007165 P-loop; other site 435591007166 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435591007167 Magnesium ion binding site [ion binding]; other site 435591007168 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 435591007169 Magnesium ion binding site [ion binding]; other site 435591007170 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 435591007171 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 435591007172 Protein of unknown function (DUF419); Region: DUF419; pfam04237 435591007173 hypothetical protein; Reviewed; Region: PRK12497 435591007174 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 435591007175 nucleoside/Zn binding site; other site 435591007176 dimer interface [polypeptide binding]; other site 435591007177 catalytic motif [active] 435591007178 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 435591007179 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 435591007180 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 435591007181 putative recombination protein RecB; Provisional; Region: PRK13909 435591007182 Family description; Region: UvrD_C_2; pfam13538 435591007183 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 435591007184 putative rRNA binding site [nucleotide binding]; other site 435591007185 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 435591007186 PAS fold; Region: PAS_3; pfam08447 435591007187 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591007188 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591007189 dimer interface [polypeptide binding]; other site 435591007190 phosphorylation site [posttranslational modification] 435591007191 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 435591007192 ATP binding site [chemical binding]; other site 435591007193 Mg2+ binding site [ion binding]; other site 435591007194 G-X-G motif; other site 435591007195 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 435591007196 homotrimer interaction site [polypeptide binding]; other site 435591007197 zinc binding site [ion binding]; other site 435591007198 CDP-binding sites; other site 435591007199 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 435591007200 active site 435591007201 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 435591007202 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 435591007203 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 435591007204 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 435591007205 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 435591007206 CoA binding domain; Region: CoA_binding; pfam02629 435591007207 BRO family, N-terminal domain; Region: Bro-N; smart01040 435591007208 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 435591007209 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 435591007210 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 435591007211 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 435591007212 metal binding site [ion binding]; metal-binding site 435591007213 dimer interface [polypeptide binding]; other site 435591007214 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 435591007215 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 435591007216 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 435591007217 S-adenosylmethionine binding site [chemical binding]; other site 435591007218 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 435591007219 MgtE intracellular N domain; Region: MgtE_N; smart00924 435591007220 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 435591007221 Divalent cation transporter; Region: MgtE; pfam01769 435591007222 LrgA family; Region: LrgA; pfam03788 435591007223 LrgB-like family; Region: LrgB; pfam04172 435591007224 elongation factor P; Validated; Region: PRK00529 435591007225 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 435591007226 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 435591007227 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 435591007228 RNA binding site [nucleotide binding]; other site 435591007229 hypothetical protein; Reviewed; Region: PRK00024 435591007230 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 435591007231 MPN+ (JAMM) motif; other site 435591007232 Zinc-binding site [ion binding]; other site 435591007233 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 435591007234 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591007235 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 435591007236 putative active site [active] 435591007237 putative metal binding site [ion binding]; other site 435591007238 PBP superfamily domain; Region: PBP_like_2; cl17296 435591007239 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 435591007240 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 435591007241 FMN binding site [chemical binding]; other site 435591007242 substrate binding site [chemical binding]; other site 435591007243 putative catalytic residue [active] 435591007244 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 435591007245 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435591007246 ligand binding site [chemical binding]; other site 435591007247 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 435591007248 binding surface 435591007249 TPR motif; other site 435591007250 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 435591007251 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435591007252 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 435591007253 DNA binding residues [nucleotide binding] 435591007254 dimerization interface [polypeptide binding]; other site 435591007255 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 435591007256 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 435591007257 homotrimer interaction site [polypeptide binding]; other site 435591007258 putative active site [active] 435591007259 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 435591007260 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 435591007261 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 435591007262 Imelysin; Region: Peptidase_M75; pfam09375 435591007263 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591007264 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 435591007265 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 435591007266 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591007267 Sulfatase; Region: Sulfatase; pfam00884 435591007268 arylsulfatase; Provisional; Region: PRK13759 435591007269 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591007270 LysE type translocator; Region: LysE; cl00565 435591007271 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 435591007272 putative ligand binding site [chemical binding]; other site 435591007273 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 435591007274 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591007275 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591007276 DNA binding residues [nucleotide binding] 435591007277 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591007278 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591007279 dimer interface [polypeptide binding]; other site 435591007280 phosphorylation site [posttranslational modification] 435591007281 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 435591007282 ATP binding site [chemical binding]; other site 435591007283 G-X-G motif; other site 435591007284 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591007285 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591007286 dimer interface [polypeptide binding]; other site 435591007287 phosphorylation site [posttranslational modification] 435591007288 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 435591007289 ATP binding site [chemical binding]; other site 435591007290 Mg2+ binding site [ion binding]; other site 435591007291 G-X-G motif; other site 435591007292 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 435591007293 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 435591007294 RNA binding site [nucleotide binding]; other site 435591007295 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 435591007296 RNA binding site [nucleotide binding]; other site 435591007297 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 435591007298 RNA binding site [nucleotide binding]; other site 435591007299 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 435591007300 RNA binding site [nucleotide binding]; other site 435591007301 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...; Region: S1_RPS1_repeat_ec5; cd05690 435591007302 RNA binding site [nucleotide binding]; other site 435591007303 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 435591007304 RNA binding site [nucleotide binding]; other site 435591007305 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 435591007306 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 435591007307 motif II; other site 435591007308 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591007309 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 435591007310 IHF - DNA interface [nucleotide binding]; other site 435591007311 IHF dimer interface [polypeptide binding]; other site 435591007312 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435591007313 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591007314 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591007315 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 435591007316 active site 435591007317 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 435591007318 intermolecular salt bridges; other site 435591007319 calcium mediated ligand binding site; other site 435591007320 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 435591007321 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 435591007322 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591007323 Coenzyme A binding pocket [chemical binding]; other site 435591007324 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 435591007325 catalytic core [active] 435591007326 AAA domain; Region: AAA_33; pfam13671 435591007327 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 435591007328 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 435591007329 Ligand binding site; other site 435591007330 oligomer interface; other site 435591007331 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 435591007332 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 435591007333 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 435591007334 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 435591007335 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 435591007336 NigD-like protein; Region: NigD; pfam12667 435591007337 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591007338 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591007339 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591007340 DNA binding residues [nucleotide binding] 435591007341 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435591007342 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 435591007343 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591007344 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 435591007345 DNA binding residues [nucleotide binding] 435591007346 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591007347 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591007348 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591007349 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591007350 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591007351 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 435591007352 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 435591007353 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 435591007354 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 435591007355 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 435591007356 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 435591007357 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 435591007358 PA/protease or protease-like domain interface [polypeptide binding]; other site 435591007359 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 435591007360 Peptidase family M28; Region: Peptidase_M28; pfam04389 435591007361 metal binding site [ion binding]; metal-binding site 435591007362 ribonuclease Z; Region: RNase_Z; TIGR02651 435591007363 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 435591007364 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 435591007365 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 435591007366 phosphoglyceromutase; Provisional; Region: PRK05434 435591007367 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 435591007368 Protein of unknown function DUF45; Region: DUF45; pfam01863 435591007369 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591007370 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591007371 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 (16,20)...; Region: OM_channels; cl17244 435591007372 cell surface protein SprA; Region: surface_SprA; TIGR04189 435591007373 Motility related/secretion protein; Region: SprA_N; pfam14349 435591007374 Motility related/secretion protein; Region: SprA_N; pfam14349 435591007375 Motility related/secretion protein; Region: SprA_N; pfam14349 435591007376 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 435591007377 RuvA N terminal domain; Region: RuvA_N; pfam01330 435591007378 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 435591007379 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 435591007380 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 435591007381 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 435591007382 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 435591007383 TrkA-N domain; Region: TrkA_N; pfam02254 435591007384 TrkA-C domain; Region: TrkA_C; pfam02080 435591007385 TrkA-N domain; Region: TrkA_N; pfam02254 435591007386 TrkA-C domain; Region: TrkA_C; pfam02080 435591007387 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 435591007388 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 435591007389 TPP-binding site; other site 435591007390 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 435591007391 PYR/PP interface [polypeptide binding]; other site 435591007392 dimer interface [polypeptide binding]; other site 435591007393 TPP binding site [chemical binding]; other site 435591007394 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 435591007395 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 435591007396 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 435591007397 TPR motif; other site 435591007398 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591007399 binding surface 435591007400 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591007401 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 435591007402 binding surface 435591007403 TPR motif; other site 435591007404 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 435591007405 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 435591007406 active site 435591007407 dimerization interface [polypeptide binding]; other site 435591007408 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 435591007409 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591007410 Family of unknown function (DUF490); Region: DUF490; pfam04357 435591007411 Surface antigen; Region: Bac_surface_Ag; pfam01103 435591007412 Arginase family; Region: Arginase; cd09989 435591007413 active site 435591007414 Mn binding site [ion binding]; other site 435591007415 oligomer interface [polypeptide binding]; other site 435591007416 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 435591007417 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 435591007418 inhibitor-cofactor binding pocket; inhibition site 435591007419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591007420 catalytic residue [active] 435591007421 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 435591007422 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 435591007423 ATP-grasp domain; Region: ATP-grasp_4; cl17255 435591007424 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 435591007425 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 435591007426 RNA binding surface [nucleotide binding]; other site 435591007427 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 435591007428 active site 435591007429 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 435591007430 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 435591007431 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 435591007432 binding surface 435591007433 TPR motif; other site 435591007434 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 435591007435 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 435591007436 binding surface 435591007437 TPR motif; other site 435591007438 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 435591007439 binding surface 435591007440 TPR motif; other site 435591007441 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 435591007442 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 435591007443 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 435591007444 active site 435591007445 catalytic residues [active] 435591007446 metal binding site [ion binding]; metal-binding site 435591007447 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 435591007448 carboxyltransferase (CT) interaction site; other site 435591007449 biotinylation site [posttranslational modification]; other site 435591007450 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 435591007451 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 435591007452 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 435591007453 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 435591007454 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 435591007455 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 435591007456 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 435591007457 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 435591007458 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 435591007459 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591007460 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 435591007461 active site 435591007462 phosphorylation site [posttranslational modification] 435591007463 intermolecular recognition site; other site 435591007464 dimerization interface [polypeptide binding]; other site 435591007465 LytTr DNA-binding domain; Region: LytTR; smart00850 435591007466 Histidine kinase; Region: His_kinase; pfam06580 435591007467 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591007468 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 (16,20)...; Region: OM_channels; cl17244 435591007469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 435591007470 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 435591007471 homodecamer interface [polypeptide binding]; other site 435591007472 GTP cyclohydrolase I; Provisional; Region: PLN03044 435591007473 active site 435591007474 putative catalytic site residues [active] 435591007475 zinc binding site [ion binding]; other site 435591007476 GTP-CH-I/GFRP interaction surface; other site 435591007477 triosephosphate isomerase; Provisional; Region: PRK14567 435591007478 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 435591007479 substrate binding site [chemical binding]; other site 435591007480 dimer interface [polypeptide binding]; other site 435591007481 catalytic triad [active] 435591007482 Predicted membrane protein [Function unknown]; Region: COG2259 435591007483 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 435591007484 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 435591007485 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 435591007486 Peptidase family M23; Region: Peptidase_M23; pfam01551 435591007487 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435591007488 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435591007489 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 435591007490 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 435591007491 generic binding surface II; other site 435591007492 ssDNA binding site; other site 435591007493 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 435591007494 ATP binding site [chemical binding]; other site 435591007495 putative Mg++ binding site [ion binding]; other site 435591007496 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 435591007497 nucleotide binding region [chemical binding]; other site 435591007498 ATP-binding site [chemical binding]; other site 435591007499 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 435591007500 substrate binding site; other site 435591007501 dimer interface; other site 435591007502 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 435591007503 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 435591007504 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 435591007505 generic binding surface II; other site 435591007506 generic binding surface I; other site 435591007507 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 435591007508 active site 435591007509 catalytic triad [active] 435591007510 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 435591007511 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 435591007512 putative DNA binding site [nucleotide binding]; other site 435591007513 putative Zn2+ binding site [ion binding]; other site 435591007514 AsnC family; Region: AsnC_trans_reg; pfam01037 435591007515 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 435591007516 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 435591007517 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435591007518 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 435591007519 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 435591007520 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435591007521 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 435591007522 NAD-dependent deacetylase; Provisional; Region: PRK00481 435591007523 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 435591007524 NAD+ binding site [chemical binding]; other site 435591007525 substrate binding site [chemical binding]; other site 435591007526 Zn binding site [ion binding]; other site 435591007527 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 435591007528 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 435591007529 non-specific DNA binding site [nucleotide binding]; other site 435591007530 salt bridge; other site 435591007531 sequence-specific DNA binding site [nucleotide binding]; other site 435591007532 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 435591007533 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 435591007534 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 435591007535 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 435591007536 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 435591007537 active site 435591007538 catalytic site [active] 435591007539 substrate binding site [chemical binding]; other site 435591007540 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 435591007541 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591007542 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 from...; Region: WD40; cl02567 435591007543 structural tetrad; other site 435591007544 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 435591007545 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 435591007546 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 435591007547 protein binding site [polypeptide binding]; other site 435591007548 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 435591007549 Domain interface; other site 435591007550 Peptide binding site; other site 435591007551 Active site tetrad [active] 435591007552 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 435591007553 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 435591007554 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 435591007555 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 435591007556 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591007557 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 435591007558 TPR motif; other site 435591007559 binding surface 435591007560 Histidine kinase; Region: His_kinase; pfam06580 435591007561 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 435591007562 ATP binding site [chemical binding]; other site 435591007563 Mg2+ binding site [ion binding]; other site 435591007564 G-X-G motif; other site 435591007565 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 435591007566 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591007567 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591007568 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591007569 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 435591007570 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 435591007571 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 435591007572 protein binding site [polypeptide binding]; other site 435591007573 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 435591007574 Domain interface; other site 435591007575 Peptide binding site; other site 435591007576 Active site tetrad [active] 435591007577 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 435591007578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591007579 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591007580 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591007581 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 435591007582 DinB superfamily; Region: DinB_2; pfam12867 435591007583 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 435591007584 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 435591007585 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 435591007586 Fn3 associated; Region: Fn3_assoc; pfam13287 435591007587 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 435591007588 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435591007589 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 435591007590 substrate binding pocket [chemical binding]; other site 435591007591 membrane-bound complex binding site; other site 435591007592 hinge residues; other site 435591007593 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435591007594 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591007595 dimer interface [polypeptide binding]; other site 435591007596 phosphorylation site [posttranslational modification] 435591007597 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 435591007598 ATP binding site [chemical binding]; other site 435591007599 Mg2+ binding site [ion binding]; other site 435591007600 G-X-G motif; other site 435591007601 Response regulator receiver domain; Region: Response_reg; pfam00072 435591007602 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 435591007603 active site 435591007604 phosphorylation site [posttranslational modification] 435591007605 intermolecular recognition site; other site 435591007606 dimerization interface [polypeptide binding]; other site 435591007607 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435591007608 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 435591007609 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 435591007610 substrate binding pocket [chemical binding]; other site 435591007611 catalytic triad [active] 435591007612 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 435591007613 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 435591007614 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 435591007615 Ca binding site [ion binding]; other site 435591007616 active site 435591007617 homodimer interface [polypeptide binding]; other site 435591007618 catalytic site [active] 435591007619 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 435591007620 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591007621 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591007622 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591007623 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591007624 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591007625 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 (16,20)...; Region: OM_channels; cl17244 435591007626 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 435591007627 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 435591007628 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 435591007629 Ca binding site [ion binding]; other site 435591007630 active site 435591007631 homodimer interface [polypeptide binding]; other site 435591007632 catalytic site [active] 435591007633 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 435591007634 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591007635 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591007636 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591007637 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 435591007638 Two component regulator propeller; Region: Reg_prop; pfam07494 435591007639 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 435591007640 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591007641 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591007642 dimer interface [polypeptide binding]; other site 435591007643 phosphorylation site [posttranslational modification] 435591007644 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 435591007645 ATP binding site [chemical binding]; other site 435591007646 Mg2+ binding site [ion binding]; other site 435591007647 G-X-G motif; other site 435591007648 Response regulator receiver domain; Region: Response_reg; pfam00072 435591007649 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 435591007650 active site 435591007651 phosphorylation site [posttranslational modification] 435591007652 intermolecular recognition site; other site 435591007653 dimerization interface [polypeptide binding]; other site 435591007654 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591007655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591007656 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 435591007657 This domain is found in peptide chain release factors; Region: PCRF; smart00937 435591007658 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 435591007659 RF-1 domain; Region: RF-1; pfam00472 435591007660 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 435591007661 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 435591007662 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 435591007663 acyl-activating enzyme (AAE) consensus motif; other site 435591007664 acyl-activating enzyme (AAE) consensus motif; other site 435591007665 putative AMP binding site [chemical binding]; other site 435591007666 putative active site [active] 435591007667 putative CoA binding site [chemical binding]; other site 435591007668 Predicted transcriptional regulators [Transcription]; Region: COG1695 435591007669 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 435591007670 phage shock protein C; Region: phageshock_pspC; TIGR02978 435591007671 PspC domain; Region: PspC; pfam04024 435591007672 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 435591007673 nucleotide binding site/active site [active] 435591007674 HIT family signature motif; other site 435591007675 catalytic residue [active] 435591007676 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 435591007677 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 435591007678 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 435591007679 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 435591007680 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 435591007681 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591007682 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 435591007683 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 435591007684 RNase E interface [polypeptide binding]; other site 435591007685 trimer interface [polypeptide binding]; other site 435591007686 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 435591007687 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 435591007688 RNase E interface [polypeptide binding]; other site 435591007689 trimer interface [polypeptide binding]; other site 435591007690 active site 435591007691 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 435591007692 putative nucleic acid binding region [nucleotide binding]; other site 435591007693 G-X-X-G motif; other site 435591007694 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 435591007695 RNA binding site [nucleotide binding]; other site 435591007696 domain interface; other site 435591007697 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 435591007698 RNA binding site [nucleotide binding]; other site 435591007699 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 435591007700 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 435591007701 binding surface 435591007702 TPR repeat; Region: TPR_11; pfam13414 435591007703 TPR motif; other site 435591007704 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591007705 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 435591007706 binding surface 435591007707 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591007708 TPR motif; other site 435591007709 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 435591007710 AAA domain; Region: AAA_14; pfam13173 435591007711 fumarate hydratase; Provisional; Region: PRK15389 435591007712 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 435591007713 Fumarase C-terminus; Region: Fumerase_C; pfam05683 435591007714 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435591007715 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 435591007716 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 435591007717 TPR motif; other site 435591007718 binding surface 435591007719 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 435591007720 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 435591007721 G1 box; other site 435591007722 putative GEF interaction site [polypeptide binding]; other site 435591007723 GTP/Mg2+ binding site [chemical binding]; other site 435591007724 Switch I region; other site 435591007725 G2 box; other site 435591007726 G3 box; other site 435591007727 Switch II region; other site 435591007728 G4 box; other site 435591007729 G5 box; other site 435591007730 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 435591007731 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 435591007732 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 435591007733 16S/18S rRNA binding site [nucleotide binding]; other site 435591007734 S13e-L30e interaction site [polypeptide binding]; other site 435591007735 25S rRNA binding site [nucleotide binding]; other site 435591007736 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 435591007737 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 435591007738 salt bridge; other site 435591007739 non-specific DNA binding site [nucleotide binding]; other site 435591007740 sequence-specific DNA binding site [nucleotide binding]; other site 435591007741 Cupin domain; Region: Cupin_2; pfam07883 435591007742 AMP-binding domain protein; Validated; Region: PRK08315 435591007743 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 435591007744 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 435591007745 acyl-activating enzyme (AAE) consensus motif; other site 435591007746 putative AMP binding site [chemical binding]; other site 435591007747 putative active site [active] 435591007748 putative CoA binding site [chemical binding]; other site 435591007749 Cupin domain; Region: Cupin_2; cl17218 435591007750 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591007751 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591007752 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591007753 short chain dehydrogenase; Provisional; Region: PRK06172 435591007754 classical (c) SDRs; Region: SDR_c; cd05233 435591007755 NAD(P) binding site [chemical binding]; other site 435591007756 active site 435591007757 Adenosylhomocysteinase; Provisional; Region: PTZ00075 435591007758 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 435591007759 homotetramer interface [polypeptide binding]; other site 435591007760 ligand binding site [chemical binding]; other site 435591007761 catalytic site [active] 435591007762 NAD binding site [chemical binding]; other site 435591007763 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591007764 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 435591007765 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 435591007766 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 435591007767 metal-binding site 435591007768 Divergent AAA domain; Region: AAA_4; pfam04326 435591007769 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 435591007770 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591007771 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 435591007772 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591007773 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 435591007774 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 435591007775 active site 435591007776 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 435591007777 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 435591007778 trimer interface [polypeptide binding]; other site 435591007779 active site 435591007780 substrate binding site [chemical binding]; other site 435591007781 CoA binding site [chemical binding]; other site 435591007782 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 435591007783 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 435591007784 inhibitor-cofactor binding pocket; inhibition site 435591007785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591007786 catalytic residue [active] 435591007787 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 435591007788 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 435591007789 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435591007790 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 435591007791 Probable Catalytic site; other site 435591007792 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 435591007793 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591007794 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591007795 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435591007796 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 435591007797 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 435591007798 inhibitor-cofactor binding pocket; inhibition site 435591007799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591007800 catalytic residue [active] 435591007801 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 435591007802 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 435591007803 active site 435591007804 HIGH motif; other site 435591007805 KMSKS motif; other site 435591007806 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 435591007807 tRNA binding surface [nucleotide binding]; other site 435591007808 anticodon binding site; other site 435591007809 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 435591007810 dimer interface [polypeptide binding]; other site 435591007811 putative tRNA-binding site [nucleotide binding]; other site 435591007812 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 435591007813 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 435591007814 cellulose synthase-like protein; Region: PLN02248 435591007815 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 435591007816 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591007817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591007818 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 435591007819 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 435591007820 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591007821 Walker A motif; other site 435591007822 ATP binding site [chemical binding]; other site 435591007823 Walker B motif; other site 435591007824 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 435591007825 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 435591007826 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 435591007827 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 435591007828 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591007829 catalytic residues [active] 435591007830 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 435591007831 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 435591007832 active site 435591007833 substrate-binding site [chemical binding]; other site 435591007834 metal-binding site [ion binding] 435591007835 ATP binding site [chemical binding]; other site 435591007836 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 435591007837 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 435591007838 TPP-binding site [chemical binding]; other site 435591007839 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 435591007840 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 435591007841 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 435591007842 dimer interface [polypeptide binding]; other site 435591007843 PYR/PP interface [polypeptide binding]; other site 435591007844 TPP binding site [chemical binding]; other site 435591007845 substrate binding site [chemical binding]; other site 435591007846 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 435591007847 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 435591007848 hexamer interface [polypeptide binding]; other site 435591007849 ligand binding site [chemical binding]; other site 435591007850 putative active site [active] 435591007851 NAD(P) binding site [chemical binding]; other site 435591007852 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 435591007853 Shikimate kinase; Region: SKI; pfam01202 435591007854 ADP binding site [chemical binding]; other site 435591007855 magnesium binding site [ion binding]; other site 435591007856 putative shikimate binding site; other site 435591007857 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 435591007858 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 435591007859 Ligand binding site; other site 435591007860 Putative Catalytic site; other site 435591007861 DXD motif; other site 435591007862 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 435591007863 putative active site [active] 435591007864 putative catalytic site [active] 435591007865 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 435591007866 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 435591007867 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 435591007868 active site 435591007869 RNA/DNA hybrid binding site [nucleotide binding]; other site 435591007870 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591007871 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 435591007872 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591007873 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 435591007874 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 435591007875 active site 435591007876 ATP binding site [chemical binding]; other site 435591007877 substrate binding site [chemical binding]; other site 435591007878 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 435591007879 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 435591007880 putative active site [active] 435591007881 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 435591007882 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435591007883 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 435591007884 active site 435591007885 phosphorylation site [posttranslational modification] 435591007886 intermolecular recognition site; other site 435591007887 dimerization interface [polypeptide binding]; other site 435591007888 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 435591007889 DNA binding site [nucleotide binding] 435591007890 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591007891 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 435591007892 ATP binding site [chemical binding]; other site 435591007893 Mg2+ binding site [ion binding]; other site 435591007894 G-X-G motif; other site 435591007895 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591007896 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591007897 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 435591007898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591007899 putative substrate translocation pore; other site 435591007900 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 435591007901 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 435591007902 ligand binding site [chemical binding]; other site 435591007903 NAD binding site [chemical binding]; other site 435591007904 catalytic site [active] 435591007905 homodimer interface [polypeptide binding]; other site 435591007906 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 435591007907 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 435591007908 active site 435591007909 substrate binding site [chemical binding]; other site 435591007910 cosubstrate binding site; other site 435591007911 catalytic site [active] 435591007912 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 435591007913 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 435591007914 dimer interface [polypeptide binding]; other site 435591007915 active site 435591007916 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 435591007917 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 435591007918 dimerization interface [polypeptide binding]; other site 435591007919 active site 435591007920 metal binding site [ion binding]; metal-binding site 435591007921 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 435591007922 dsRNA binding site [nucleotide binding]; other site 435591007923 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 435591007924 6-phosphofructokinase; Provisional; Region: PRK03202 435591007925 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 435591007926 active site 435591007927 ADP/pyrophosphate binding site [chemical binding]; other site 435591007928 dimerization interface [polypeptide binding]; other site 435591007929 allosteric effector site; other site 435591007930 fructose-1,6-bisphosphate binding site; other site 435591007931 GH3 auxin-responsive promoter; Region: GH3; pfam03321 435591007932 PAP2_like_5 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_5; cd03394 435591007933 active site 435591007934 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 435591007935 Right handed beta helix region; Region: Beta_helix; pfam13229 435591007936 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 435591007937 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 435591007938 ATP binding site [chemical binding]; other site 435591007939 Mg2+ binding site [ion binding]; other site 435591007940 G-X-G motif; other site 435591007941 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 435591007942 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 435591007943 active site 435591007944 phosphorylation site [posttranslational modification] 435591007945 intermolecular recognition site; other site 435591007946 dimerization interface [polypeptide binding]; other site 435591007947 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591007948 Walker A motif; other site 435591007949 ATP binding site [chemical binding]; other site 435591007950 Walker B motif; other site 435591007951 arginine finger; other site 435591007952 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435591007953 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591007954 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591007955 FtsX-like permease family; Region: FtsX; pfam02687 435591007956 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 435591007957 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 435591007958 active site 435591007959 HIGH motif; other site 435591007960 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 435591007961 KMSKS motif; other site 435591007962 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 435591007963 tRNA binding surface [nucleotide binding]; other site 435591007964 anticodon binding site; other site 435591007965 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 435591007966 CoenzymeA binding site [chemical binding]; other site 435591007967 subunit interaction site [polypeptide binding]; other site 435591007968 PHB binding site; other site 435591007969 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 435591007970 Bacterial Ig-like domain; Region: Big_5; pfam13205 435591007971 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591007972 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591007973 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591007974 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 435591007975 dihydrodipicolinate reductase; Provisional; Region: PRK00048 435591007976 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 435591007977 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 435591007978 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 435591007979 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 435591007980 Catalytic site [active] 435591007981 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 435591007982 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 435591007983 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 435591007984 Catalytic site [active] 435591007985 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 435591007986 WbqC-like protein family; Region: WbqC; pfam08889 435591007987 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 435591007988 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435591007989 catalytic residue [active] 435591007990 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 435591007991 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 435591007992 motif II; other site 435591007993 Phosphate transporter family; Region: PHO4; cl00396 435591007994 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 435591007995 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591007996 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591007997 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591007998 DNA binding residues [nucleotide binding] 435591007999 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 435591008000 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 435591008001 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591008002 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 435591008003 amidase catalytic site [active] 435591008004 Zn binding residues [ion binding]; other site 435591008005 substrate binding site [chemical binding]; other site 435591008006 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591008007 FecR protein; Region: FecR; pfam04773 435591008008 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591008009 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008010 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591008011 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591008012 SusD family; Region: SusD; pfam07980 435591008013 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591008014 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591008015 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591008016 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 435591008017 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 435591008018 active site 435591008019 trimer interface [polypeptide binding]; other site 435591008020 allosteric site; other site 435591008021 active site lid [active] 435591008022 hexamer (dimer of trimers) interface [polypeptide binding]; other site 435591008023 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 435591008024 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435591008025 nucleotide binding site [chemical binding]; other site 435591008026 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 435591008027 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591008028 putative substrate translocation pore; other site 435591008029 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 435591008030 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 435591008031 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 435591008032 putative ATP binding site [chemical binding]; other site 435591008033 putative substrate interface [chemical binding]; other site 435591008034 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 435591008035 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435591008036 Walker A/P-loop; other site 435591008037 ATP binding site [chemical binding]; other site 435591008038 Q-loop/lid; other site 435591008039 ABC transporter signature motif; other site 435591008040 Walker B; other site 435591008041 D-loop; other site 435591008042 H-loop/switch region; other site 435591008043 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 435591008044 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 435591008045 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 435591008046 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 435591008047 OmpA family; Region: OmpA; pfam00691 435591008048 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 435591008049 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 435591008050 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591008051 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 435591008052 active site 435591008053 catalytic residues [active] 435591008054 DNA binding site [nucleotide binding] 435591008055 Int/Topo IB signature motif; other site 435591008056 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 435591008057 Na2 binding site [ion binding]; other site 435591008058 putative substrate binding site 1 [chemical binding]; other site 435591008059 Na binding site 1 [ion binding]; other site 435591008060 putative substrate binding site 2 [chemical binding]; other site 435591008061 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 435591008062 Predicted ATPase [General function prediction only]; Region: COG3910 435591008063 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 435591008064 Walker A/P-loop; other site 435591008065 ATP binding site [chemical binding]; other site 435591008066 Q-loop/lid; other site 435591008067 ABC transporter signature motif; other site 435591008068 Walker B; other site 435591008069 D-loop; other site 435591008070 H-loop/switch region; other site 435591008071 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 435591008072 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008073 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 (16,20)...; Region: OM_channels; cl17244 435591008074 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 435591008075 amino acid carrier protein; Region: agcS; TIGR00835 435591008076 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 435591008077 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 435591008078 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 435591008079 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 435591008080 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 435591008081 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 435591008082 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 435591008083 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 435591008084 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 435591008085 PA/protease or protease-like domain interface [polypeptide binding]; other site 435591008086 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 435591008087 metal binding site [ion binding]; metal-binding site 435591008088 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...; Region: SIS_Kpsf; cd05014 435591008089 putative active site [active] 435591008090 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 435591008091 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435591008092 putative substrate binding site [chemical binding]; other site 435591008093 putative ATP binding site [chemical binding]; other site 435591008094 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 435591008095 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 435591008096 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 435591008097 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 435591008098 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 435591008099 cleavage site 435591008100 active site 435591008101 substrate binding sites [chemical binding]; other site 435591008102 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 435591008103 DEAD-like helicases superfamily; Region: DEXDc; smart00487 435591008104 ATP binding site [chemical binding]; other site 435591008105 Mg++ binding site [ion binding]; other site 435591008106 motif III; other site 435591008107 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 435591008108 nucleotide binding region [chemical binding]; other site 435591008109 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 435591008110 RNA binding site [nucleotide binding]; other site 435591008111 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591008112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591008113 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591008114 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591008115 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591008116 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591008117 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 435591008118 Peptidase family C69; Region: Peptidase_C69; cl17793 435591008119 Peptidase C1-like family; Region: Peptidase_C1_2; cl17447 435591008120 Peptidase S46; Region: Peptidase_S46; pfam10459 435591008121 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435591008122 Domain of unknown function (DUF389); Region: DUF389; pfam04087 435591008123 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591008124 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591008125 dimer interface [polypeptide binding]; other site 435591008126 phosphorylation site [posttranslational modification] 435591008127 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 435591008128 ATP binding site [chemical binding]; other site 435591008129 Mg2+ binding site [ion binding]; other site 435591008130 G-X-G motif; other site 435591008131 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591008132 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 435591008133 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 435591008134 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591008135 Walker A motif; other site 435591008136 ATP binding site [chemical binding]; other site 435591008137 Walker B motif; other site 435591008138 arginine finger; other site 435591008139 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 435591008140 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 435591008141 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 435591008142 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008143 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 435591008144 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 435591008145 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 435591008146 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435591008147 dimerization interface [polypeptide binding]; other site 435591008148 DNA binding residues [nucleotide binding] 435591008149 radical SAM peptide maturase, GG-Bacteroidales family; Region: GG_samocin_CFB; TIGR04148 435591008150 pseudo-rSAM protein, GG-Bacteroidales system; Region: pseudo_rSAM_GG; TIGR04150 435591008151 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 435591008152 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591008153 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435591008154 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591008155 active site 435591008156 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 435591008157 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591008158 active site 435591008159 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 435591008160 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 435591008161 putative active site [active] 435591008162 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435591008163 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591008164 Walker A/P-loop; other site 435591008165 ATP binding site [chemical binding]; other site 435591008166 Q-loop/lid; other site 435591008167 ABC transporter signature motif; other site 435591008168 Walker B; other site 435591008169 D-loop; other site 435591008170 H-loop/switch region; other site 435591008171 radical SAM/SPASM domain Clo7bot peptide maturase; Region: rSAM_Clo7bot; TIGR04334 435591008172 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 435591008173 FeS/SAM binding site; other site 435591008174 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 435591008175 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591008176 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 435591008177 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591008178 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 435591008179 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 435591008180 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 435591008181 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435591008182 nucleotide binding site [chemical binding]; other site 435591008183 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 435591008184 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 435591008185 Class I aldolases; Region: Aldolase_Class_I; cl17187 435591008186 catalytic residue [active] 435591008187 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 435591008188 dimerization interface [polypeptide binding]; other site 435591008189 putative active cleft [active] 435591008190 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 435591008191 D-galactonate transporter; Region: 2A0114; TIGR00893 435591008192 putative substrate translocation pore; other site 435591008193 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591008194 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008195 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591008196 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 (16,20)...; Region: OM_channels; cl17244 435591008197 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591008198 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 435591008199 catalytic site [active] 435591008200 BNR repeat-like domain; Region: BNR_2; pfam13088 435591008201 Asp-box motif; other site 435591008202 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 435591008203 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 435591008204 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 435591008205 active site 435591008206 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 435591008207 active site 435591008208 catalytic triad [active] 435591008209 oxyanion hole [active] 435591008210 Domain of unknown function (DUF303); Region: DUF303; pfam03629 435591008211 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 435591008212 Galactose oxidase, central domain; Region: Kelch_3; cl02701 435591008213 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 435591008214 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591008215 ligand binding site [chemical binding]; other site 435591008216 flexible hinge region; other site 435591008217 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 435591008218 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 435591008219 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435591008220 catalytic residue [active] 435591008221 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 435591008222 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 435591008223 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 435591008224 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 435591008225 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 435591008226 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 435591008227 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 435591008228 A new structural DNA glycosylase; Region: AlkD_like; cd06561 435591008229 active site 435591008230 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 435591008231 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 435591008232 putative ligand binding site [chemical binding]; other site 435591008233 putative NAD binding site [chemical binding]; other site 435591008234 catalytic site [active] 435591008235 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 435591008236 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 435591008237 probable rRNA maturation factor YbeY; Region: TIGR00043 435591008238 KilA-N domain; Region: KilA-N; pfam04383 435591008239 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591008240 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 435591008241 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591008242 active site 435591008243 metal binding site [ion binding]; metal-binding site 435591008244 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 435591008245 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 435591008246 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 435591008247 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 435591008248 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 435591008249 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 435591008250 active site 435591008251 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 435591008252 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 435591008253 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 435591008254 GIY-YIG motif/motif A; other site 435591008255 active site 435591008256 catalytic site [active] 435591008257 putative DNA binding site [nucleotide binding]; other site 435591008258 metal binding site [ion binding]; metal-binding site 435591008259 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 435591008260 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 435591008261 putative active site [active] 435591008262 dimerization interface [polypeptide binding]; other site 435591008263 putative tRNAtyr binding site [nucleotide binding]; other site 435591008264 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 435591008265 homodimer interface [polypeptide binding]; other site 435591008266 metal binding site [ion binding]; metal-binding site 435591008267 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 435591008268 intersubunit interface [polypeptide binding]; other site 435591008269 active site 435591008270 catalytic residue [active] 435591008271 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 435591008272 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 435591008273 substrate binding pocket [chemical binding]; other site 435591008274 chain length determination region; other site 435591008275 substrate-Mg2+ binding site; other site 435591008276 catalytic residues [active] 435591008277 aspartate-rich region 1; other site 435591008278 active site lid residues [active] 435591008279 aspartate-rich region 2; other site 435591008280 DNA polymerase I; Provisional; Region: PRK05755 435591008281 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 435591008282 active site 435591008283 metal binding site 1 [ion binding]; metal-binding site 435591008284 putative 5' ssDNA interaction site; other site 435591008285 metal binding site 3; metal-binding site 435591008286 metal binding site 2 [ion binding]; metal-binding site 435591008287 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 435591008288 putative DNA binding site [nucleotide binding]; other site 435591008289 putative metal binding site [ion binding]; other site 435591008290 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 435591008291 active site 435591008292 catalytic site [active] 435591008293 substrate binding site [chemical binding]; other site 435591008294 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 435591008295 active site 435591008296 DNA binding site [nucleotide binding] 435591008297 catalytic site [active] 435591008298 MFS transport protein AraJ; Provisional; Region: PRK10091 435591008299 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 435591008300 putative substrate translocation pore; other site 435591008301 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 435591008302 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 435591008303 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 435591008304 active site 435591008305 DNA binding site [nucleotide binding] 435591008306 Int/Topo IB signature motif; other site 435591008307 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 435591008308 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 435591008309 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 435591008310 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 435591008311 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 435591008312 DNA methylase; Region: N6_N4_Mtase; pfam01555 435591008313 Uncharacterized conserved protein [Function unknown]; Region: COG2361 435591008314 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435591008315 active site 435591008316 NTP binding site [chemical binding]; other site 435591008317 metal binding triad [ion binding]; metal-binding site 435591008318 antibiotic binding site [chemical binding]; other site 435591008319 Replication initiation factor; Region: Rep_trans; pfam02486 435591008320 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591008321 GTP-binding protein YchF; Reviewed; Region: PRK09601 435591008322 YchF GTPase; Region: YchF; cd01900 435591008323 G1 box; other site 435591008324 GTP/Mg2+ binding site [chemical binding]; other site 435591008325 Switch I region; other site 435591008326 G2 box; other site 435591008327 Switch II region; other site 435591008328 G3 box; other site 435591008329 G4 box; other site 435591008330 G5 box; other site 435591008331 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 435591008332 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 435591008333 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591008334 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591008335 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591008336 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 435591008337 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 435591008338 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 435591008339 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 435591008340 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 435591008341 RNA polymerase sigma factor; Provisional; Region: PRK11924 435591008342 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591008343 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591008344 DNA binding residues [nucleotide binding] 435591008345 putative diguanylate cyclase; Provisional; Region: PRK09776 435591008346 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 435591008347 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 435591008348 MutS domain I; Region: MutS_I; pfam01624 435591008349 MutS domain II; Region: MutS_II; pfam05188 435591008350 MutS domain III; Region: MutS_III; pfam05192 435591008351 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 435591008352 Walker A/P-loop; other site 435591008353 ATP binding site [chemical binding]; other site 435591008354 Q-loop/lid; other site 435591008355 ABC transporter signature motif; other site 435591008356 Walker B; other site 435591008357 D-loop; other site 435591008358 H-loop/switch region; other site 435591008359 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 435591008360 active site 435591008361 intersubunit interactions; other site 435591008362 catalytic residue [active] 435591008363 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 435591008364 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 435591008365 cofactor binding site; other site 435591008366 DNA binding site [nucleotide binding] 435591008367 substrate interaction site [chemical binding]; other site 435591008368 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 435591008369 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 435591008370 TPR motif; other site 435591008371 binding surface 435591008372 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 435591008373 binding surface 435591008374 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008375 TPR motif; other site 435591008376 ORF6N domain; Region: ORF6N; pfam10543 435591008377 ORF6N domain; Region: ORF6N; pfam10543 435591008378 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 435591008379 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 435591008380 HIGH motif; other site 435591008381 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591008382 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 435591008383 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591008384 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591008385 active site 435591008386 KMSKS motif; other site 435591008387 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 435591008388 tRNA binding surface [nucleotide binding]; other site 435591008389 Uncharacterized conserved protein [Function unknown]; Region: COG1284 435591008390 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 435591008391 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 435591008392 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 435591008393 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 435591008394 active site 435591008395 dimerization interface [polypeptide binding]; other site 435591008396 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 435591008397 Acyltransferase family; Region: Acyl_transf_3; pfam01757 435591008398 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591008399 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 (16,20)...; Region: OM_channels; cl17244 435591008400 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 435591008401 quinolinate synthetase; Provisional; Region: PRK09375 435591008402 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 435591008403 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 435591008404 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 435591008405 BRO family, N-terminal domain; Region: Bro-N; pfam02498 435591008406 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 435591008407 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 435591008408 FeS/SAM binding site; other site 435591008409 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 435591008410 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591008411 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591008412 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591008413 ORF6N domain; Region: ORF6N; pfam10543 435591008414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 435591008415 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 435591008416 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591008417 putative active site [active] 435591008418 putative metal binding site [ion binding]; other site 435591008419 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 435591008420 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 435591008421 putative transporter; Provisional; Region: PRK11660 435591008422 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 435591008423 Sulfate transporter family; Region: Sulfate_transp; pfam00916 435591008424 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 435591008425 Rubrerythrin [Energy production and conversion]; Region: COG1592 435591008426 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 435591008427 binuclear metal center [ion binding]; other site 435591008428 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 435591008429 iron binding site [ion binding]; other site 435591008430 L-aspartate oxidase; Provisional; Region: PRK09077 435591008431 L-aspartate oxidase; Provisional; Region: PRK06175 435591008432 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 435591008433 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591008434 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591008435 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591008436 SusD family; Region: SusD; pfam07980 435591008437 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591008438 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 435591008439 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008440 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 435591008441 binding surface 435591008442 TPR motif; other site 435591008443 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008444 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 435591008445 binding surface 435591008446 TPR motif; other site 435591008447 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008448 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 435591008449 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 435591008450 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 435591008451 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 435591008452 active site 435591008453 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 435591008454 Family description; Region: VCBS; pfam13517 435591008455 Family description; Region: VCBS; pfam13517 435591008456 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 435591008457 RHS Repeat; Region: RHS_repeat; pfam05593 435591008458 RHS Repeat; Region: RHS_repeat; pfam05593 435591008459 RHS Repeat; Region: RHS_repeat; cl11982 435591008460 RHS Repeat; Region: RHS_repeat; pfam05593 435591008461 RHS Repeat; Region: RHS_repeat; pfam05593 435591008462 RHS Repeat; Region: RHS_repeat; pfam05593 435591008463 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 435591008464 ribonuclease; Region: Ribonuclease; pfam00545 435591008465 active site 435591008466 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 435591008467 RNAase interaction site [polypeptide binding]; other site 435591008468 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 435591008469 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 435591008470 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 435591008471 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 435591008472 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 435591008473 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 435591008474 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 435591008475 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435591008476 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 435591008477 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 435591008478 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 435591008479 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 435591008480 active site 435591008481 ribonuclease P; Reviewed; Region: rnpA; PRK01903 435591008482 Haemolytic domain; Region: Haemolytic; pfam01809 435591008483 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 435591008484 active site 435591008485 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 435591008486 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 435591008487 active site 435591008488 HIGH motif; other site 435591008489 dimer interface [polypeptide binding]; other site 435591008490 KMSKS motif; other site 435591008491 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 435591008492 active site 435591008493 catalytic residues [active] 435591008494 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 435591008495 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591008496 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008497 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591008498 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591008499 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591008500 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591008501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 435591008502 Putative glucoamylase; Region: Glycoamylase; pfam10091 435591008503 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008504 Glycosyl hydrolase family 43; Region: GH43_3; cd08982 435591008505 active site 435591008506 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 435591008507 sugar binding site [chemical binding]; other site 435591008508 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 435591008509 Interdomain contacts; other site 435591008510 Cytokine receptor motif; other site 435591008511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 435591008512 Putative glucoamylase; Region: Glycoamylase; pfam10091 435591008513 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 435591008514 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 435591008515 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 435591008516 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 435591008517 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 435591008518 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 435591008519 Glycosyl hydrolase family 43; Region: GH43_3; cd08982 435591008520 active site 435591008521 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 435591008522 sugar binding site [chemical binding]; other site 435591008523 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 435591008524 Interdomain contacts; other site 435591008525 Cytokine receptor motif; other site 435591008526 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 435591008527 Partial alpha/beta-hydrolase lipase region; Region: Abhydro_lipase; pfam04083 435591008528 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591008529 Uncharacterized conserved protein [Function unknown]; Region: COG1284 435591008530 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 435591008531 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 435591008532 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 435591008533 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 435591008534 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 435591008535 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 435591008536 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 435591008537 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 435591008538 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 435591008539 Predicted acetyltransferase [General function prediction only]; Region: COG2388 435591008540 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 435591008541 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 435591008542 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008543 binding surface 435591008544 TPR motif; other site 435591008545 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 435591008546 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 435591008547 NodB motif; other site 435591008548 putative active site [active] 435591008549 putative catalytic site [active] 435591008550 putative Zn binding site [ion binding]; other site 435591008551 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 435591008552 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 435591008553 PS-10 peptidase S37; Region: Peptidase_S37; pfam05576 435591008554 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 435591008555 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 435591008556 putative metal binding residues [ion binding]; other site 435591008557 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 435591008558 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 435591008559 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435591008560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591008561 NAD(P) binding site [chemical binding]; other site 435591008562 active site 435591008563 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 435591008564 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 435591008565 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 435591008566 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 435591008567 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 435591008568 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 435591008569 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 435591008570 serine O-acetyltransferase; Region: cysE; TIGR01172 435591008571 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 435591008572 trimer interface [polypeptide binding]; other site 435591008573 active site 435591008574 substrate binding site [chemical binding]; other site 435591008575 CoA binding site [chemical binding]; other site 435591008576 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 435591008577 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 435591008578 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 435591008579 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591008580 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 435591008581 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 435591008582 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 435591008583 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 435591008584 Predicted membrane protein [Function unknown]; Region: COG1238 435591008585 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 435591008586 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591008587 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 435591008588 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 435591008589 metal binding site [ion binding]; metal-binding site 435591008590 dimer interface [polypeptide binding]; other site 435591008591 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 435591008592 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 435591008593 active site 435591008594 Riboflavin kinase; Region: Flavokinase; smart00904 435591008595 Two component regulator propeller; Region: Reg_prop; pfam07494 435591008596 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 435591008597 Interdomain contacts; other site 435591008598 Cytokine receptor motif; other site 435591008599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591008600 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591008601 dimer interface [polypeptide binding]; other site 435591008602 phosphorylation site [posttranslational modification] 435591008603 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 435591008604 ATP binding site [chemical binding]; other site 435591008605 Mg2+ binding site [ion binding]; other site 435591008606 G-X-G motif; other site 435591008607 Response regulator receiver domain; Region: Response_reg; pfam00072 435591008608 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 435591008609 active site 435591008610 phosphorylation site [posttranslational modification] 435591008611 intermolecular recognition site; other site 435591008612 dimerization interface [polypeptide binding]; other site 435591008613 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591008614 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591008615 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 435591008616 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 435591008617 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 435591008618 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 435591008619 putative active site [active] 435591008620 putative catalytic site [active] 435591008621 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 435591008622 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591008623 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591008624 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591008625 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 435591008626 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 435591008627 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 435591008628 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 435591008629 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 435591008630 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591008631 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591008632 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591008633 DNA binding residues [nucleotide binding] 435591008634 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591008635 FecR protein; Region: FecR; pfam04773 435591008636 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591008637 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008638 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591008639 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 (16,20)...; Region: OM_channels; cl17244 435591008640 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591008641 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591008642 SusD family; Region: SusD; pfam07980 435591008643 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 435591008644 putative catalytic site [active] 435591008645 putative metal binding site [ion binding]; other site 435591008646 putative phosphate binding site [ion binding]; other site 435591008647 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 435591008648 putative catalytic site [active] 435591008649 putative metal binding site [ion binding]; other site 435591008650 putative phosphate binding site [ion binding]; other site 435591008651 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591008652 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591008653 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591008654 DNA binding residues [nucleotide binding] 435591008655 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591008656 FecR protein; Region: FecR; pfam04773 435591008657 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591008658 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591008659 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008660 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591008661 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591008662 SusD family; Region: SusD; pfam07980 435591008663 Domain of Unknown Function with PDB structure (DUF3863); Region: DUF3863; pfam12979 435591008664 Domain of Unknown Function with PDB structure (DUF3864); Region: DUF3864; pfam12980 435591008665 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591008666 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591008667 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591008668 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591008669 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591008670 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591008671 glycerate kinase; Region: TIGR00045 435591008672 Predicted membrane protein [Function unknown]; Region: COG2311 435591008673 Protein of unknown function (DUF418); Region: DUF418; cl12135 435591008674 Protein of unknown function (DUF418); Region: DUF418; pfam04235 435591008675 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591008676 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591008677 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 435591008678 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591008679 FecR protein; Region: FecR; pfam04773 435591008680 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591008681 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591008682 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008683 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591008684 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591008685 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591008686 SusD family; Region: SusD; pfam07980 435591008687 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 435591008688 Protein of unknown function, DUF608; Region: DUF608; pfam04685 435591008689 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 435591008690 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 435591008691 active site 435591008692 catalytic triad [active] 435591008693 oxyanion hole [active] 435591008694 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591008695 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591008696 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591008697 DNA binding residues [nucleotide binding] 435591008698 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591008699 FecR protein; Region: FecR; pfam04773 435591008700 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591008701 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591008702 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008703 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591008704 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591008705 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591008706 SusD family; Region: SusD; pfam07980 435591008707 Protein of unknown function (DUF3823); Region: DUF3823; pfam12866 435591008708 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 435591008709 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 435591008710 active site 435591008711 DNA binding site [nucleotide binding] 435591008712 Int/Topo IB signature motif; other site 435591008713 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 435591008714 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 435591008715 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 435591008716 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 435591008717 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591008718 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591008719 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 435591008720 active site 435591008721 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 435591008722 active site 435591008723 catalytic triad [active] 435591008724 oxyanion hole [active] 435591008725 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591008726 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591008727 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591008728 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591008729 S-formylglutathione hydrolase; Region: PLN02442 435591008730 Putative esterase; Region: Esterase; pfam00756 435591008731 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 435591008732 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 435591008733 hinge; other site 435591008734 active site 435591008735 septation ring formation regulator EzrA; Provisional; Region: PRK04778 435591008736 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 435591008737 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 435591008738 ABC-ATPase subunit interface; other site 435591008739 dimer interface [polypeptide binding]; other site 435591008740 putative PBP binding regions; other site 435591008741 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 435591008742 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 435591008743 active site 435591008744 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 435591008745 Domain of unknown function DUF20; Region: UPF0118; pfam01594 435591008746 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 435591008747 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 435591008748 active site 435591008749 dimer interface [polypeptide binding]; other site 435591008750 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 435591008751 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 435591008752 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 435591008753 Catalytic dyad [active] 435591008754 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 435591008755 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 435591008756 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 435591008757 PhoU domain; Region: PhoU; pfam01895 435591008758 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 435591008759 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 435591008760 active site 435591008761 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 435591008762 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 435591008763 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 435591008764 TPR motif; other site 435591008765 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008766 binding surface 435591008767 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008768 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 435591008769 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 435591008770 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 435591008771 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 435591008772 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 435591008773 radical SAM peptide maturase, GG-Bacteroidales family; Region: GG_samocin_CFB; TIGR04148 435591008774 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 435591008775 FeS/SAM binding site; other site 435591008776 pseudo-rSAM protein, GG-Bacteroidales system; Region: pseudo_rSAM_GG; TIGR04150 435591008777 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 435591008778 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 435591008779 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591008780 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 435591008781 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 435591008782 putative active site [active] 435591008783 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435591008784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591008785 Walker A/P-loop; other site 435591008786 ATP binding site [chemical binding]; other site 435591008787 Q-loop/lid; other site 435591008788 ABC transporter signature motif; other site 435591008789 Walker B; other site 435591008790 D-loop; other site 435591008791 H-loop/switch region; other site 435591008792 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 435591008793 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591008794 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 435591008795 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 435591008796 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 435591008797 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 435591008798 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 435591008799 lipoyl attachment site [posttranslational modification]; other site 435591008800 AIR carboxylase; Region: AIRC; pfam00731 435591008801 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 435591008802 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 435591008803 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 435591008804 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 435591008805 trimer interface [polypeptide binding]; other site 435591008806 active site 435591008807 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 435591008808 binding surface 435591008809 TPR motif; other site 435591008810 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 435591008811 binding surface 435591008812 TPR motif; other site 435591008813 TPR repeat; Region: TPR_11; pfam13414 435591008814 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 435591008815 binding surface 435591008816 TPR motif; other site 435591008817 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008818 TPR repeat; Region: TPR_11; pfam13414 435591008819 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 435591008820 binding surface 435591008821 TPR motif; other site 435591008822 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 435591008823 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 435591008824 Peptidase family M23; Region: Peptidase_M23; pfam01551 435591008825 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar3; cd08577 435591008826 putative active site [active] 435591008827 catalytic site [active] 435591008828 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 435591008829 Trehalase; Region: Trehalase; cl17346 435591008830 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 435591008831 dimer interface [polypeptide binding]; other site 435591008832 Alkaline phosphatase homologues; Region: alkPPc; smart00098 435591008833 active site 435591008834 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591008835 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591008836 Fn3 associated; Region: Fn3_assoc; pfam13287 435591008837 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 435591008838 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591008839 SusD family; Region: SusD; pfam07980 435591008840 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591008841 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008842 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591008843 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591008844 Glucuronate isomerase; Region: UxaC; pfam02614 435591008845 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 435591008846 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 435591008847 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 435591008848 active site 435591008849 intersubunit interface [polypeptide binding]; other site 435591008850 catalytic residue [active] 435591008851 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435591008852 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 435591008853 substrate binding site [chemical binding]; other site 435591008854 ATP binding site [chemical binding]; other site 435591008855 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 435591008856 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 435591008857 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 435591008858 FMN binding site [chemical binding]; other site 435591008859 active site 435591008860 catalytic residues [active] 435591008861 substrate binding site [chemical binding]; other site 435591008862 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 435591008863 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 435591008864 Peptidase family U32; Region: Peptidase_U32; pfam01136 435591008865 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 435591008866 active site 435591008867 DNA protecting protein DprA; Region: dprA; TIGR00732 435591008868 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 435591008869 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 435591008870 active site triad [active] 435591008871 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 435591008872 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 435591008873 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 435591008874 CAP-like domain; other site 435591008875 active site 435591008876 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591008877 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591008878 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591008879 glycyl-tRNA synthetase; Provisional; Region: PRK04173 435591008880 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 435591008881 motif 1; other site 435591008882 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 435591008883 active site 435591008884 motif 2; other site 435591008885 motif 3; other site 435591008886 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 435591008887 anticodon binding site; other site 435591008888 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435591008889 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591008890 LytTr DNA-binding domain; Region: LytTR; smart00850 435591008891 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 435591008892 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591008893 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591008894 dimer interface [polypeptide binding]; other site 435591008895 phosphorylation site [posttranslational modification] 435591008896 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 435591008897 ATP binding site [chemical binding]; other site 435591008898 Mg2+ binding site [ion binding]; other site 435591008899 G-X-G motif; other site 435591008900 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 435591008901 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 435591008902 active site 435591008903 phosphorylation site [posttranslational modification] 435591008904 intermolecular recognition site; other site 435591008905 dimerization interface [polypeptide binding]; other site 435591008906 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 435591008907 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 435591008908 homodimer interface [polypeptide binding]; other site 435591008909 active site 435591008910 TDP-binding site; other site 435591008911 acceptor substrate-binding pocket; other site 435591008912 Radical SAM superfamily; Region: Radical_SAM; pfam04055 435591008913 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 435591008914 FeS/SAM binding site; other site 435591008915 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 435591008916 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 435591008917 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 435591008918 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 435591008919 L-aspartate oxidase; Provisional; Region: PRK06175 435591008920 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 435591008921 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 435591008922 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 435591008923 putative Iron-sulfur protein interface [polypeptide binding]; other site 435591008924 proximal heme binding site [chemical binding]; other site 435591008925 distal heme binding site [chemical binding]; other site 435591008926 putative dimer interface [polypeptide binding]; other site 435591008927 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 435591008928 binding surface 435591008929 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435591008930 TPR motif; other site 435591008931 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 435591008932 Penicillinase repressor; Region: Pencillinase_R; pfam03965 435591008933 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 435591008934 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591008935 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 435591008936 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 435591008937 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 435591008938 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 435591008939 binding surface 435591008940 TPR motif; other site 435591008941 Tetratricopeptide repeat; Region: TPR_16; pfam13432 435591008942 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 435591008943 binding surface 435591008944 TPR motif; other site 435591008945 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 435591008946 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 435591008947 nucleophile elbow; other site 435591008948 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 435591008949 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 435591008950 conserved cys residue [active] 435591008951 HEAT repeats; Region: HEAT_2; pfam13646 435591008952 Family of unknown function (DUF3836); Region: DUF3836; pfam12930 435591008953 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 435591008954 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 435591008955 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 435591008956 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 435591008957 active site 435591008958 Cupin domain; Region: Cupin_2; cl17218 435591008959 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435591008960 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 435591008961 active site 435591008962 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591008963 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 435591008964 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435591008965 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 435591008966 putative metal binding site; other site 435591008967 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 435591008968 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 435591008969 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591008970 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591008971 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435591008972 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 435591008973 active site 435591008974 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591008975 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 435591008976 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 435591008977 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 435591008978 Ligand binding site; other site 435591008979 metal-binding site 435591008980 Acyltransferase family; Region: Acyl_transf_3; pfam01757 435591008981 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 435591008982 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 435591008983 putative ADP-binding pocket [chemical binding]; other site 435591008984 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435591008985 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 435591008986 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435591008987 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591008988 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435591008989 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 435591008990 Chain length determinant protein; Region: Wzz; cl15801 435591008991 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 435591008992 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 435591008993 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 435591008994 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 435591008995 P-loop; other site 435591008996 Magnesium ion binding site [ion binding]; other site 435591008997 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 435591008998 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435591008999 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 435591009000 Mg++ binding site [ion binding]; other site 435591009001 putative catalytic motif [active] 435591009002 substrate binding site [chemical binding]; other site 435591009003 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 435591009004 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 435591009005 active site 435591009006 DNA binding site [nucleotide binding] 435591009007 Int/Topo IB signature motif; other site 435591009008 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 435591009009 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 435591009010 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 435591009011 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 435591009012 DNA methylase; Region: N6_N4_Mtase; pfam01555 435591009013 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 435591009014 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 435591009015 Divergent AAA domain; Region: AAA_4; pfam04326 435591009016 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 435591009017 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 435591009018 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 435591009019 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591009020 Helix-turn-helix domain; Region: HTH_17; pfam12728 435591009021 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591009022 KilA-N domain; Region: KilA-N; pfam04383 435591009023 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 435591009024 Int/Topo IB signature motif; other site 435591009025 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 435591009026 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 435591009027 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435591009028 catalytic residue [active] 435591009029 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 435591009030 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 435591009031 Lamin Tail Domain; Region: LTD; pfam00932 435591009032 Lamin Tail Domain; Region: LTD; pfam00932 435591009033 Clostripain family; Region: Peptidase_C11; pfam03415 435591009034 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 435591009035 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 435591009036 AAA ATPase domain; Region: AAA_15; pfam13175 435591009037 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 435591009038 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 435591009039 potential catalytic triad [active] 435591009040 conserved cys residue [active] 435591009041 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 435591009042 dimer interface [polypeptide binding]; other site 435591009043 FMN binding site [chemical binding]; other site 435591009044 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 435591009045 dimer interface [polypeptide binding]; other site 435591009046 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 435591009047 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 435591009048 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 435591009049 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591009050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591009051 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 435591009052 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 435591009053 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 435591009054 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 435591009055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591009056 Walker A/P-loop; other site 435591009057 ATP binding site [chemical binding]; other site 435591009058 Q-loop/lid; other site 435591009059 ABC transporter signature motif; other site 435591009060 Walker B; other site 435591009061 D-loop; other site 435591009062 H-loop/switch region; other site 435591009063 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591009064 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591009065 SusD family; Region: SusD; pfam07980 435591009066 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591009067 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009068 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591009069 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 (16,20)...; Region: OM_channels; cl17244 435591009070 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 435591009071 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 435591009072 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 435591009073 HflX GTPase family; Region: HflX; cd01878 435591009074 G1 box; other site 435591009075 GTP/Mg2+ binding site [chemical binding]; other site 435591009076 Switch I region; other site 435591009077 G2 box; other site 435591009078 G3 box; other site 435591009079 Switch II region; other site 435591009080 G4 box; other site 435591009081 G5 box; other site 435591009082 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 435591009083 putative trimer interface [polypeptide binding]; other site 435591009084 putative CoA binding site [chemical binding]; other site 435591009085 Cupin domain; Region: Cupin_2; pfam07883 435591009086 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 435591009087 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591009088 glucose-6-phosphate isomerase; Provisional; Region: PRK04190 435591009089 Glucose-6-phosphate isomerase (GPI); Region: GPI; pfam06560 435591009090 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 435591009091 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435591009092 nucleotide binding site [chemical binding]; other site 435591009093 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 435591009094 Glucose-6-phosphate isomerase (GPI); Region: GPI; pfam06560 435591009095 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 435591009096 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 435591009097 putative substrate translocation pore; other site 435591009098 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 435591009099 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591009100 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591009101 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591009102 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591009103 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009104 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591009105 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591009106 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 (16,20)...; Region: OM_channels; cl17244 435591009107 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591009108 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591009109 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 435591009110 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 435591009111 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 435591009112 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 435591009113 active site 435591009114 Int/Topo IB signature motif; other site 435591009115 Dehydroquinase class II; Region: DHquinase_II; pfam01220 435591009116 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 435591009117 trimer interface [polypeptide binding]; other site 435591009118 active site 435591009119 dimer interface [polypeptide binding]; other site 435591009120 pyruvate kinase; Provisional; Region: PRK05826 435591009121 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 435591009122 domain interfaces; other site 435591009123 active site 435591009124 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 435591009125 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 435591009126 S-adenosylmethionine binding site [chemical binding]; other site 435591009127 Ribosome-binding factor A; Region: RBFA; pfam02033 435591009128 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 435591009129 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591009130 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 435591009131 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 435591009132 Substrate binding site; other site 435591009133 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 435591009134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591009135 Coenzyme A binding pocket [chemical binding]; other site 435591009136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435591009137 SnoaL-like domain; Region: SnoaL_2; pfam12680 435591009138 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 435591009139 S-adenosylmethionine binding site [chemical binding]; other site 435591009140 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435591009141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591009142 Coenzyme A binding pocket [chemical binding]; other site 435591009143 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 435591009144 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 435591009145 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 435591009146 Int/Topo IB signature motif; other site 435591009147 DNA binding site [nucleotide binding] 435591009148 active site 435591009149 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 435591009150 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591009151 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591009152 dimer interface [polypeptide binding]; other site 435591009153 phosphorylation site [posttranslational modification] 435591009154 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 435591009155 ATP binding site [chemical binding]; other site 435591009156 Mg2+ binding site [ion binding]; other site 435591009157 G-X-G motif; other site 435591009158 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 435591009159 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 435591009160 active site 435591009161 phosphorylation site [posttranslational modification] 435591009162 intermolecular recognition site; other site 435591009163 dimerization interface [polypeptide binding]; other site 435591009164 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 435591009165 Chloramphenicol acetyltransferase; Region: CAT; smart01059 435591009166 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435591009167 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435591009168 Predicted amidohydrolase [General function prediction only]; Region: COG0388 435591009169 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 435591009170 putative active site [active] 435591009171 catalytic triad [active] 435591009172 putative dimer interface [polypeptide binding]; other site 435591009173 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 435591009174 Predicted membrane protein [Function unknown]; Region: COG2311 435591009175 Protein of unknown function (DUF418); Region: DUF418; pfam04235 435591009176 gliding motility associated protien GldN; Region: GldN; TIGR03523 435591009177 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 435591009178 GldM N-terminal domain; Region: GldM_N; pfam12081 435591009179 GldM C-terminal domain; Region: GldM_C; pfam12080 435591009180 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 435591009181 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 435591009182 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 435591009183 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 435591009184 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 435591009185 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 435591009186 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 435591009187 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 435591009188 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 435591009189 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591009190 Protein export membrane protein; Region: SecD_SecF; cl14618 435591009191 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591009192 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591009193 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591009194 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 435591009195 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 435591009196 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 435591009197 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 435591009198 potassium/proton antiporter; Reviewed; Region: PRK05326 435591009199 TrkA-C domain; Region: TrkA_C; pfam02080 435591009200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 435591009201 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 435591009202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 435591009203 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 435591009204 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591009205 SusD family; Region: SusD; pfam07980 435591009206 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591009207 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591009208 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009209 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591009210 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591009211 FecR protein; Region: FecR; pfam04773 435591009212 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591009213 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591009214 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591009215 DNA binding residues [nucleotide binding] 435591009216 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 435591009217 Response regulator receiver domain; Region: Response_reg; pfam00072 435591009218 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 435591009219 active site 435591009220 phosphorylation site [posttranslational modification] 435591009221 intermolecular recognition site; other site 435591009222 dimerization interface [polypeptide binding]; other site 435591009223 PglZ domain; Region: PglZ; pfam08665 435591009224 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 435591009225 ribonuclease R; Region: RNase_R; TIGR02063 435591009226 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 435591009227 RNB domain; Region: RNB; pfam00773 435591009228 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 435591009229 RNA binding site [nucleotide binding]; other site 435591009230 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 435591009231 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 435591009232 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 435591009233 ATP binding site [chemical binding]; other site 435591009234 Mg2+ binding site [ion binding]; other site 435591009235 G-X-G motif; other site 435591009236 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 435591009237 ATP binding site [chemical binding]; other site 435591009238 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 435591009239 active site 435591009240 putative metal-binding site [ion binding]; other site 435591009241 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 435591009242 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 435591009243 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 435591009244 active site 435591009245 (T/H)XGH motif; other site 435591009246 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 435591009247 C-terminal peptidase (prc); Region: prc; TIGR00225 435591009248 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 435591009249 protein binding site [polypeptide binding]; other site 435591009250 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 435591009251 Catalytic dyad [active] 435591009252 Chromate transporter; Region: Chromate_transp; pfam02417 435591009253 Chromate transporter; Region: Chromate_transp; pfam02417 435591009254 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 435591009255 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591009256 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 435591009257 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591009258 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 435591009259 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435591009260 Walker A/P-loop; other site 435591009261 ATP binding site [chemical binding]; other site 435591009262 Q-loop/lid; other site 435591009263 ABC transporter signature motif; other site 435591009264 Walker B; other site 435591009265 D-loop; other site 435591009266 H-loop/switch region; other site 435591009267 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591009268 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 435591009269 FtsX-like permease family; Region: FtsX; pfam02687 435591009270 Histidine kinase; Region: His_kinase; pfam06580 435591009271 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435591009272 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 435591009273 active site 435591009274 phosphorylation site [posttranslational modification] 435591009275 intermolecular recognition site; other site 435591009276 dimerization interface [polypeptide binding]; other site 435591009277 LytTr DNA-binding domain; Region: LytTR; smart00850 435591009278 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 435591009279 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 435591009280 Domain of unknown function DUF20; Region: UPF0118; pfam01594 435591009281 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 435591009282 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 435591009283 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 435591009284 TrkA-C domain; Region: TrkA_C; pfam02080 435591009285 TrkA-C domain; Region: TrkA_C; pfam02080 435591009286 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435591009287 Ribokinase-like subgroup D. 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_D; cd01937 435591009288 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435591009289 substrate binding site [chemical binding]; other site 435591009290 ATP binding site [chemical binding]; other site 435591009291 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 435591009292 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 435591009293 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 435591009294 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435591009295 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435591009296 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 435591009297 dihydropteroate synthase; Region: DHPS; TIGR01496 435591009298 substrate binding pocket [chemical binding]; other site 435591009299 dimer interface [polypeptide binding]; other site 435591009300 inhibitor binding site; inhibition site 435591009301 Uncharacterized conserved protein [Function unknown]; Region: COG1624 435591009302 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 435591009303 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 435591009304 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 435591009305 propionate/acetate kinase; Provisional; Region: PRK12379 435591009306 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 435591009307 putative nucleotide binding site [chemical binding]; other site 435591009308 uridine monophosphate binding site [chemical binding]; other site 435591009309 homohexameric interface [polypeptide binding]; other site 435591009310 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 435591009311 Periplasmic binding domain of two-component sensor kinase signaling systems; Region: PBP1_sensor_kinase_like; cd06308 435591009312 putative ligand binding site [chemical binding]; other site 435591009313 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591009314 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591009315 dimer interface [polypeptide binding]; other site 435591009316 phosphorylation site [posttranslational modification] 435591009317 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 435591009318 ATP binding site [chemical binding]; other site 435591009319 Mg2+ binding site [ion binding]; other site 435591009320 G-X-G motif; other site 435591009321 Response regulator receiver domain; Region: Response_reg; pfam00072 435591009322 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 435591009323 active site 435591009324 phosphorylation site [posttranslational modification] 435591009325 intermolecular recognition site; other site 435591009326 dimerization interface [polypeptide binding]; other site 435591009327 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591009328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591009329 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 435591009330 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 435591009331 substrate binding [chemical binding]; other site 435591009332 active site 435591009333 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 435591009334 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435591009335 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 435591009336 putative substrate binding site [chemical binding]; other site 435591009337 putative ATP binding site [chemical binding]; other site 435591009338 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 435591009339 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 435591009340 putative substrate translocation pore; other site 435591009341 ribosome recycling factor; Reviewed; Region: frr; PRK00083 435591009342 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 435591009343 hinge region; other site 435591009344 GTPase RsgA; Reviewed; Region: PRK00098 435591009345 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 435591009346 RNA binding site [nucleotide binding]; other site 435591009347 homodimer interface [polypeptide binding]; other site 435591009348 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 435591009349 GTPase/Zn-binding domain interface [polypeptide binding]; other site 435591009350 GTP/Mg2+ binding site [chemical binding]; other site 435591009351 G4 box; other site 435591009352 G5 box; other site 435591009353 G1 box; other site 435591009354 Switch I region; other site 435591009355 G2 box; other site 435591009356 G3 box; other site 435591009357 Switch II region; other site 435591009358 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 435591009359 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 435591009360 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591009361 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009362 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591009363 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 (16,20)...; Region: OM_channels; cl17244 435591009364 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 435591009365 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591009366 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435591009367 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435591009368 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435591009369 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 435591009370 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 435591009371 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 435591009372 NAD binding site [chemical binding]; other site 435591009373 homotetramer interface [polypeptide binding]; other site 435591009374 homodimer interface [polypeptide binding]; other site 435591009375 substrate binding site [chemical binding]; other site 435591009376 active site 435591009377 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 435591009378 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 435591009379 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435591009380 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 435591009381 active site 435591009382 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435591009383 dimer interface [polypeptide binding]; other site 435591009384 substrate binding site [chemical binding]; other site 435591009385 catalytic residues [active] 435591009386 GSCFA family; Region: GSCFA; pfam08885 435591009387 Peptidase of plants and bacteria; Region: BSP; pfam04450 435591009388 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 435591009389 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 435591009390 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591009391 SusD family; Region: SusD; pfam07980 435591009392 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591009393 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009394 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 (16,20)...; Region: OM_channels; cl17244 435591009395 Two component regulator propeller; Region: Reg_prop; pfam07494 435591009396 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 435591009397 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 435591009398 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591009399 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591009400 dimer interface [polypeptide binding]; other site 435591009401 phosphorylation site [posttranslational modification] 435591009402 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 435591009403 ATP binding site [chemical binding]; other site 435591009404 Mg2+ binding site [ion binding]; other site 435591009405 G-X-G motif; other site 435591009406 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435591009407 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 435591009408 active site 435591009409 phosphorylation site [posttranslational modification] 435591009410 intermolecular recognition site; other site 435591009411 dimerization interface [polypeptide binding]; other site 435591009412 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591009413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591009414 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 435591009415 Pyruvate formate lyase 1; Region: PFL1; cd01678 435591009416 coenzyme A binding site [chemical binding]; other site 435591009417 active site 435591009418 catalytic residues [active] 435591009419 glycine loop; other site 435591009420 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 435591009421 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 435591009422 FeS/SAM binding site; other site 435591009423 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591009424 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 435591009425 ligand binding site [chemical binding]; other site 435591009426 flexible hinge region; other site 435591009427 enolase; Provisional; Region: eno; PRK00077 435591009428 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 435591009429 dimer interface [polypeptide binding]; other site 435591009430 metal binding site [ion binding]; metal-binding site 435591009431 substrate binding pocket [chemical binding]; other site 435591009432 peroxiredoxin; Region: AhpC; TIGR03137 435591009433 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 435591009434 dimer interface [polypeptide binding]; other site 435591009435 decamer (pentamer of dimers) interface [polypeptide binding]; other site 435591009436 catalytic triad [active] 435591009437 peroxidatic and resolving cysteines [active] 435591009438 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 435591009439 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 435591009440 catalytic residue [active] 435591009441 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 435591009442 catalytic residues [active] 435591009443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435591009444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435591009445 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009446 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 435591009447 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 435591009448 N-terminal plug; other site 435591009449 ligand-binding site [chemical binding]; other site 435591009450 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435591009451 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009452 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591009453 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 (16,20)...; Region: OM_channels; cl17244 435591009454 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 435591009455 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 435591009456 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 435591009457 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 435591009458 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 435591009459 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 435591009460 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 435591009461 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 435591009462 FeS/SAM binding site; other site 435591009463 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 435591009464 ATP cone domain; Region: ATP-cone; pfam03477 435591009465 Class III ribonucleotide reductase; Region: RNR_III; cd01675 435591009466 effector binding site; other site 435591009467 active site 435591009468 Zn binding site [ion binding]; other site 435591009469 glycine loop; other site 435591009470 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009471 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 435591009472 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 435591009473 N-terminal plug; other site 435591009474 ligand-binding site [chemical binding]; other site 435591009475 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 435591009476 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 435591009477 active site 435591009478 C-terminal domain interface [polypeptide binding]; other site 435591009479 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 the...; Region: Chelatase_Class_II; cl02784 435591009480 active site 435591009481 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 the...; Region: Chelatase_Class_II; cl02784 435591009482 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 435591009483 active site 435591009484 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 the...; Region: Chelatase_Class_II; cl02784 435591009485 active site 435591009486 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 435591009487 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 435591009488 N-terminal plug; other site 435591009489 ligand-binding site [chemical binding]; other site 435591009490 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 435591009491 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 435591009492 putative metal binding site [ion binding]; other site 435591009493 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 435591009494 HSP70 interaction site [polypeptide binding]; other site 435591009495 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 435591009496 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 435591009497 motif II; other site 435591009498 maltose O-acetyltransferase; Provisional; Region: PRK10092 435591009499 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 435591009500 active site 435591009501 substrate binding site [chemical binding]; other site 435591009502 trimer interface [polypeptide binding]; other site 435591009503 CoA binding site [chemical binding]; other site 435591009504 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 435591009505 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 (16,20)...; Region: OM_channels; cl17244 435591009506 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 435591009507 Cytokine receptor motif; other site 435591009508 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 435591009509 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 435591009510 putative ligand binding site [chemical binding]; other site 435591009511 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 435591009512 FAD binding domain; Region: FAD_binding_4; pfam01565 435591009513 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 435591009514 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 435591009515 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 435591009516 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 435591009517 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435591009518 ATP-grasp domain; Region: ATP-grasp_4; cl17255 435591009519 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 435591009520 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435591009521 ATP-grasp domain; Region: ATP-grasp_4; cl17255 435591009522 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 435591009523 probable substrate binding site [chemical binding]; other site 435591009524 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 435591009525 active site 435591009526 catalytic triad [active] 435591009527 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 435591009528 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 435591009529 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 435591009530 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 435591009531 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591009532 Protein export membrane protein; Region: SecD_SecF; cl14618 435591009533 Protein export membrane protein; Region: SecD_SecF; cl14618 435591009534 Outer membrane efflux protein; Region: OEP; pfam02321 435591009535 Outer membrane efflux protein; Region: OEP; pfam02321 435591009536 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435591009537 Protein export membrane protein; Region: SecD_SecF; cl14618 435591009538 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591009539 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591009540 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591009541 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 435591009542 O-Antigen ligase; Region: Wzy_C; pfam04932 435591009543 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 435591009544 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 435591009545 binding surface 435591009546 TPR motif; other site 435591009547 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 435591009548 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 435591009549 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 435591009550 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 435591009551 Catalytic site [active] 435591009552 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 435591009553 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 435591009554 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 435591009555 NVEALA protein; Region: NVEALA; pfam14055 435591009556 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 435591009557 DNA binding site [nucleotide binding] 435591009558 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 435591009559 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 435591009560 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 435591009561 AAA domain; Region: AAA_14; pfam13173 435591009562 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 435591009563 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435591009564 EamA-like transporter family; Region: EamA; pfam00892 435591009565 EamA-like transporter family; Region: EamA; pfam00892 435591009566 Uncharacterized conserved protein [Function unknown]; Region: COG4104 435591009567 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 435591009568 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 435591009569 active site 435591009570 HIGH motif; other site 435591009571 dimer interface [polypeptide binding]; other site 435591009572 KMSKS motif; other site 435591009573 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591009574 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591009575 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591009576 DNA binding residues [nucleotide binding] 435591009577 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591009578 FecR protein; Region: FecR; pfam04773 435591009579 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591009580 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591009581 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009582 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591009583 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 (16,20)...; Region: OM_channels; cl17244 435591009584 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 435591009585 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591009586 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009587 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 (16,20)...; Region: OM_channels; cl17244 435591009588 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 435591009589 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 435591009590 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591009591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591009592 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591009593 DNA binding residues [nucleotide binding] 435591009594 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591009595 Uncharacterized conserved protein [Function unknown]; Region: COG5276 435591009596 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591009597 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009598 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591009599 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 (16,20)...; Region: OM_channels; cl17244 435591009600 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591009601 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591009602 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 435591009603 putative active site [active] 435591009604 Zn binding site [ion binding]; other site 435591009605 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 435591009606 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591009607 FtsX-like permease family; Region: FtsX; pfam02687 435591009608 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591009609 FtsX-like permease family; Region: FtsX; pfam02687 435591009610 Response regulator receiver domain; Region: Response_reg; pfam00072 435591009611 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 435591009612 active site 435591009613 phosphorylation site [posttranslational modification] 435591009614 intermolecular recognition site; other site 435591009615 dimerization interface [polypeptide binding]; other site 435591009616 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435591009617 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 435591009618 ATP binding site [chemical binding]; other site 435591009619 Mg2+ binding site [ion binding]; other site 435591009620 G-X-G motif; other site 435591009621 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 435591009622 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591009623 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009624 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 435591009625 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 (16,20)...; Region: OM_channels; cl17244 435591009626 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 435591009627 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 435591009628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591009629 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591009630 dimer interface [polypeptide binding]; other site 435591009631 phosphorylation site [posttranslational modification] 435591009632 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 435591009633 ATP binding site [chemical binding]; other site 435591009634 Mg2+ binding site [ion binding]; other site 435591009635 G-X-G motif; other site 435591009636 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 435591009637 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 435591009638 active site 435591009639 phosphorylation site [posttranslational modification] 435591009640 intermolecular recognition site; other site 435591009641 dimerization interface [polypeptide binding]; other site 435591009642 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 435591009643 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591009644 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591009645 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 435591009646 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591009647 FtsX-like permease family; Region: FtsX; pfam02687 435591009648 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 435591009649 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 435591009650 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 435591009651 putative NADH binding site [chemical binding]; other site 435591009652 putative active site [active] 435591009653 nudix motif; other site 435591009654 putative metal binding site [ion binding]; other site 435591009655 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 435591009656 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 435591009657 active site 435591009658 phosphorylation site [posttranslational modification] 435591009659 intermolecular recognition site; other site 435591009660 dimerization interface [polypeptide binding]; other site 435591009661 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591009662 Walker A motif; other site 435591009663 ATP binding site [chemical binding]; other site 435591009664 Walker B motif; other site 435591009665 arginine finger; other site 435591009666 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435591009667 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591009668 Leishmanolysin; Region: Peptidase_M8; pfam01457 435591009669 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 435591009670 ATP binding site [chemical binding]; other site 435591009671 Mg2+ binding site [ion binding]; other site 435591009672 G-X-G motif; other site 435591009673 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591009674 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591009675 dimer interface [polypeptide binding]; other site 435591009676 phosphorylation site [posttranslational modification] 435591009677 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 435591009678 ATP binding site [chemical binding]; other site 435591009679 Mg2+ binding site [ion binding]; other site 435591009680 G-X-G motif; other site 435591009681 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 435591009682 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 435591009683 active site 435591009684 phosphorylation site [posttranslational modification] 435591009685 intermolecular recognition site; other site 435591009686 dimerization interface [polypeptide binding]; other site 435591009687 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009688 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 (16,20)...; Region: OM_channels; cl17244 435591009689 Uncharacterized conserved protein [Function unknown]; Region: COG4121 435591009690 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 435591009691 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435591009692 catalytic residues [active] 435591009693 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 435591009694 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 435591009695 active site 435591009696 PHP Thumb interface [polypeptide binding]; other site 435591009697 metal binding site [ion binding]; metal-binding site 435591009698 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 435591009699 generic binding surface II; other site 435591009700 generic binding surface I; other site 435591009701 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591009702 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 435591009703 23S rRNA interface [nucleotide binding]; other site 435591009704 L3 interface [polypeptide binding]; other site 435591009705 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 435591009706 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 435591009707 rRNA interaction site [nucleotide binding]; other site 435591009708 S8 interaction site; other site 435591009709 putative laminin-1 binding site; other site 435591009710 elongation factor Ts; Provisional; Region: tsf; PRK09377 435591009711 UBA/TS-N domain; Region: UBA; pfam00627 435591009712 Elongation factor TS; Region: EF_TS; pfam00889 435591009713 Elongation factor TS; Region: EF_TS; pfam00889 435591009714 aspartate aminotransferase; Provisional; Region: PRK05764 435591009715 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 435591009716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591009717 homodimer interface [polypeptide binding]; other site 435591009718 catalytic residue [active] 435591009719 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 435591009720 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 435591009721 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 435591009722 dimerization interface [polypeptide binding]; other site 435591009723 active site 435591009724 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 435591009725 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 435591009726 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 435591009727 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 435591009728 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 435591009729 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 435591009730 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591009731 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 435591009732 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 435591009733 Response regulator receiver domain; Region: Response_reg; pfam00072 435591009734 active site 435591009735 phosphorylation site [posttranslational modification] 435591009736 intermolecular recognition site; other site 435591009737 dimerization interface [polypeptide binding]; other site 435591009738 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435591009739 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591009740 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 435591009741 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 435591009742 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 435591009743 Int/Topo IB signature motif; other site 435591009744 Virulence protein [General function prediction only]; Region: COG3943 435591009745 Phage associated DNA primase [General function prediction only]; Region: COG3378 435591009746 CHC2 zinc finger; Region: zf-CHC2; cl17510 435591009747 Toprim-like; Region: Toprim_2; pfam13155 435591009748 active site 435591009749 metal binding site [ion binding]; metal-binding site 435591009750 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 435591009751 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 435591009752 Family description; Region: DsbD_2; pfam13386 435591009753 Predicted permeases [General function prediction only]; Region: COG0701 435591009754 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 435591009755 Predicted permease; Region: DUF318; cl17795 435591009756 Predicted permease; Region: DUF318; cl17795 435591009757 Low molecular weight phosphatase family; Region: LMWPc; cd00115 435591009758 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 435591009759 active site 435591009760 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 435591009761 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 435591009762 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 435591009763 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 435591009764 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 435591009765 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 435591009766 active site 435591009767 DNA binding site [nucleotide binding] 435591009768 Int/Topo IB signature motif; other site 435591009769 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 435591009770 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 435591009771 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 435591009772 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 435591009773 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 435591009774 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 435591009775 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 435591009776 IHF - DNA interface [nucleotide binding]; other site 435591009777 IHF dimer interface [polypeptide binding]; other site 435591009778 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 435591009779 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 435591009780 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 435591009781 ligand binding site [chemical binding]; other site 435591009782 Thiamine pyrophosphokinase; Region: TPK; cd07995 435591009783 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 435591009784 active site 435591009785 dimerization interface [polypeptide binding]; other site 435591009786 thiamine binding site [chemical binding]; other site 435591009787 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 435591009788 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591009789 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 (16,20)...; Region: OM_channels; cl17244 435591009790 hypothetical protein; Validated; Region: PRK02001 435591009791 transcription termination factor NusA; Region: NusA; TIGR01953 435591009792 NusA N-terminal domain; Region: NusA_N; pfam08529 435591009793 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 435591009794 RNA binding site [nucleotide binding]; other site 435591009795 homodimer interface [polypeptide binding]; other site 435591009796 NusA-like KH domain; Region: KH_5; pfam13184 435591009797 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 435591009798 G-X-X-G motif; other site 435591009799 translation initiation factor IF-2; Region: IF-2; TIGR00487 435591009800 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 435591009801 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 435591009802 G1 box; other site 435591009803 putative GEF interaction site [polypeptide binding]; other site 435591009804 GTP/Mg2+ binding site [chemical binding]; other site 435591009805 Switch I region; other site 435591009806 G2 box; other site 435591009807 G3 box; other site 435591009808 Switch II region; other site 435591009809 G4 box; other site 435591009810 G5 box; other site 435591009811 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 435591009812 Translation-initiation factor 2; Region: IF-2; pfam11987 435591009813 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 435591009814 Colicin V production protein; Region: Colicin_V; pfam02674 435591009815 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 435591009816 putative ABC transporter; Region: ycf24; CHL00085 435591009817 FeS assembly ATPase SufC; Region: sufC; TIGR01978 435591009818 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 435591009819 Walker A/P-loop; other site 435591009820 ATP binding site [chemical binding]; other site 435591009821 Q-loop/lid; other site 435591009822 ABC transporter signature motif; other site 435591009823 Walker B; other site 435591009824 D-loop; other site 435591009825 H-loop/switch region; other site 435591009826 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 435591009827 FeS assembly protein SufD; Region: sufD; TIGR01981 435591009828 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435591009829 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 435591009830 active site 435591009831 metal binding site [ion binding]; metal-binding site 435591009832 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 435591009833 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591009834 Coenzyme A binding pocket [chemical binding]; other site 435591009835 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 435591009836 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 435591009837 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 435591009838 Ca binding site [ion binding]; other site 435591009839 active site 435591009840 homodimer interface [polypeptide binding]; other site 435591009841 catalytic site [active] 435591009842 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 435591009843 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 435591009844 CPE1046 is an uncharacterized Clostridium perfringens protein with a glycosyl hydrolase family 31 (GH31) domain. The domain architecture of CPE1046 and its orthologs includes a C-terminal fibronectin type 3 (FN3) domain and a coagulation factor 5/8 type...; Region: GH31_CPE1046; cd06596 435591009845 putative active site [active] 435591009846 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 435591009847 putative catalytic site [active] 435591009848 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591009849 Sulfatase; Region: Sulfatase; pfam00884 435591009850 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 435591009851 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 435591009852 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435591009853 catalytic residue [active] 435591009854 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 435591009855 RNA/DNA hybrid binding site [nucleotide binding]; other site 435591009856 active site 435591009857 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 435591009858 M28 Zn-Peptidases; Region: M28_like_6; cd08656 435591009859 Peptidase family M28; Region: Peptidase_M28; pfam04389 435591009860 metal binding site [ion binding]; metal-binding site 435591009861 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 435591009862 Glutamine amidotransferase class-I; Region: GATase; pfam00117 435591009863 catalytic triad [active] 435591009864 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 435591009865 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 435591009866 active site 435591009867 dimer interface [polypeptide binding]; other site 435591009868 Peptidase C26; Region: Peptidase_C26; pfam07722 435591009869 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 435591009870 catalytic triad [active] 435591009871 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 435591009872 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 435591009873 active site 435591009874 dimer interface [polypeptide binding]; other site 435591009875 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 435591009876 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 435591009877 ATP binding site [chemical binding]; other site 435591009878 Mg2+ binding site [ion binding]; other site 435591009879 G-X-G motif; other site 435591009880 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 435591009881 anchoring element; other site 435591009882 dimer interface [polypeptide binding]; other site 435591009883 ATP binding site [chemical binding]; other site 435591009884 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 435591009885 active site 435591009886 putative metal-binding site [ion binding]; other site 435591009887 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 435591009888 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 435591009889 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 435591009890 Recombination protein O N terminal; Region: RecO_N; pfam11967 435591009891 Recombination protein O C terminal; Region: RecO_C; pfam02565 435591009892 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 435591009893 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 435591009894 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 435591009895 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 435591009896 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 435591009897 anti sigma factor interaction site; other site 435591009898 regulatory phosphorylation site [posttranslational modification]; other site 435591009899 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591009900 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591009901 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435591009902 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435591009903 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 435591009904 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 435591009905 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591009906 putative active site [active] 435591009907 putative metal binding site [ion binding]; other site 435591009908 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 435591009909 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 435591009910 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591009911 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 435591009912 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 435591009913 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 435591009914 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 435591009915 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 435591009916 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 435591009917 active site 435591009918 trimer interface [polypeptide binding]; other site 435591009919 allosteric site; other site 435591009920 active site lid [active] 435591009921 hexamer (dimer of trimers) interface [polypeptide binding]; other site 435591009922 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 435591009923 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591009924 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591009925 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591009926 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591009927 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009928 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591009929 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 (16,20)...; Region: OM_channels; cl17244 435591009930 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 435591009931 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435591009932 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435591009933 HlyD family secretion protein; Region: HlyD_3; pfam13437 435591009934 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591009935 FtsX-like permease family; Region: FtsX; pfam02687 435591009936 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591009937 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435591009938 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 435591009939 FtsX-like permease family; Region: FtsX; pfam02687 435591009940 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 435591009941 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435591009942 Walker A/P-loop; other site 435591009943 ATP binding site [chemical binding]; other site 435591009944 Q-loop/lid; other site 435591009945 ABC transporter signature motif; other site 435591009946 Walker B; other site 435591009947 D-loop; other site 435591009948 H-loop/switch region; other site 435591009949 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 435591009950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591009951 ATP-grasp domain; Region: ATP-grasp; pfam02222 435591009952 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591009953 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591009954 ComEC family competence protein; Provisional; Region: PRK11539 435591009955 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591009956 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591009957 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591009958 SusD family; Region: SusD; pfam07980 435591009959 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591009960 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009961 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591009962 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591009963 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591009964 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591009965 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 435591009966 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 (16,20)...; Region: OM_channels; cl17244 435591009967 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591009968 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591009969 SusD family; Region: SusD; pfam07980 435591009970 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 435591009971 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 435591009972 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435591009973 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 435591009974 dimer interface [polypeptide binding]; other site 435591009975 active site 435591009976 metal binding site [ion binding]; metal-binding site 435591009977 glutathione binding site [chemical binding]; other site 435591009978 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 435591009979 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435591009980 nucleotide binding site [chemical binding]; other site 435591009981 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 435591009982 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_22; cd04681 435591009983 nudix motif; other site 435591009984 Outer membrane lipoprotein; Region: YfiO; pfam13525 435591009985 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 435591009986 binding surface 435591009987 TPR motif; other site 435591009988 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 435591009989 binding surface 435591009990 TPR motif; other site 435591009991 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 435591009992 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 435591009993 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 435591009994 binding surface 435591009995 TPR motif; other site 435591009996 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 435591009997 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 435591009998 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 435591009999 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 435591010000 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591010001 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 435591010002 ATP binding site [chemical binding]; other site 435591010003 Mg2+ binding site [ion binding]; other site 435591010004 G-X-G motif; other site 435591010005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591010006 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 435591010007 ATP binding site [chemical binding]; other site 435591010008 Mg2+ binding site [ion binding]; other site 435591010009 G-X-G motif; other site 435591010010 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591010011 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 435591010012 dimer interface [polypeptide binding]; other site 435591010013 phosphorylation site [posttranslational modification] 435591010014 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 435591010015 ATP binding site [chemical binding]; other site 435591010016 Mg2+ binding site [ion binding]; other site 435591010017 G-X-G motif; other site 435591010018 Response regulator receiver domain; Region: Response_reg; pfam00072 435591010019 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 435591010020 active site 435591010021 phosphorylation site [posttranslational modification] 435591010022 intermolecular recognition site; other site 435591010023 dimerization interface [polypeptide binding]; other site 435591010024 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 435591010025 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 435591010026 Tetratricopeptide repeat; Region: TPR_16; pfam13432 435591010027 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 435591010028 binding surface 435591010029 TPR motif; other site 435591010030 DNA topoisomerase I; Validated; Region: PRK06599 435591010031 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 435591010032 active site 435591010033 interdomain interaction site; other site 435591010034 putative metal-binding site [ion binding]; other site 435591010035 nucleotide binding site [chemical binding]; other site 435591010036 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 435591010037 domain I; other site 435591010038 DNA binding groove [nucleotide binding] 435591010039 phosphate binding site [ion binding]; other site 435591010040 domain II; other site 435591010041 domain III; other site 435591010042 nucleotide binding site [chemical binding]; other site 435591010043 catalytic site [active] 435591010044 domain IV; other site 435591010045 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 435591010046 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 435591010047 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 435591010048 diiron binding motif [ion binding]; other site 435591010049 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 435591010050 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 435591010051 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 435591010052 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591010053 active site 435591010054 HIGH motif; other site 435591010055 nucleotide binding site [chemical binding]; other site 435591010056 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 435591010057 KMSK motif region; other site 435591010058 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 435591010059 tRNA binding surface [nucleotide binding]; other site 435591010060 anticodon binding site; other site 435591010061 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 435591010062 IHF dimer interface [polypeptide binding]; other site 435591010063 IHF - DNA interface [nucleotide binding]; other site 435591010064 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 435591010065 Rhomboid family; Region: Rhomboid; pfam01694 435591010066 Protein of function (DUF2518); Region: DUF2518; pfam10726 435591010067 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 435591010068 putative catalytic site [active] 435591010069 putative metal binding site [ion binding]; other site 435591010070 putative phosphate binding site [ion binding]; other site 435591010071 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 435591010072 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 435591010073 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 435591010074 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 435591010075 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 435591010076 Protein export membrane protein; Region: SecD_SecF; pfam02355 435591010077 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591010078 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 435591010079 active site 435591010080 DNA binding site [nucleotide binding] 435591010081 Int/Topo IB signature motif; other site 435591010082 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435591010083 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 435591010084 homodimer interface [polypeptide binding]; other site 435591010085 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cl02713 435591010086 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 435591010087 amidase catalytic site [active] 435591010088 Zn binding residues [ion binding]; other site 435591010089 substrate binding site [chemical binding]; other site 435591010090 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591010091 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 435591010092 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 435591010093 NAD(P) binding site [chemical binding]; other site 435591010094 homodimer interface [polypeptide binding]; other site 435591010095 substrate binding site [chemical binding]; other site 435591010096 active site 435591010097 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 435591010098 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 435591010099 NAD binding site [chemical binding]; other site 435591010100 substrate binding site [chemical binding]; other site 435591010101 homodimer interface [polypeptide binding]; other site 435591010102 active site 435591010103 WxcM-like, C-terminal; Region: FdtA; pfam05523 435591010104 WxcM-like, C-terminal; Region: FdtA; pfam05523 435591010105 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 435591010106 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 435591010107 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 435591010108 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 435591010109 inhibitor-cofactor binding pocket; inhibition site 435591010110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591010111 catalytic residue [active] 435591010112 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435591010113 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 435591010114 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 435591010115 putative ligand binding site [chemical binding]; other site 435591010116 putative catalytic site [active] 435591010117 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 435591010118 substrate binding site; other site 435591010119 dimer interface; other site 435591010120 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435591010121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591010122 NAD(P) binding site [chemical binding]; other site 435591010123 active site 435591010124 LicD family; Region: LicD; pfam04991 435591010125 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 435591010126 trimer interface [polypeptide binding]; other site 435591010127 active site 435591010128 substrate binding site [chemical binding]; other site 435591010129 CoA binding site [chemical binding]; other site 435591010130 Phosphopantetheine attachment site; Region: PP-binding; cl09936 435591010131 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 435591010132 classical (c) SDRs; Region: SDR_c; cd05233 435591010133 NAD(P) binding site [chemical binding]; other site 435591010134 active site 435591010135 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 435591010136 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 435591010137 dimer interface [polypeptide binding]; other site 435591010138 active site 435591010139 CoA binding pocket [chemical binding]; other site 435591010140 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435591010141 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 435591010142 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 435591010143 putative active site [active] 435591010144 putative catalytic site [active] 435591010145 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435591010146 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 435591010147 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 435591010148 putative trimer interface [polypeptide binding]; other site 435591010149 putative CoA binding site [chemical binding]; other site 435591010150 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 435591010151 dimer interface [polypeptide binding]; other site 435591010152 substrate binding site [chemical binding]; other site 435591010153 metal binding site [ion binding]; metal-binding site 435591010154 FkbH-like domain; Region: FkbH; TIGR01686 435591010155 Acid Phosphatase; Region: Acid_PPase; cl17256 435591010156 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 435591010157 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435591010158 active site 435591010159 NTP binding site [chemical binding]; other site 435591010160 metal binding triad [ion binding]; metal-binding site 435591010161 antibiotic binding site [chemical binding]; other site 435591010162 Protein of unknown function DUF86; Region: DUF86; cl01031 435591010163 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 435591010164 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 435591010165 inhibitor-cofactor binding pocket; inhibition site 435591010166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591010167 catalytic residue [active] 435591010168 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 435591010169 oligomeric interface; other site 435591010170 putative active site [active] 435591010171 homodimer interface [polypeptide binding]; other site 435591010172 urocanate hydratase; Provisional; Region: PRK05414 435591010173 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 435591010174 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 435591010175 Formiminotransferase domain; Region: FTCD; pfam02971 435591010176 imidazolonepropionase; Validated; Region: PRK09356 435591010177 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 435591010178 active site 435591010179 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 435591010180 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 435591010181 active sites [active] 435591010182 tetramer interface [polypeptide binding]; other site 435591010183 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 435591010184 Acyltransferase family; Region: Acyl_transf_3; pfam01757 435591010185 Domain of unknown function DUF59; Region: DUF59; pfam01883 435591010186 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 435591010187 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 435591010188 S-adenosylmethionine binding site [chemical binding]; other site 435591010189 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 435591010190 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 435591010191 active site 435591010192 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 435591010193 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435591010194 substrate binding site [chemical binding]; other site 435591010195 ATP binding site [chemical binding]; other site 435591010196 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 435591010197 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 435591010198 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 435591010199 protein binding site [polypeptide binding]; other site 435591010200 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 435591010201 Catalytic dyad [active] 435591010202 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 435591010203 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591010204 putative active site [active] 435591010205 putative metal binding site [ion binding]; other site 435591010206 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 435591010207 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591010208 putative active site [active] 435591010209 putative metal binding site [ion binding]; other site 435591010210 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435591010211 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 435591010212 active site 435591010213 phosphorylation site [posttranslational modification] 435591010214 intermolecular recognition site; other site 435591010215 dimerization interface [polypeptide binding]; other site 435591010216 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 435591010217 DNA binding site [nucleotide binding] 435591010218 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591010219 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 435591010220 ATP binding site [chemical binding]; other site 435591010221 G-X-G motif; other site 435591010222 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 435591010223 Radical SAM superfamily; Region: Radical_SAM; pfam04055 435591010224 FeS/SAM binding site; other site 435591010225 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 435591010226 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591010227 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 (16,20)...; Region: OM_channels; cl17244 435591010228 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591010229 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 435591010230 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 435591010231 putative active site [active] 435591010232 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435591010233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435591010234 Walker A/P-loop; other site 435591010235 ATP binding site [chemical binding]; other site 435591010236 Q-loop/lid; other site 435591010237 ABC transporter signature motif; other site 435591010238 Walker B; other site 435591010239 D-loop; other site 435591010240 H-loop/switch region; other site 435591010241 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 435591010242 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435591010243 active site 435591010244 NTP binding site [chemical binding]; other site 435591010245 metal binding triad [ion binding]; metal-binding site 435591010246 antibiotic binding site [chemical binding]; other site 435591010247 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 435591010248 putative FMN binding site [chemical binding]; other site 435591010249 NADPH bind site [chemical binding]; other site 435591010250 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591010251 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 (16,20)...; Region: OM_channels; cl17244 435591010252 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591010253 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 435591010254 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591010255 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 435591010256 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591010257 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591010258 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 (16,20)...; Region: OM_channels; cl17244 435591010259 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591010260 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591010261 SusD family; Region: SusD; pfam07980 435591010262 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 435591010263 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 435591010264 ABC-ATPase subunit interface; other site 435591010265 dimer interface [polypeptide binding]; other site 435591010266 putative PBP binding regions; other site 435591010267 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 435591010268 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 435591010269 Walker A/P-loop; other site 435591010270 ATP binding site [chemical binding]; other site 435591010271 Q-loop/lid; other site 435591010272 ABC transporter signature motif; other site 435591010273 Walker B; other site 435591010274 D-loop; other site 435591010275 H-loop/switch region; other site 435591010276 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 435591010277 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 435591010278 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 435591010279 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591010280 starch binding outer membrane protein SusD; Region: SusD; cl17845 435591010281 SusD family; Region: SusD; pfam07980 435591010282 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591010283 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591010284 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591010285 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 (16,20)...; Region: OM_channels; cl17244 435591010286 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 435591010287 oligomerisation interface [polypeptide binding]; other site 435591010288 mobile loop; other site 435591010289 roof hairpin; other site 435591010290 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 435591010291 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 435591010292 FAD binding pocket [chemical binding]; other site 435591010293 FAD binding motif [chemical binding]; other site 435591010294 phosphate binding motif [ion binding]; other site 435591010295 beta-alpha-beta structure motif; other site 435591010296 NAD binding pocket [chemical binding]; other site 435591010297 Iron coordination center [ion binding]; other site 435591010298 putative oxidoreductase; Provisional; Region: PRK12831 435591010299 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 435591010300 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435591010301 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 435591010302 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 435591010303 iron-sulfur cluster [ion binding]; other site 435591010304 [2Fe-2S] cluster binding site [ion binding]; other site 435591010305 argininosuccinate lyase; Provisional; Region: PRK00855 435591010306 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 435591010307 active sites [active] 435591010308 tetramer interface [polypeptide binding]; other site 435591010309 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 435591010310 hydrophobic ligand binding site; other site 435591010311 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435591010312 active site 435591010313 comF family protein; Region: comF; TIGR00201 435591010314 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435591010315 active site 435591010316 RecX family; Region: RecX; pfam02631 435591010317 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 435591010318 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 435591010319 S-adenosylmethionine binding site [chemical binding]; other site 435591010320 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 435591010321 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 435591010322 catalytic motif [active] 435591010323 Zn binding site [ion binding]; other site 435591010324 RibD C-terminal domain; Region: RibD_C; cl17279 435591010325 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 435591010326 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14838 435591010327 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 435591010328 catalytic residue [active] 435591010329 putative FPP diphosphate binding site; other site 435591010330 putative FPP binding hydrophobic cleft; other site 435591010331 dimer interface [polypeptide binding]; other site 435591010332 putative IPP diphosphate binding site; other site 435591010333 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 435591010334 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435591010335 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435591010336 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435591010337 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435591010338 Surface antigen; Region: Bac_surface_Ag; pfam01103 435591010339 periplasmic chaperone; Provisional; Region: PRK10780 435591010340 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 435591010341 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 435591010342 glutamate racemase; Provisional; Region: PRK00865 435591010343 hypothetical protein; Provisional; Region: PRK11770 435591010344 Domain of unknown function (DUF307); Region: DUF307; pfam03733 435591010345 Domain of unknown function (DUF307); Region: DUF307; pfam03733 435591010346 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 435591010347 Peptidase family M23; Region: Peptidase_M23; pfam01551 435591010348 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591010349 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 435591010350 META domain; Region: META; pfam03724 435591010351 META domain; Region: META; pfam03724 435591010352 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 435591010353 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 435591010354 N-terminal plug; other site 435591010355 ligand-binding site [chemical binding]; other site 435591010356 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 435591010357 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435591010358 active site 435591010359 NTP binding site [chemical binding]; other site 435591010360 metal binding triad [ion binding]; metal-binding site 435591010361 antibiotic binding site [chemical binding]; other site 435591010362 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 435591010363 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 435591010364 AAA ATPase domain; Region: AAA_16; pfam13191 435591010365 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 435591010366 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 435591010367 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435591010368 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435591010369 Zn2+ binding site [ion binding]; other site 435591010370 Mg2+ binding site [ion binding]; other site 435591010371 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 435591010372 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 435591010373 ligand binding site [chemical binding]; other site 435591010374 active site 435591010375 UGI interface [polypeptide binding]; other site 435591010376 catalytic site [active] 435591010377 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 435591010378 dimer interface [polypeptide binding]; other site 435591010379 active site 435591010380 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435591010381 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435591010382 Coenzyme A binding pocket [chemical binding]; other site 435591010383 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 435591010384 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 435591010385 ligand binding site [chemical binding]; other site 435591010386 flexible hinge region; other site 435591010387 Predicted membrane protein [Function unknown]; Region: COG2259 435591010388 adenylosuccinate lyase; Provisional; Region: PRK09285 435591010389 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 435591010390 tetramer interface [polypeptide binding]; other site 435591010391 active site 435591010392 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 435591010393 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 435591010394 RNA binding surface [nucleotide binding]; other site 435591010395 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 435591010396 active site 435591010397 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 435591010398 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 435591010399 putative dimer interface [polypeptide binding]; other site 435591010400 putative anticodon binding site; other site 435591010401 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 435591010402 homodimer interface [polypeptide binding]; other site 435591010403 motif 1; other site 435591010404 motif 2; other site 435591010405 active site 435591010406 motif 3; other site 435591010407 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 435591010408 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 435591010409 putative DNA binding site [nucleotide binding]; other site 435591010410 putative Zn2+ binding site [ion binding]; other site 435591010411 AsnC family; Region: AsnC_trans_reg; pfam01037 435591010412 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 435591010413 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 435591010414 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 435591010415 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 435591010416 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 435591010417 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 435591010418 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 435591010419 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 435591010420 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 435591010421 active site 435591010422 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 435591010423 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 435591010424 substrate binding pocket [chemical binding]; other site 435591010425 chain length determination region; other site 435591010426 substrate-Mg2+ binding site; other site 435591010427 catalytic residues [active] 435591010428 aspartate-rich region 1; other site 435591010429 active site lid residues [active] 435591010430 aspartate-rich region 2; other site 435591010431 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 435591010432 cytidylate kinase; Provisional; Region: cmk; PRK00023 435591010433 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 435591010434 CMP-binding site; other site 435591010435 The sites determining sugar specificity; other site 435591010436 LytB protein; Region: LYTB; cl00507 435591010437 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 435591010438 6-phosphofructokinase; Provisional; Region: PRK03202 435591010439 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 435591010440 active site 435591010441 ADP/pyrophosphate binding site [chemical binding]; other site 435591010442 dimerization interface [polypeptide binding]; other site 435591010443 allosteric effector site; other site 435591010444 fructose-1,6-bisphosphate binding site; other site 435591010445 Plexin cytoplasmic RasGAP domain; Region: Plexin_cytopl; pfam08337 435591010446 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591010447 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591010448 membrane ATPase/protein kinase; Provisional; Region: PRK09435 435591010449 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 435591010450 Walker A; other site 435591010451 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 435591010452 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 435591010453 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 435591010454 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 435591010455 MG2 domain; Region: A2M_N; pfam01835 435591010456 Alpha-2-macroglobulin family; Region: A2M; pfam00207 435591010457 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 435591010458 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 435591010459 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 435591010460 folate binding site [chemical binding]; other site 435591010461 NADP+ binding site [chemical binding]; other site 435591010462 thymidylate synthase; Reviewed; Region: thyA; PRK01827 435591010463 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 435591010464 dimerization interface [polypeptide binding]; other site 435591010465 active site 435591010466 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 435591010467 active site 435591010468 catalytic residues [active] 435591010469 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 435591010470 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 435591010471 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 435591010472 active site 435591010473 DNA binding site [nucleotide binding] 435591010474 Int/Topo IB signature motif; other site 435591010475 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 435591010476 binding surface 435591010477 TPR repeat; Region: TPR_11; pfam13414 435591010478 TPR motif; other site 435591010479 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591010480 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435591010481 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435591010482 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 435591010483 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435591010484 ligand binding site [chemical binding]; other site 435591010485 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 435591010486 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 435591010487 Domain of unknown function (DUF2027); Region: DUF2027; pfam09640 435591010488 Smr domain; Region: Smr; pfam01713 435591010489 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 435591010490 putative active site [active] 435591010491 putative metal binding residues [ion binding]; other site 435591010492 signature motif; other site 435591010493 putative dimer interface [polypeptide binding]; other site 435591010494 putative phosphate binding site [ion binding]; other site 435591010495 Peptidase S46; Region: Peptidase_S46; pfam10459 435591010496 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435591010497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 435591010498 AAA domain; Region: AAA_33; pfam13671 435591010499 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 435591010500 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 435591010501 FeS/SAM binding site; other site 435591010502 HemN C-terminal domain; Region: HemN_C; pfam06969 435591010503 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 435591010504 elongation factor G; Reviewed; Region: PRK12740 435591010505 G1 box; other site 435591010506 putative GEF interaction site [polypeptide binding]; other site 435591010507 GTP/Mg2+ binding site [chemical binding]; other site 435591010508 Switch I region; other site 435591010509 G2 box; other site 435591010510 G3 box; other site 435591010511 Switch II region; other site 435591010512 G4 box; other site 435591010513 G5 box; other site 435591010514 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 435591010515 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 435591010516 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 435591010517 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435591010518 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 435591010519 putative active site [active] 435591010520 putative metal binding site [ion binding]; other site 435591010521 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 435591010522 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 435591010523 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 435591010524 homodimer interface [polypeptide binding]; other site 435591010525 substrate-cofactor binding pocket; other site 435591010526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435591010527 catalytic residue [active] 435591010528 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 435591010529 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 435591010530 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 435591010531 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435591010532 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 435591010533 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 435591010534 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 435591010535 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 435591010536 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 435591010537 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 435591010538 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 435591010539 nucleophile elbow; other site 435591010540 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 435591010541 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 435591010542 active site 435591010543 catalytic site [active] 435591010544 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 435591010545 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 435591010546 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 435591010547 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 435591010548 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435591010549 active site 435591010550 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 435591010551 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 435591010552 Peptidase family M49; Region: Peptidase_M49; pfam03571 435591010553 A new structural DNA glycosylase; Region: AlkD_like; cd06561 435591010554 active site 435591010555 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 435591010556 metal binding site 2 [ion binding]; metal-binding site 435591010557 putative DNA binding helix; other site 435591010558 metal binding site 1 [ion binding]; metal-binding site 435591010559 dimer interface [polypeptide binding]; other site 435591010560 structural Zn2+ binding site [ion binding]; other site 435591010561 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 435591010562 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 435591010563 GDP-binding site [chemical binding]; other site 435591010564 ACT binding site; other site 435591010565 IMP binding site; other site 435591010566 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 435591010567 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 435591010568 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 435591010569 dimer interface [polypeptide binding]; other site 435591010570 motif 1; other site 435591010571 active site 435591010572 motif 2; other site 435591010573 motif 3; other site 435591010574 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 435591010575 anticodon binding site; other site 435591010576 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 435591010577 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 435591010578 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 435591010579 oligomerisation interface [polypeptide binding]; other site 435591010580 mobile loop; other site 435591010581 roof hairpin; other site 435591010582 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 435591010583 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 435591010584 ring oligomerisation interface [polypeptide binding]; other site 435591010585 ATP/Mg binding site [chemical binding]; other site 435591010586 stacking interactions; other site 435591010587 hinge regions; other site 435591010588 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591010589 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591010590 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 435591010591 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 435591010592 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 435591010593 homodimer interface [polypeptide binding]; other site 435591010594 metal binding site [ion binding]; metal-binding site 435591010595 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 435591010596 homodimer interface [polypeptide binding]; other site 435591010597 active site 435591010598 putative chemical substrate binding site [chemical binding]; other site 435591010599 metal binding site [ion binding]; metal-binding site 435591010600 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 435591010601 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 435591010602 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 435591010603 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 435591010604 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 435591010605 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 435591010606 RNA binding surface [nucleotide binding]; other site 435591010607 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 435591010608 active site 435591010609 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 435591010610 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435591010611 active site 435591010612 HIGH motif; other site 435591010613 nucleotide binding site [chemical binding]; other site 435591010614 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 435591010615 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 435591010616 active site 435591010617 KMSKS motif; other site 435591010618 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 435591010619 tRNA binding surface [nucleotide binding]; other site 435591010620 anticodon binding site; other site 435591010621 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 435591010622 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435591010623 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591010624 dimer interface [polypeptide binding]; other site 435591010625 phosphorylation site [posttranslational modification] 435591010626 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 435591010627 ATP binding site [chemical binding]; other site 435591010628 Mg2+ binding site [ion binding]; other site 435591010629 G-X-G motif; other site 435591010630 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435591010631 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 435591010632 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 435591010633 active site 435591010634 putative DNA-binding cleft [nucleotide binding]; other site 435591010635 dimer interface [polypeptide binding]; other site 435591010636 glutamate dehydrogenase; Provisional; Region: PRK14030 435591010637 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 435591010638 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 435591010639 NAD(P) binding site [chemical binding]; other site 435591010640 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 435591010641 intermolecular recognition site; other site 435591010642 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 435591010643 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 435591010644 putative catalytic site [active] 435591010645 putative metal binding site [ion binding]; other site 435591010646 putative phosphate binding site [ion binding]; other site 435591010647 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 435591010648 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 435591010649 Substrate binding site; other site 435591010650 metal-binding site 435591010651 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 435591010652 Phosphotransferase enzyme family; Region: APH; pfam01636 435591010653 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 435591010654 glutamate dehydrogenase; Provisional; Region: PRK14031 435591010655 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 435591010656 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 435591010657 NAD(P) binding site [chemical binding]; other site 435591010658 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 435591010659 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591010660 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 435591010661 active site 435591010662 DNA binding site [nucleotide binding] 435591010663 Int/Topo IB signature motif; other site 435591010664 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591010665 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 435591010666 Walker A motif; other site 435591010667 ATP binding site [chemical binding]; other site 435591010668 Walker B motif; other site 435591010669 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 435591010670 Integrase core domain; Region: rve; pfam00665 435591010671 Transcription antiterminator [Transcription]; Region: NusG; COG0250 435591010672 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435591010673 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 435591010674 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 435591010675 NAD(P) binding site [chemical binding]; other site 435591010676 homodimer interface [polypeptide binding]; other site 435591010677 substrate binding site [chemical binding]; other site 435591010678 active site 435591010679 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 435591010680 Peptidase M15; Region: Peptidase_M15_3; cl01194 435591010681 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 435591010682 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 435591010683 VirE N-terminal domain; Region: VirE_N; pfam08800 435591010684 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 435591010685 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 435591010686 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435591010687 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435591010688 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435591010689 GNT-I family; Region: GNT-I; pfam03071 435591010690 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cd12082 435591010691 Acyltransferase family; Region: Acyl_transf_3; pfam01757 435591010692 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 435591010693 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 435591010694 substrate binding site; other site 435591010695 dimer interface; other site 435591010696 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 435591010697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591010698 NAD(P) binding site [chemical binding]; other site 435591010699 active site 435591010700 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 435591010701 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 435591010702 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 435591010703 NAD(P) binding site [chemical binding]; other site 435591010704 homodimer interface [polypeptide binding]; other site 435591010705 substrate binding site [chemical binding]; other site 435591010706 active site 435591010707 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 435591010708 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 435591010709 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 435591010710 putative NAD(P) binding site [chemical binding]; other site 435591010711 active site 435591010712 putative substrate binding site [chemical binding]; other site 435591010713 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 435591010714 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 435591010715 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 435591010716 active site 435591010717 homodimer interface [polypeptide binding]; other site 435591010718 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 435591010719 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435591010720 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 435591010721 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 435591010722 dimer interface [polypeptide binding]; other site 435591010723 active site 435591010724 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435591010725 catalytic residues [active] 435591010726 substrate binding site [chemical binding]; other site 435591010727 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 435591010728 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 435591010729 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435591010730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435591010731 NAD(P) binding site [chemical binding]; other site 435591010732 active site 435591010733 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435591010734 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 435591010735 N-terminal plug; other site 435591010736 ligand-binding site [chemical binding]; other site 435591010737 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435591010738 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 435591010739 DNA binding residues [nucleotide binding] 435591010740 dimerization interface [polypeptide binding]; other site 435591010741 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 435591010742 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435591010743 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435591010744 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435591010745 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 435591010746 Uncharacterized conserved protein [Function unknown]; Region: COG1262 435591010747 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 435591010748 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591010749 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591010750 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 435591010751 DNA binding residues [nucleotide binding] 435591010752 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 435591010753 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 435591010754 motif II; other site 435591010755 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 435591010756 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 435591010757 Int/Topo IB signature motif; other site 435591010758 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 435591010759 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 435591010760 SCP-2 sterol transfer family; Region: SCP2; pfam02036 435591010761 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591010762 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 435591010763 MgtC family; Region: MgtC; pfam02308 435591010764 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 435591010765 putative transporter; Provisional; Region: PRK11660 435591010766 Sulfate transporter family; Region: Sulfate_transp; pfam00916 435591010767 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 435591010768 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 435591010769 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 435591010770 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 435591010771 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 435591010772 dimer interface [polypeptide binding]; other site 435591010773 conserved gate region; other site 435591010774 ABC-ATPase subunit interface; other site 435591010775 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 435591010776 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 435591010777 Walker A/P-loop; other site 435591010778 ATP binding site [chemical binding]; other site 435591010779 Q-loop/lid; other site 435591010780 ABC transporter signature motif; other site 435591010781 Walker B; other site 435591010782 D-loop; other site 435591010783 H-loop/switch region; other site 435591010784 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 435591010785 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 435591010786 Domain of unknown function (DUF4313); Region: DUF4313; pfam14190 435591010787 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 435591010788 HSP70 interaction site [polypeptide binding]; other site 435591010789 Domain of unknown function (DUF4120); Region: DUF4120; pfam13496 435591010790 Domain of unknown function (DUF4121); Region: DUF4121; pfam13497 435591010791 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 435591010792 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 435591010793 metal binding site [ion binding]; metal-binding site 435591010794 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 435591010795 catalytic residue [active] 435591010796 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 435591010797 Conjugative transposon protein TraO; Region: TraO; pfam10626 435591010798 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 435591010799 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 435591010800 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 435591010801 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 435591010802 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 435591010803 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 435591010804 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 435591010805 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 435591010806 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 435591010807 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 435591010808 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 435591010809 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 435591010810 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 435591010811 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 435591010812 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 435591010813 DNA binding residues [nucleotide binding] 435591010814 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435591010815 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 435591010816 Domain of unknown function (DUF4122); Region: DUF4122; pfam13498 435591010817 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 435591010818 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 435591010819 Walker A motif; other site 435591010820 ATP binding site [chemical binding]; other site 435591010821 Walker B motif; other site 435591010822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 435591010823 Integrase core domain; Region: rve; pfam00665 435591010824 Domain of unknown function (DUF4121); Region: DUF4121; pfam13497 435591010825 CHC2 zinc finger; Region: zf-CHC2; cl17510 435591010826 Toprim-like; Region: Toprim_2; pfam13155 435591010827 active site 435591010828 metal binding site [ion binding]; metal-binding site 435591010829 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 435591010830 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 435591010831 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 435591010832 EamA-like transporter family; Region: EamA; pfam00892 435591010833 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 435591010834 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 435591010835 putative DNA binding site [nucleotide binding]; other site 435591010836 putative Zn2+ binding site [ion binding]; other site 435591010837 AsnC family; Region: AsnC_trans_reg; pfam01037 435591010838 Helix-turn-helix domain; Region: HTH_18; pfam12833 435591010839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435591010840 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 435591010841 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 435591010842 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 435591010843 S-adenosylmethionine binding site [chemical binding]; other site 435591010844 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 435591010845 Ligand Binding Site [chemical binding]; other site 435591010846 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 435591010847 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 435591010848 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 435591010849 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 435591010850 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 435591010851 FeS/SAM binding site; other site 435591010852 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591010853 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591010854 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591010855 Sulfatase; Region: Sulfatase; pfam00884 435591010856 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591010857 Sulfatase; Region: Sulfatase; cl17466 435591010858 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 435591010859 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 435591010860 putative active site [active] 435591010861 catalytic site [active] 435591010862 putative metal binding site [ion binding]; other site 435591010863 oligomer interface [polypeptide binding]; other site 435591010864 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 435591010865 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 435591010866 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 435591010867 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 435591010868 putative efflux protein, MATE family; Region: matE; TIGR00797 435591010869 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 435591010870 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 435591010871 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 435591010872 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 435591010873 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 435591010874 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 435591010875 active site 435591010876 homotetramer interface [polypeptide binding]; other site 435591010877 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 435591010878 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 435591010879 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 435591010880 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 435591010881 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 435591010882 motif II; other site 435591010883 potassium-transporting ATPase subunit C; Provisional; Region: PRK14002 435591010884 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 435591010885 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 435591010886 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 435591010887 Ligand Binding Site [chemical binding]; other site 435591010888 HAMP domain; Region: HAMP; pfam00672 435591010889 dimerization interface [polypeptide binding]; other site 435591010890 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 435591010891 PAS domain; Region: PAS; smart00091 435591010892 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 435591010893 dimer interface [polypeptide binding]; other site 435591010894 phosphorylation site [posttranslational modification] 435591010895 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 435591010896 ATP binding site [chemical binding]; other site 435591010897 Mg2+ binding site [ion binding]; other site 435591010898 G-X-G motif; other site 435591010899 aspartate kinase III; Validated; Region: PRK09084 435591010900 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 435591010901 nucleotide binding site [chemical binding]; other site 435591010902 substrate binding site [chemical binding]; other site 435591010903 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 435591010904 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 435591010905 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 435591010906 Walker A motif; other site 435591010907 ATP binding site [chemical binding]; other site 435591010908 thiamine-monophosphate kinase; Region: thiL; TIGR01379 435591010909 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 435591010910 ATP binding site [chemical binding]; other site 435591010911 dimerization interface [polypeptide binding]; other site 435591010912 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 435591010913 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 435591010914 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 435591010915 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 435591010916 tandem repeat interface [polypeptide binding]; other site 435591010917 oligomer interface [polypeptide binding]; other site 435591010918 active site residues [active] 435591010919 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 435591010920 tandem repeat interface [polypeptide binding]; other site 435591010921 oligomer interface [polypeptide binding]; other site 435591010922 active site residues [active] 435591010923 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 435591010924 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435591010925 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 435591010926 active site 435591010927 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 435591010928 putative metal binding site [ion binding]; other site 435591010929 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cl02713 435591010930 active site 435591010931 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 435591010932 Interdomain contacts; other site 435591010933 Cytokine receptor motif; other site 435591010934 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 435591010935 catalytic core [active] 435591010936 cobalamin synthase; Reviewed; Region: cobS; PRK00235 435591010937 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 435591010938 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 435591010939 putative dimer interface [polypeptide binding]; other site 435591010940 active site pocket [active] 435591010941 putative cataytic base [active] 435591010942 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 435591010943 homotrimer interface [polypeptide binding]; other site 435591010944 Walker A motif; other site 435591010945 GTP binding site [chemical binding]; other site 435591010946 Walker B motif; other site 435591010947 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 435591010948 RNA binding surface [nucleotide binding]; other site 435591010949 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 435591010950 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 435591010951 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435591010952 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 435591010953 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435591010954 FecR protein; Region: FecR; pfam04773 435591010955 Secretin and TonB N terminus short domain; Region: STN; pfam07660 435591010956 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 435591010957 Cna protein B-type domain; Region: Cna_B_2; pfam13715 435591010958 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 435591010959 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 (16,20)...; Region: OM_channels; cl17244 435591010960 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 435591010961 starch binding outer membrane protein SusD; Region: SusD; cd08977 435591010962 Sulfatase; Region: Sulfatase; cl17466 435591010963 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591010964 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435591010965 Sulfatase; Region: Sulfatase; pfam00884 435591010966 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 435591010967 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 435591010968 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 435591010969 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 435591010970 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 435591010971 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 435591010972 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 435591010973 active site 435591010974 metal binding site [ion binding]; metal-binding site 435591010975 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 435591010976 mce related protein; Region: MCE; pfam02470