-- dump date 20140619_091937 -- class Genbank::misc_feature -- table misc_feature_note -- id note 657318000001 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 657318000002 active site 657318000003 catalytic residues [active] 657318000004 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 657318000005 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 657318000006 putative ligand binding site [chemical binding]; other site 657318000007 putative NAD binding site [chemical binding]; other site 657318000008 catalytic site [active] 657318000009 Sulfatase; Region: Sulfatase; pfam00884 657318000010 DHH family; Region: DHH; pfam01368 657318000011 phosphoglycolate phosphatase; Provisional; Region: PRK13222 657318000012 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 657318000013 motif II; other site 657318000014 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 657318000015 PRD domain; Region: PRD; pfam00874 657318000016 PRD domain; Region: PRD; pfam00874 657318000017 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 657318000018 active site 657318000019 P-loop; other site 657318000020 phosphorylation site [posttranslational modification] 657318000021 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 657318000022 active site 657318000023 phosphorylation site [posttranslational modification] 657318000024 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 657318000025 dimerization domain swap beta strand [polypeptide binding]; other site 657318000026 regulatory protein interface [polypeptide binding]; other site 657318000027 active site 657318000028 regulatory phosphorylation site [posttranslational modification]; other site 657318000029 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 657318000030 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 657318000031 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657318000032 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657318000033 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 657318000034 AAA domain; Region: AAA_14; pfam13173 657318000035 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 657318000036 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318000037 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 657318000038 active site 657318000039 phosphorylation site [posttranslational modification] 657318000040 intermolecular recognition site; other site 657318000041 dimerization interface [polypeptide binding]; other site 657318000042 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 657318000043 DNA binding site [nucleotide binding] 657318000044 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657318000045 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318000046 Walker A/P-loop; other site 657318000047 ATP binding site [chemical binding]; other site 657318000048 Q-loop/lid; other site 657318000049 ABC transporter signature motif; other site 657318000050 Walker B; other site 657318000051 D-loop; other site 657318000052 H-loop/switch region; other site 657318000053 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657318000054 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318000055 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318000056 Walker A/P-loop; other site 657318000057 ATP binding site [chemical binding]; other site 657318000058 Q-loop/lid; other site 657318000059 ABC transporter signature motif; other site 657318000060 Walker B; other site 657318000061 D-loop; other site 657318000062 H-loop/switch region; other site 657318000063 FtsX-like permease family; Region: FtsX; pfam02687 657318000064 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318000065 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 657318000066 active site 657318000067 phosphorylation site [posttranslational modification] 657318000068 intermolecular recognition site; other site 657318000069 dimerization interface [polypeptide binding]; other site 657318000070 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 657318000071 DNA binding site [nucleotide binding] 657318000072 flagellar capping protein; Validated; Region: fliD; PRK07737 657318000073 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 657318000074 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 657318000075 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 657318000076 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 657318000077 putative homodimer interface [polypeptide binding]; other site 657318000078 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 657318000079 heterodimer interface [polypeptide binding]; other site 657318000080 homodimer interface [polypeptide binding]; other site 657318000081 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 657318000082 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 657318000083 23S rRNA interface [nucleotide binding]; other site 657318000084 L7/L12 interface [polypeptide binding]; other site 657318000085 putative thiostrepton binding site; other site 657318000086 L25 interface [polypeptide binding]; other site 657318000087 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 657318000088 mRNA/rRNA interface [nucleotide binding]; other site 657318000089 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 657318000090 core dimer interface [polypeptide binding]; other site 657318000091 peripheral dimer interface [polypeptide binding]; other site 657318000092 L10 interface [polypeptide binding]; other site 657318000093 L11 interface [polypeptide binding]; other site 657318000094 putative EF-Tu interaction site [polypeptide binding]; other site 657318000095 putative EF-G interaction site [polypeptide binding]; other site 657318000096 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 657318000097 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 657318000098 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 657318000099 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 657318000100 RPB1 interaction site [polypeptide binding]; other site 657318000101 RPB10 interaction site [polypeptide binding]; other site 657318000102 RPB11 interaction site [polypeptide binding]; other site 657318000103 RPB3 interaction site [polypeptide binding]; other site 657318000104 RPB12 interaction site [polypeptide binding]; other site 657318000105 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 657318000106 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 657318000107 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 657318000108 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 657318000109 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 657318000110 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 657318000111 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 657318000112 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 657318000113 G-loop; other site 657318000114 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 657318000115 DNA binding site [nucleotide binding] 657318000116 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 657318000117 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 657318000118 S17 interaction site [polypeptide binding]; other site 657318000119 S8 interaction site; other site 657318000120 16S rRNA interaction site [nucleotide binding]; other site 657318000121 streptomycin interaction site [chemical binding]; other site 657318000122 23S rRNA interaction site [nucleotide binding]; other site 657318000123 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 657318000124 elongation factor Tu; Reviewed; Region: PRK00049 657318000125 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 657318000126 G1 box; other site 657318000127 GEF interaction site [polypeptide binding]; other site 657318000128 GTP/Mg2+ binding site [chemical binding]; other site 657318000129 Switch I region; other site 657318000130 G2 box; other site 657318000131 G3 box; other site 657318000132 Switch II region; other site 657318000133 G4 box; other site 657318000134 G5 box; other site 657318000135 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 657318000136 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 657318000137 Antibiotic Binding Site [chemical binding]; other site 657318000138 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 657318000139 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 657318000140 FeS/SAM binding site; other site 657318000141 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 657318000142 H+ Antiporter protein; Region: 2A0121; TIGR00900 657318000143 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; cl17904 657318000144 putative substrate translocation pore; other site 657318000145 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 657318000146 HAMP domain; Region: HAMP; pfam00672 657318000147 dimerization interface [polypeptide binding]; other site 657318000148 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 657318000149 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657318000150 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657318000151 dimer interface [polypeptide binding]; other site 657318000152 putative CheW interface [polypeptide binding]; other site 657318000153 two-component sensor protein; Provisional; Region: cpxA; PRK09470 657318000154 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 657318000155 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 657318000156 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 657318000157 trimer interface [polypeptide binding]; other site 657318000158 putative metal binding site [ion binding]; other site 657318000159 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 657318000160 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 657318000161 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657318000162 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 657318000163 active site 657318000164 catalytic site [active] 657318000165 metal binding site [ion binding]; metal-binding site 657318000166 dimer interface [polypeptide binding]; other site 657318000167 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 657318000168 putative deacylase active site [active] 657318000169 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 657318000170 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 657318000171 active site 657318000172 HIGH motif; other site 657318000173 dimer interface [polypeptide binding]; other site 657318000174 KMSKS motif; other site 657318000175 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 657318000176 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 657318000177 Cl binding site [ion binding]; other site 657318000178 oligomer interface [polypeptide binding]; other site 657318000179 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 657318000180 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 657318000181 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 657318000182 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 657318000183 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 657318000184 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 657318000185 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 657318000186 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 657318000187 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 657318000188 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 657318000189 protein-rRNA interface [nucleotide binding]; other site 657318000190 putative translocon binding site; other site 657318000191 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 657318000192 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 657318000193 G-X-X-G motif; other site 657318000194 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 657318000195 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 657318000196 23S rRNA interface [nucleotide binding]; other site 657318000197 5S rRNA interface [nucleotide binding]; other site 657318000198 putative antibiotic binding site [chemical binding]; other site 657318000199 L25 interface [polypeptide binding]; other site 657318000200 L27 interface [polypeptide binding]; other site 657318000201 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 657318000202 23S rRNA interface [nucleotide binding]; other site 657318000203 putative translocon interaction site; other site 657318000204 signal recognition particle (SRP54) interaction site; other site 657318000205 L23 interface [polypeptide binding]; other site 657318000206 trigger factor interaction site; other site 657318000207 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 657318000208 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 657318000209 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 657318000210 RNA binding site [nucleotide binding]; other site 657318000211 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 657318000212 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 657318000213 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 657318000214 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657318000215 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657318000216 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 657318000217 5S rRNA interface [nucleotide binding]; other site 657318000218 L27 interface [polypeptide binding]; other site 657318000219 23S rRNA interface [nucleotide binding]; other site 657318000220 L5 interface [polypeptide binding]; other site 657318000221 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 657318000222 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 657318000223 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 657318000224 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 657318000225 23S rRNA binding site [nucleotide binding]; other site 657318000226 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 657318000227 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 657318000228 SecY translocase; Region: SecY; pfam00344 657318000229 adenylate kinase; Reviewed; Region: adk; PRK00279 657318000230 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 657318000231 AMP-binding site [chemical binding]; other site 657318000232 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 657318000233 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 657318000234 active site 657318000235 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 657318000236 rRNA binding site [nucleotide binding]; other site 657318000237 predicted 30S ribosome binding site; other site 657318000238 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 657318000239 30S ribosomal protein S13; Region: bact_S13; TIGR03631 657318000240 30S ribosomal protein S11; Validated; Region: PRK05309 657318000241 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 657318000242 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 657318000243 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 657318000244 RNA binding surface [nucleotide binding]; other site 657318000245 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 657318000246 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 657318000247 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 657318000248 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657318000249 active site 657318000250 DNA replication protein DnaC; Validated; Region: PRK06835 657318000251 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 657318000252 Walker A motif; other site 657318000253 ATP binding site [chemical binding]; other site 657318000254 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 657318000255 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 657318000256 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 657318000257 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657318000258 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 657318000259 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657318000260 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657318000261 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 657318000262 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657318000263 ligand binding site; other site 657318000264 oligomer interface; other site 657318000265 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657318000266 dimer interface [polypeptide binding]; other site 657318000267 N-terminal domain interface [polypeptide binding]; other site 657318000268 sulfate 1 binding site; other site 657318000269 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 657318000270 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657318000271 ligand binding site; other site 657318000272 oligomer interface; other site 657318000273 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657318000274 dimer interface [polypeptide binding]; other site 657318000275 N-terminal domain interface [polypeptide binding]; other site 657318000276 sulfate 1 binding site; other site 657318000277 regulatory protein SpoVG; Reviewed; Region: PRK13259 657318000278 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 657318000279 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 657318000280 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 657318000281 minor groove reading motif; other site 657318000282 helix-hairpin-helix signature motif; other site 657318000283 active site 657318000284 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 657318000285 putative active site [active] 657318000286 catalytic residue [active] 657318000287 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 657318000288 shikimate kinase; Reviewed; Region: aroK; PRK00131 657318000289 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 657318000290 ADP binding site [chemical binding]; other site 657318000291 magnesium binding site [ion binding]; other site 657318000292 putative shikimate binding site; other site 657318000293 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 657318000294 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 657318000295 hinge; other site 657318000296 active site 657318000297 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 657318000298 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318000299 Zn2+ binding site [ion binding]; other site 657318000300 Mg2+ binding site [ion binding]; other site 657318000301 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 657318000302 S-adenosylmethionine synthetase; Validated; Region: PRK05250 657318000303 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 657318000304 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 657318000305 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318000306 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 657318000307 active site 657318000308 phosphorylation site [posttranslational modification] 657318000309 intermolecular recognition site; other site 657318000310 dimerization interface [polypeptide binding]; other site 657318000311 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 657318000312 DNA binding site [nucleotide binding] 657318000313 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318000314 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 657318000315 dimerization interface [polypeptide binding]; other site 657318000316 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 657318000317 dimer interface [polypeptide binding]; other site 657318000318 phosphorylation site [posttranslational modification] 657318000319 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 657318000320 ATP binding site [chemical binding]; other site 657318000321 Mg2+ binding site [ion binding]; other site 657318000322 G-X-G motif; other site 657318000323 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318000324 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657318000325 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 657318000326 MraW methylase family; Region: Methyltransf_5; cl17771 657318000327 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 657318000328 Pyruvate formate lyase 1; Region: PFL1; cd01678 657318000329 coenzyme A binding site [chemical binding]; other site 657318000330 active site 657318000331 catalytic residues [active] 657318000332 glycine loop; other site 657318000333 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 657318000334 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 657318000335 FeS/SAM binding site; other site 657318000336 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657318000337 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657318000338 active site 657318000339 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657318000340 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 657318000341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318000342 Walker A/P-loop; other site 657318000343 ATP binding site [chemical binding]; other site 657318000344 Q-loop/lid; other site 657318000345 ABC transporter signature motif; other site 657318000346 Walker B; other site 657318000347 D-loop; other site 657318000348 H-loop/switch region; other site 657318000349 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 657318000350 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657318000351 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 657318000352 TM-ABC transporter signature motif; other site 657318000353 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 657318000354 active site 657318000355 phosphorylation site [posttranslational modification] 657318000356 intermolecular recognition site; other site 657318000357 dimerization interface [polypeptide binding]; other site 657318000358 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318000359 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318000360 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 657318000361 Histidine kinase; Region: His_kinase; pfam06580 657318000362 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 657318000363 ATP binding site [chemical binding]; other site 657318000364 Mg2+ binding site [ion binding]; other site 657318000365 G-X-G motif; other site 657318000366 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 657318000367 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 657318000368 ligand binding site [chemical binding]; other site 657318000369 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 657318000370 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 657318000371 ligand binding site [chemical binding]; other site 657318000372 calcium binding site [ion binding]; other site 657318000373 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657318000374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318000375 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318000376 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318000377 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318000378 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657318000379 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 657318000380 dimer interface [polypeptide binding]; other site 657318000381 conserved gate region; other site 657318000382 putative PBP binding loops; other site 657318000383 ABC-ATPase subunit interface; other site 657318000384 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318000385 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 657318000386 dimer interface [polypeptide binding]; other site 657318000387 conserved gate region; other site 657318000388 putative PBP binding loops; other site 657318000389 ABC-ATPase subunit interface; other site 657318000390 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 657318000391 Melibiase; Region: Melibiase; pfam02065 657318000392 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 657318000393 active site 657318000394 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 657318000395 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657318000396 active site 657318000397 catalytic site [active] 657318000398 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 657318000399 AAA domain; Region: AAA_14; pfam13173 657318000400 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 657318000401 putative active site [active] 657318000402 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318000403 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 657318000404 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318000405 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318000406 DNA binding site [nucleotide binding] 657318000407 domain linker motif; other site 657318000408 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 657318000409 dimerization interface [polypeptide binding]; other site 657318000410 ligand binding site [chemical binding]; other site 657318000411 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318000412 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657318000413 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 657318000414 dimer interface [polypeptide binding]; other site 657318000415 conserved gate region; other site 657318000416 putative PBP binding loops; other site 657318000417 ABC-ATPase subunit interface; other site 657318000418 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318000419 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 657318000420 dimer interface [polypeptide binding]; other site 657318000421 conserved gate region; other site 657318000422 putative PBP binding loops; other site 657318000423 ABC-ATPase subunit interface; other site 657318000424 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 657318000425 This family represents an uncharacterized glycosyl hydrolase family 31 (GH31) enzyme found in bacteria and eukaryotes that is related to the XylS xylosidase of Sulfolobus solfataricus. Alpha-xylosidases catalyze the release of an alpha-xylose residue...; Region: GH31_xylosidase_XylS-like; cd06595 657318000426 putative active site [active] 657318000427 putative catalytic site [active] 657318000428 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 657318000429 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 657318000430 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 657318000431 trimer interface [polypeptide binding]; other site 657318000432 active site 657318000433 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 657318000434 catalytic site [active] 657318000435 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 657318000436 active site 657318000437 putative catalytic site [active] 657318000438 DNA binding site [nucleotide binding] 657318000439 putative phosphate binding site [ion binding]; other site 657318000440 metal binding site A [ion binding]; metal-binding site 657318000441 AP binding site [nucleotide binding]; other site 657318000442 metal binding site B [ion binding]; metal-binding site 657318000443 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 657318000444 AAA domain; Region: AAA_14; pfam13173 657318000445 Nuclease-related domain; Region: NERD; pfam08378 657318000446 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_4; cd13144 657318000447 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318000448 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657318000449 MarR family; Region: MarR_2; pfam12802 657318000450 MarR family; Region: MarR_2; cl17246 657318000451 Predicted permeases [General function prediction only]; Region: COG0730 657318000452 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 657318000453 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 657318000454 dimerization interface [polypeptide binding]; other site 657318000455 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657318000456 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657318000457 dimer interface [polypeptide binding]; other site 657318000458 putative CheW interface [polypeptide binding]; other site 657318000459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318000460 active site 657318000461 I-site; other site 657318000462 metal binding site [ion binding]; metal-binding site 657318000463 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 657318000464 Predicted transcriptional regulators [Transcription]; Region: COG1725 657318000465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318000466 DNA-binding site [nucleotide binding]; DNA binding site 657318000467 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 657318000468 Hemerythrin; Region: Hemerythrin; cd12107 657318000469 Fe binding site [ion binding]; other site 657318000470 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318000471 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318000472 metal binding site [ion binding]; metal-binding site 657318000473 active site 657318000474 I-site; other site 657318000475 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 657318000476 AzlC protein; Region: AzlC; cl00570 657318000477 glycerate kinase; Region: TIGR00045 657318000478 prolyl-tRNA synthetase; Provisional; Region: PRK08661 657318000479 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 657318000480 dimer interface [polypeptide binding]; other site 657318000481 motif 1; other site 657318000482 active site 657318000483 motif 2; other site 657318000484 motif 3; other site 657318000485 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 657318000486 anticodon binding site; other site 657318000487 zinc-binding site [ion binding]; other site 657318000488 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 657318000489 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 657318000490 active site 657318000491 NTP binding site [chemical binding]; other site 657318000492 metal binding triad [ion binding]; metal-binding site 657318000493 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 657318000494 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318000495 Zn2+ binding site [ion binding]; other site 657318000496 Mg2+ binding site [ion binding]; other site 657318000497 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 657318000498 PEGA domain; Region: PEGA; pfam08308 657318000499 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 657318000500 IHF dimer interface [polypeptide binding]; other site 657318000501 IHF - DNA interface [nucleotide binding]; other site 657318000502 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 657318000503 RNA binding surface [nucleotide binding]; other site 657318000504 YabP family; Region: YabP; cl06766 657318000505 Septum formation initiator; Region: DivIC; cl17659 657318000506 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 657318000507 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 657318000508 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 657318000509 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 657318000510 Ligand Binding Site [chemical binding]; other site 657318000511 TilS substrate C-terminal domain; Region: TilS_C; smart00977 657318000512 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657318000513 active site 657318000514 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318000515 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318000516 DNA binding site [nucleotide binding] 657318000517 domain linker motif; other site 657318000518 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 657318000519 dimerization interface [polypeptide binding]; other site 657318000520 ligand binding site [chemical binding]; other site 657318000521 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657318000522 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657318000523 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657318000524 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 657318000525 dimer interface [polypeptide binding]; other site 657318000526 conserved gate region; other site 657318000527 putative PBP binding loops; other site 657318000528 ABC-ATPase subunit interface; other site 657318000529 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318000530 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 657318000531 dimer interface [polypeptide binding]; other site 657318000532 conserved gate region; other site 657318000533 putative PBP binding loops; other site 657318000534 ABC-ATPase subunit interface; other site 657318000535 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 657318000536 Ca binding site [ion binding]; other site 657318000537 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657318000538 active site 657318000539 catalytic site [active] 657318000540 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657318000541 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657318000542 putative acyl-acceptor binding pocket; other site 657318000543 PrcB C-terminal; Region: PrcB_C; pfam14343 657318000544 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 657318000545 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 657318000546 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 657318000547 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657318000548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 657318000549 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657318000550 NlpC/P60 family; Region: NLPC_P60; pfam00877 657318000551 Yqey-like protein; Region: YqeY; cl17540 657318000552 methionine aminopeptidase; Provisional; Region: PRK12318 657318000553 SEC-C motif; Region: SEC-C; pfam02810 657318000554 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 657318000555 active site 657318000556 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 657318000557 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 657318000558 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 657318000559 G1 box; other site 657318000560 putative GEF interaction site [polypeptide binding]; other site 657318000561 GTP/Mg2+ binding site [chemical binding]; other site 657318000562 Switch I region; other site 657318000563 G2 box; other site 657318000564 G3 box; other site 657318000565 Switch II region; other site 657318000566 G4 box; other site 657318000567 G5 box; other site 657318000568 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 657318000569 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 657318000570 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 657318000571 YacP-like NYN domain; Region: NYN_YacP; pfam05991 657318000572 aspartate aminotransferase; Provisional; Region: PRK06836 657318000573 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 657318000574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318000575 homodimer interface [polypeptide binding]; other site 657318000576 catalytic residue [active] 657318000577 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 657318000578 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 657318000579 Protein phosphatase 2C; Region: PP2C; pfam00481 657318000580 active site 657318000581 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 657318000582 Catalytic domain of Protein Kinases; Region: PKc; cd00180 657318000583 active site 657318000584 ATP binding site [chemical binding]; other site 657318000585 substrate binding site [chemical binding]; other site 657318000586 activation loop (A-loop); other site 657318000587 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 657318000588 phosphopeptide binding site; other site 657318000589 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; pfam08817 657318000590 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 657318000591 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 657318000592 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 657318000593 C-terminal domain of Faecalibacterium prausnitzii A2-165 FrmR , and related domains; this domain family was previously known as part of DUF156; Region: FpFrmR-Cterm-like_DUF156; cd10156 657318000594 putative homodimer interface [polypeptide binding]; other site 657318000595 putative homotetramer interface [polypeptide binding]; other site 657318000596 putative allosteric switch controlling residues; other site 657318000597 putative metal binding site [ion binding]; other site 657318000598 putative homodimer-homodimer interface [polypeptide binding]; other site 657318000599 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 657318000600 metal-binding site [ion binding] 657318000601 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657318000602 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 657318000603 metal-binding site [ion binding] 657318000604 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657318000605 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 657318000606 motif II; other site 657318000607 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 657318000608 metal-binding site [ion binding] 657318000609 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657318000610 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657318000611 GMP synthase; Reviewed; Region: guaA; PRK00074 657318000612 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 657318000613 AMP/PPi binding site [chemical binding]; other site 657318000614 candidate oxyanion hole; other site 657318000615 catalytic triad [active] 657318000616 potential glutamine specificity residues [chemical binding]; other site 657318000617 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 657318000618 ATP Binding subdomain [chemical binding]; other site 657318000619 Ligand Binding sites [chemical binding]; other site 657318000620 Dimerization subdomain; other site 657318000621 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 657318000622 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 657318000623 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657318000624 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318000625 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 657318000626 non-specific DNA binding site [nucleotide binding]; other site 657318000627 salt bridge; other site 657318000628 sequence-specific DNA binding site [nucleotide binding]; other site 657318000629 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 657318000630 S-adenosylmethionine binding site [chemical binding]; other site 657318000631 DNA methylase; Region: N6_N4_Mtase; cl17433 657318000632 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 657318000633 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 657318000634 DNA methylase; Region: N6_N4_Mtase; pfam01555 657318000635 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 657318000636 S-adenosylmethionine binding site [chemical binding]; other site 657318000637 Restriction endonuclease; Region: Mrr_cat; pfam04471 657318000638 DpnII restriction endonuclease; Region: DpnII; pfam04556 657318000639 TIR domain; Region: TIR_2; pfam13676 657318000640 AIPR protein; Region: AIPR; pfam10592 657318000641 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 657318000642 non-specific DNA binding site [nucleotide binding]; other site 657318000643 salt bridge; other site 657318000644 sequence-specific DNA binding site [nucleotide binding]; other site 657318000645 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318000646 Coenzyme A binding pocket [chemical binding]; other site 657318000647 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 657318000648 catalytic core [active] 657318000649 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 657318000650 Part of AAA domain; Region: AAA_19; pfam13245 657318000651 AAA domain; Region: AAA_12; pfam13087 657318000652 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 657318000653 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 657318000654 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 657318000655 nudix motif; other site 657318000656 Divergent AAA domain; Region: AAA_4; pfam04326 657318000657 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 657318000658 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 657318000659 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 657318000660 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 657318000661 ATP binding site [chemical binding]; other site 657318000662 putative Mg++ binding site [ion binding]; other site 657318000663 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657318000664 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 657318000665 PLD-like domain; Region: PLDc_2; pfam13091 657318000666 Virulence protein [General function prediction only]; Region: COG3943 657318000667 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657318000668 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318000669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318000670 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 657318000671 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657318000672 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657318000673 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657318000674 Walker A/P-loop; other site 657318000675 ATP binding site [chemical binding]; other site 657318000676 Q-loop/lid; other site 657318000677 ABC transporter signature motif; other site 657318000678 Walker B; other site 657318000679 D-loop; other site 657318000680 H-loop/switch region; other site 657318000681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318000682 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 657318000683 Walker A/P-loop; other site 657318000684 ATP binding site [chemical binding]; other site 657318000685 Q-loop/lid; other site 657318000686 ABC transporter signature motif; other site 657318000687 Walker B; other site 657318000688 D-loop; other site 657318000689 H-loop/switch region; other site 657318000690 Predicted transcriptional regulator [Transcription]; Region: COG1959 657318000691 Transcriptional regulator; Region: Rrf2; pfam02082 657318000692 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 657318000693 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 657318000694 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657318000695 4Fe-4S binding domain; Region: Fer4; cl02805 657318000696 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 657318000697 Macro domain, Unknown family 1. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_1; cd02906 657318000698 putative ADP-ribose binding site [chemical binding]; other site 657318000699 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318000700 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 657318000701 non-specific DNA binding site [nucleotide binding]; other site 657318000702 salt bridge; other site 657318000703 sequence-specific DNA binding site [nucleotide binding]; other site 657318000704 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 657318000705 non-specific DNA binding site [nucleotide binding]; other site 657318000706 salt bridge; other site 657318000707 sequence-specific DNA binding site [nucleotide binding]; other site 657318000708 RNA ligase; Region: RNA_ligase; pfam09414 657318000709 Domain of unknown function DUF128; Region: DUF128; pfam01995 657318000710 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 657318000711 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 657318000712 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657318000713 active site 657318000714 catalytic tetrad [active] 657318000715 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318000716 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 657318000717 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 657318000718 Uncharacterized conserved protein [Function unknown]; Region: COG3937 657318000719 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 657318000720 ABC1 family; Region: ABC1; cl17513 657318000721 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 657318000722 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657318000723 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657318000724 PhoU domain; Region: PhoU; pfam01895 657318000725 PhoU domain; Region: PhoU; pfam01895 657318000726 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 657318000727 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 657318000728 putative N- and C-terminal domain interface [polypeptide binding]; other site 657318000729 putative active site [active] 657318000730 MgATP binding site [chemical binding]; other site 657318000731 catalytic site [active] 657318000732 metal binding site [ion binding]; metal-binding site 657318000733 putative carbohydrate binding site [chemical binding]; other site 657318000734 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 657318000735 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 657318000736 intersubunit interface [polypeptide binding]; other site 657318000737 active site 657318000738 Zn2+ binding site [ion binding]; other site 657318000739 Beta-lactamase; Region: Beta-lactamase; pfam00144 657318000740 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 657318000741 Bacterial SH3 domain; Region: SH3_3; pfam08239 657318000742 EamA-like transporter family; Region: EamA; cl17759 657318000743 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 657318000744 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 657318000745 active site 657318000746 regulatory protein interface [polypeptide binding]; other site 657318000747 regulatory phosphorylation site [posttranslational modification]; other site 657318000748 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 657318000749 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 657318000750 FMN binding site [chemical binding]; other site 657318000751 substrate binding site [chemical binding]; other site 657318000752 putative catalytic residue [active] 657318000753 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 657318000754 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 657318000755 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 657318000756 flagellar operon protein TIGR03826; Region: YvyF 657318000757 glutamate racemase; Provisional; Region: PRK00865 657318000758 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 657318000759 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 657318000760 minor groove reading motif; other site 657318000761 helix-hairpin-helix signature motif; other site 657318000762 substrate binding pocket [chemical binding]; other site 657318000763 active site 657318000764 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 657318000765 nudix motif; other site 657318000766 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 657318000767 CTP synthetase; Validated; Region: pyrG; PRK05380 657318000768 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 657318000769 Catalytic site [active] 657318000770 active site 657318000771 UTP binding site [chemical binding]; other site 657318000772 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 657318000773 active site 657318000774 putative oxyanion hole; other site 657318000775 catalytic triad [active] 657318000776 FtsH Extracellular; Region: FtsH_ext; pfam06480 657318000777 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 657318000778 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 657318000779 Walker A motif; other site 657318000780 ATP binding site [chemical binding]; other site 657318000781 Walker B motif; other site 657318000782 arginine finger; other site 657318000783 Peptidase family M41; Region: Peptidase_M41; pfam01434 657318000784 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 657318000785 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 657318000786 GIY-YIG motif/motif A; other site 657318000787 active site 657318000788 catalytic site [active] 657318000789 putative DNA binding site [nucleotide binding]; other site 657318000790 metal binding site [ion binding]; metal-binding site 657318000791 UvrB/uvrC motif; Region: UVR; pfam02151 657318000792 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 657318000793 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 657318000794 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 657318000795 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 657318000796 Hpr binding site; other site 657318000797 active site 657318000798 homohexamer subunit interaction site [polypeptide binding]; other site 657318000799 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 657318000800 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 657318000801 oligomer interface [polypeptide binding]; other site 657318000802 putative active site [active] 657318000803 metal binding site [ion binding]; metal-binding site 657318000804 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 657318000805 FAD binding domain; Region: FAD_binding_4; pfam01565 657318000806 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 657318000807 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 657318000808 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 657318000809 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 657318000810 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 657318000811 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 657318000812 intersubunit interface [polypeptide binding]; other site 657318000813 active site 657318000814 zinc binding site [ion binding]; other site 657318000815 Na+ binding site [ion binding]; other site 657318000816 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 657318000817 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 657318000818 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 657318000819 ammonium transporter; Region: amt; TIGR00836 657318000820 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 657318000821 Nitrogen regulatory protein P-II; Region: P-II; smart00938 657318000822 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 657318000823 Transglycosylase; Region: Transgly; pfam00912 657318000824 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 657318000825 Uncharacterized conserved protein [Function unknown]; Region: COG1739 657318000826 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 657318000827 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 657318000828 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 657318000829 active site 657318000830 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 657318000831 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 657318000832 S1 domain; Region: S1_2; pfam13509 657318000833 S1 domain; Region: S1_2; pfam13509 657318000834 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 657318000835 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 657318000836 homotrimer interaction site [polypeptide binding]; other site 657318000837 putative active site [active] 657318000838 Bacterial SH3 domain; Region: SH3_3; pfam08239 657318000839 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657318000840 NlpC/P60 family; Region: NLPC_P60; pfam00877 657318000841 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; cl04270 657318000842 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 657318000843 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 657318000844 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 657318000845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318000846 Walker A/P-loop; other site 657318000847 ATP binding site [chemical binding]; other site 657318000848 Q-loop/lid; other site 657318000849 ABC transporter signature motif; other site 657318000850 Walker B; other site 657318000851 D-loop; other site 657318000852 H-loop/switch region; other site 657318000853 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 657318000854 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 657318000855 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 657318000856 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 657318000857 protein binding site [polypeptide binding]; other site 657318000858 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 657318000859 Catalytic dyad [active] 657318000860 Predicted integral membrane protein [Function unknown]; Region: COG5652 657318000861 peptide chain release factor 2; Provisional; Region: PRK05589 657318000862 PCRF domain; Region: PCRF; pfam03462 657318000863 RF-1 domain; Region: RF-1; pfam00472 657318000864 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 657318000865 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 657318000866 hypothetical protein; Provisional; Region: PRK04435 657318000867 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 657318000868 DNA-binding interface [nucleotide binding]; DNA binding site 657318000869 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657318000870 homoserine dehydrogenase; Provisional; Region: PRK06349 657318000871 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 657318000872 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 657318000873 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 657318000874 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 657318000875 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 657318000876 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 657318000877 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 657318000878 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 657318000879 Rod binding protein; Region: Rod-binding; cl01626 657318000880 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657318000881 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318000882 Coenzyme A binding pocket [chemical binding]; other site 657318000883 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 657318000884 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 657318000885 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 657318000886 catalytic site [active] 657318000887 subunit interface [polypeptide binding]; other site 657318000888 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 657318000889 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657318000890 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 657318000891 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 657318000892 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657318000893 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657318000894 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 657318000895 IMP binding site; other site 657318000896 dimer interface [polypeptide binding]; other site 657318000897 interdomain contacts; other site 657318000898 partial ornithine binding site; other site 657318000899 putative acyltransferase; Provisional; Region: PRK05790 657318000900 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 657318000901 dimer interface [polypeptide binding]; other site 657318000902 active site 657318000903 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 657318000904 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 657318000905 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 657318000906 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 657318000907 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 657318000908 FAD binding site [chemical binding]; other site 657318000909 homotetramer interface [polypeptide binding]; other site 657318000910 substrate binding pocket [chemical binding]; other site 657318000911 catalytic base [active] 657318000912 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 657318000913 Ligand binding site [chemical binding]; other site 657318000914 Electron transfer flavoprotein domain; Region: ETF; pfam01012 657318000915 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 657318000916 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 657318000917 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 657318000918 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 657318000919 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 657318000920 glutaminase active site [active] 657318000921 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 657318000922 dimer interface [polypeptide binding]; other site 657318000923 active site 657318000924 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 657318000925 dimer interface [polypeptide binding]; other site 657318000926 active site 657318000927 Predicted membrane protein [Function unknown]; Region: COG4684 657318000928 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657318000929 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 657318000930 putative active site pocket [active] 657318000931 cleavage site 657318000932 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 657318000933 Flavoprotein; Region: Flavoprotein; pfam02441 657318000934 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 657318000935 Protein of unknown function (DUF975); Region: DUF975; cl10504 657318000936 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 657318000937 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 657318000938 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 657318000939 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 657318000940 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 657318000941 RNA binding site [nucleotide binding]; other site 657318000942 Predicted membrane protein [Function unknown]; Region: COG3601 657318000943 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657318000944 YcxB-like protein; Region: YcxB; pfam14317 657318000945 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 657318000946 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 657318000947 Glycoprotease family; Region: Peptidase_M22; pfam00814 657318000948 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 657318000949 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318000950 Coenzyme A binding pocket [chemical binding]; other site 657318000951 ribonuclease Z; Reviewed; Region: PRK00055 657318000952 UGMP family protein; Validated; Region: PRK09604 657318000953 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 657318000954 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 657318000955 substrate binding site; other site 657318000956 dimer interface; other site 657318000957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 657318000958 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 657318000959 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 657318000960 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 657318000961 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 657318000962 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 657318000963 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318000964 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 657318000965 dimer interface [polypeptide binding]; other site 657318000966 phosphorylation site [posttranslational modification] 657318000967 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 657318000968 ATP binding site [chemical binding]; other site 657318000969 Mg2+ binding site [ion binding]; other site 657318000970 G-X-G motif; other site 657318000971 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657318000972 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 657318000973 Walker A/P-loop; other site 657318000974 ATP binding site [chemical binding]; other site 657318000975 Q-loop/lid; other site 657318000976 ABC transporter signature motif; other site 657318000977 Walker B; other site 657318000978 D-loop; other site 657318000979 H-loop/switch region; other site 657318000980 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657318000981 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 657318000982 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657318000983 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657318000984 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318000985 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657318000986 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657318000987 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 657318000988 Putative transposase; Region: Y2_Tnp; pfam04986 657318000989 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657318000990 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 657318000991 active site 657318000992 DNA binding site [nucleotide binding] 657318000993 Int/Topo IB signature motif; other site 657318000994 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 657318000995 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 657318000996 ADP-ribose binding site [chemical binding]; other site 657318000997 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657318000998 acyl-CoA synthetase; Validated; Region: PRK08308 657318000999 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 657318001000 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 657318001001 Methyltransferase domain; Region: Methyltransf_23; pfam13489 657318001002 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 657318001003 S-adenosylmethionine binding site [chemical binding]; other site 657318001004 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 657318001005 PLD-like domain; Region: PLDc_2; pfam13091 657318001006 putative homodimer interface [polypeptide binding]; other site 657318001007 putative active site [active] 657318001008 catalytic site [active] 657318001009 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657318001010 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 657318001011 ATP binding site [chemical binding]; other site 657318001012 putative Mg++ binding site [ion binding]; other site 657318001013 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 657318001014 nucleotide binding region [chemical binding]; other site 657318001015 ATP-binding site [chemical binding]; other site 657318001016 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657318001017 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 657318001018 putative ADP-ribose binding site [chemical binding]; other site 657318001019 putative active site [active] 657318001020 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 657318001021 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 657318001022 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 657318001023 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 657318001024 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 657318001025 dimerization interface [polypeptide binding]; other site 657318001026 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657318001027 dimer interface [polypeptide binding]; other site 657318001028 putative CheW interface [polypeptide binding]; other site 657318001029 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 657318001030 active site 657318001031 catalytic residues [active] 657318001032 metal binding site [ion binding]; metal-binding site 657318001033 DDE superfamily endonuclease; Region: DDE_5; cl17874 657318001034 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 657318001035 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657318001036 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 657318001037 catalytic residues [active] 657318001038 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 657318001039 active site 657318001040 metal binding site [ion binding]; metal-binding site 657318001041 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657318001042 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 657318001043 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 657318001044 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 657318001045 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657318001046 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 657318001047 active site 657318001048 catalytic residues [active] 657318001049 metal binding site [ion binding]; metal-binding site 657318001050 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 657318001051 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 657318001052 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 657318001053 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 657318001054 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318001055 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318001056 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 657318001057 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 657318001058 motif II; other site 657318001059 flavodoxin; Provisional; Region: PRK06242 657318001060 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 657318001061 active site 657318001062 DNA binding site [nucleotide binding] 657318001063 Int/Topo IB signature motif; other site 657318001064 Global regulator protein family; Region: CsrA; pfam02599 657318001065 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 657318001066 flagellin; Validated; Region: PRK08026 657318001067 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 657318001068 Divergent AAA domain; Region: AAA_4; pfam04326 657318001069 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 657318001070 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 657318001071 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 657318001072 AAA domain; Region: AAA_14; pfam13173 657318001073 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 657318001074 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 657318001075 putative dimer interface [polypeptide binding]; other site 657318001076 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657318001077 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657318001078 dimer interface [polypeptide binding]; other site 657318001079 putative CheW interface [polypeptide binding]; other site 657318001080 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 657318001081 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 657318001082 maltose O-acetyltransferase; Provisional; Region: PRK10092 657318001083 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 657318001084 active site 657318001085 substrate binding site [chemical binding]; other site 657318001086 trimer interface [polypeptide binding]; other site 657318001087 CoA binding site [chemical binding]; other site 657318001088 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657318001089 Sugar fermentation stimulation protein; Region: SfsA; cl00647 657318001090 Sugar fermentation stimulation protein; Region: SfsA; cl00647 657318001091 Nitroreductase family; Region: Nitroreductase; pfam00881 657318001092 FMN binding site [chemical binding]; other site 657318001093 dimer interface [polypeptide binding]; other site 657318001094 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 657318001095 catalytic triad [active] 657318001096 active site nucleophile [active] 657318001097 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657318001098 Fic/DOC family; Region: Fic; cl00960 657318001099 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318001100 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 657318001101 active site 657318001102 phosphorylation site [posttranslational modification] 657318001103 intermolecular recognition site; other site 657318001104 dimerization interface [polypeptide binding]; other site 657318001105 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 657318001106 DNA binding site [nucleotide binding] 657318001107 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318001108 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 657318001109 dimer interface [polypeptide binding]; other site 657318001110 phosphorylation site [posttranslational modification] 657318001111 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 657318001112 ATP binding site [chemical binding]; other site 657318001113 Mg2+ binding site [ion binding]; other site 657318001114 G-X-G motif; other site 657318001115 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318001116 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318001117 Walker A/P-loop; other site 657318001118 ATP binding site [chemical binding]; other site 657318001119 Q-loop/lid; other site 657318001120 ABC transporter signature motif; other site 657318001121 Walker B; other site 657318001122 D-loop; other site 657318001123 H-loop/switch region; other site 657318001124 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657318001125 FtsX-like permease family; Region: FtsX; pfam02687 657318001126 FtsX-like permease family; Region: FtsX; pfam02687 657318001127 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657318001128 MobA/MobL family; Region: MobA_MobL; pfam03389 657318001129 Helix-turn-helix domain; Region: HTH_17; cl17695 657318001130 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318001131 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 657318001132 non-specific DNA binding site [nucleotide binding]; other site 657318001133 salt bridge; other site 657318001134 sequence-specific DNA binding site [nucleotide binding]; other site 657318001135 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 657318001136 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657318001137 Int/Topo IB signature motif; other site 657318001138 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 657318001139 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657318001140 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657318001141 Predicted ATPase [General function prediction only]; Region: COG3910 657318001142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318001143 Walker A/P-loop; other site 657318001144 ATP binding site [chemical binding]; other site 657318001145 Q-loop/lid; other site 657318001146 ABC transporter signature motif; other site 657318001147 Walker B; other site 657318001148 D-loop; other site 657318001149 H-loop/switch region; other site 657318001150 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657318001151 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 657318001152 active site 657318001153 DNA binding site [nucleotide binding] 657318001154 Int/Topo IB signature motif; other site 657318001155 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 657318001156 Putative transposase; Region: Y2_Tnp; pfam04986 657318001157 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657318001158 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657318001159 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318001160 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318001161 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318001162 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657318001163 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 657318001164 active site 657318001165 DNA binding site [nucleotide binding] 657318001166 Int/Topo IB signature motif; other site 657318001167 Global regulator protein family; Region: CsrA; pfam02599 657318001168 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 657318001169 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 657318001170 flagellin; Validated; Region: PRK08026 657318001171 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 657318001172 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 657318001173 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 657318001174 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657318001175 catalytic residue [active] 657318001176 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 657318001177 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 657318001178 spermidine synthase; Provisional; Region: PRK00811 657318001179 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 657318001180 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 657318001181 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 657318001182 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 657318001183 dimer interface [polypeptide binding]; other site 657318001184 active site 657318001185 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657318001186 catalytic residues [active] 657318001187 substrate binding site [chemical binding]; other site 657318001188 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 657318001189 agmatine deiminase; Region: agmatine_aguA; TIGR03380 657318001190 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 657318001191 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 657318001192 putative active site; other site 657318001193 catalytic triad [active] 657318001194 putative dimer interface [polypeptide binding]; other site 657318001195 hybrid cluster protein; Provisional; Region: PRK05290 657318001196 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 657318001197 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 657318001198 ACS interaction site; other site 657318001199 CODH interaction site; other site 657318001200 metal cluster binding site [ion binding]; other site 657318001201 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 657318001202 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 657318001203 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 657318001204 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 657318001205 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 657318001206 active site 657318001207 Bacterial SH3 domain homologues; Region: SH3b; smart00287 657318001208 Bacterial SH3 domain; Region: SH3_3; pfam08239 657318001209 Penicillinase repressor; Region: Pencillinase_R; pfam03965 657318001210 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 657318001211 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 657318001212 homodimer interface [polypeptide binding]; other site 657318001213 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 657318001214 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657318001215 active site 657318001216 homodimer interface [polypeptide binding]; other site 657318001217 catalytic site [active] 657318001218 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 657318001219 PLD-like domain; Region: PLDc_2; pfam13091 657318001220 putative active site [active] 657318001221 catalytic site [active] 657318001222 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 657318001223 PLD-like domain; Region: PLDc_2; pfam13091 657318001224 putative active site [active] 657318001225 catalytic site [active] 657318001226 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318001227 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 657318001228 dimerization interface [polypeptide binding]; other site 657318001229 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 657318001230 dimer interface [polypeptide binding]; other site 657318001231 phosphorylation site [posttranslational modification] 657318001232 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 657318001233 ATP binding site [chemical binding]; other site 657318001234 Mg2+ binding site [ion binding]; other site 657318001235 G-X-G motif; other site 657318001236 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 657318001237 Maf-like protein; Region: Maf; pfam02545 657318001238 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 657318001239 active site 657318001240 dimer interface [polypeptide binding]; other site 657318001241 BioY family; Region: BioY; pfam02632 657318001242 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 657318001243 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 657318001244 ATP binding site [chemical binding]; other site 657318001245 Mg++ binding site [ion binding]; other site 657318001246 motif III; other site 657318001247 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 657318001248 nucleotide binding region [chemical binding]; other site 657318001249 ATP-binding site [chemical binding]; other site 657318001250 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 657318001251 RNA binding site [nucleotide binding]; other site 657318001252 peptidase T; Region: peptidase-T; TIGR01882 657318001253 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 657318001254 metal binding site [ion binding]; metal-binding site 657318001255 dimer interface [polypeptide binding]; other site 657318001256 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 657318001257 TPR motif; other site 657318001258 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657318001259 binding surface 657318001260 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 657318001261 S-adenosylmethionine binding site [chemical binding]; other site 657318001262 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657318001263 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657318001264 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 657318001265 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 657318001266 active site 657318001267 nucleophile elbow; other site 657318001268 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 657318001269 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 657318001270 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 657318001271 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657318001272 catalytic residue [active] 657318001273 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 657318001274 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 657318001275 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 657318001276 active site 657318001277 Protein of unknown function (DUF327); Region: DUF327; pfam03885 657318001278 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 657318001279 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 657318001280 Walker A motif; other site 657318001281 ATP binding site [chemical binding]; other site 657318001282 Walker B motif; other site 657318001283 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 657318001284 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 657318001285 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 657318001286 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 657318001287 S-adenosylmethionine binding site [chemical binding]; other site 657318001288 Predicted methyltransferases [General function prediction only]; Region: COG0313 657318001289 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 657318001290 putative SAM binding site [chemical binding]; other site 657318001291 putative homodimer interface [polypeptide binding]; other site 657318001292 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 657318001293 TrkA-N domain; Region: TrkA_N; pfam02254 657318001294 TrkA-C domain; Region: TrkA_C; pfam02080 657318001295 NAD-dependent deacetylase; Provisional; Region: PRK00481 657318001296 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 657318001297 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 657318001298 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 657318001299 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 657318001300 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 657318001301 dimer interface [polypeptide binding]; other site 657318001302 ssDNA binding site [nucleotide binding]; other site 657318001303 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657318001304 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 657318001305 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 657318001306 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 657318001307 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 657318001308 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 657318001309 DHH family; Region: DHH; pfam01368 657318001310 DHHA1 domain; Region: DHHA1; pfam02272 657318001311 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 657318001312 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 657318001313 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 657318001314 FlaG protein; Region: FlaG; pfam03646 657318001315 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 657318001316 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 657318001317 Flagellar protein FliS; Region: FliS; cl00654 657318001318 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 657318001319 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 657318001320 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 657318001321 Predicted transcriptional regulators [Transcription]; Region: COG1695 657318001322 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 657318001323 Predicted membrane protein [Function unknown]; Region: COG1971 657318001324 Domain of unknown function DUF; Region: DUF204; pfam02659 657318001325 Domain of unknown function DUF; Region: DUF204; pfam02659 657318001326 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 657318001327 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657318001328 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657318001329 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 657318001330 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 657318001331 nudix motif; other site 657318001332 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657318001333 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 657318001334 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 657318001335 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318001336 Zn2+ binding site [ion binding]; other site 657318001337 Mg2+ binding site [ion binding]; other site 657318001338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657318001339 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657318001340 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657318001341 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657318001342 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318001343 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 657318001344 DNA binding residues [nucleotide binding] 657318001345 Protein of unknown function (DUF464); Region: DUF464; cl01080 657318001346 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657318001347 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657318001348 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 657318001349 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 657318001350 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 657318001351 domain interfaces; other site 657318001352 active site 657318001353 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657318001354 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 657318001355 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 657318001356 catalytic core [active] 657318001357 xanthine permease; Region: pbuX; TIGR03173 657318001358 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 657318001359 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 657318001360 HlyD family secretion protein; Region: HlyD_3; pfam13437 657318001361 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 657318001362 MPT binding site; other site 657318001363 trimer interface [polypeptide binding]; other site 657318001364 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 657318001365 putative MPT binding site; other site 657318001366 Radical SAM superfamily; Region: Radical_SAM; pfam04055 657318001367 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 657318001368 FeS/SAM binding site; other site 657318001369 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 657318001370 MOSC domain; Region: MOSC; pfam03473 657318001371 XdhC Rossmann domain; Region: XdhC_C; pfam13478 657318001372 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 657318001373 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 657318001374 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 657318001375 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 657318001376 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 657318001377 dimer interface [polypeptide binding]; other site 657318001378 conserved gate region; other site 657318001379 putative PBP binding loops; other site 657318001380 ABC-ATPase subunit interface; other site 657318001381 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 657318001382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318001383 Walker A/P-loop; other site 657318001384 ATP binding site [chemical binding]; other site 657318001385 Q-loop/lid; other site 657318001386 ABC transporter signature motif; other site 657318001387 Walker B; other site 657318001388 D-loop; other site 657318001389 H-loop/switch region; other site 657318001390 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 657318001391 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 657318001392 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657318001393 catalytic residue [active] 657318001394 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 657318001395 selenophosphate synthetase; Provisional; Region: PRK00943 657318001396 dimerization interface [polypeptide binding]; other site 657318001397 putative ATP binding site [chemical binding]; other site 657318001398 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 657318001399 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 657318001400 CPxP motif; other site 657318001401 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 657318001402 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 657318001403 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 657318001404 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 657318001405 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 657318001406 catalytic loop [active] 657318001407 iron binding site [ion binding]; other site 657318001408 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 657318001409 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 657318001410 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 657318001411 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 657318001412 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 657318001413 Ligand binding site; other site 657318001414 metal-binding site 657318001415 Transglycosylase; Region: Transgly; pfam00912 657318001416 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 657318001417 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 657318001418 AAA domain; Region: AAA_14; pfam13173 657318001419 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657318001420 acyl carrier protein; Provisional; Region: acpP; PRK00982 657318001421 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 657318001422 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 657318001423 FMN binding site [chemical binding]; other site 657318001424 substrate binding site [chemical binding]; other site 657318001425 putative catalytic residue [active] 657318001426 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 657318001427 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 657318001428 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 657318001429 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 657318001430 NAD(P) binding site [chemical binding]; other site 657318001431 homotetramer interface [polypeptide binding]; other site 657318001432 homodimer interface [polypeptide binding]; other site 657318001433 active site 657318001434 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 657318001435 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 657318001436 dimer interface [polypeptide binding]; other site 657318001437 active site 657318001438 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 657318001439 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 657318001440 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 657318001441 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 657318001442 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 657318001443 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 657318001444 dimer interface [polypeptide binding]; other site 657318001445 active site 657318001446 CoA binding pocket [chemical binding]; other site 657318001447 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657318001448 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 657318001449 glutamate dehydrogenase; Provisional; Region: PRK09414 657318001450 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 657318001451 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 657318001452 NAD(P) binding site [chemical binding]; other site 657318001453 Putative zinc-finger; Region: zf-HC2; pfam13490 657318001454 RNA polymerase sigma factor SigW; Reviewed; Region: PRK09642 657318001455 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318001456 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 657318001457 DNA binding residues [nucleotide binding] 657318001458 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 657318001459 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 657318001460 catalytic motif [active] 657318001461 Zn binding site [ion binding]; other site 657318001462 RibD C-terminal domain; Region: RibD_C; cl17279 657318001463 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 657318001464 Lumazine binding domain; Region: Lum_binding; pfam00677 657318001465 Lumazine binding domain; Region: Lum_binding; pfam00677 657318001466 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 657318001467 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 657318001468 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 657318001469 dimerization interface [polypeptide binding]; other site 657318001470 active site 657318001471 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 657318001472 homopentamer interface [polypeptide binding]; other site 657318001473 active site 657318001474 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 657318001475 Chain length determinant protein; Region: Wzz; cl15801 657318001476 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 657318001477 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 657318001478 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 657318001479 ATP binding site [chemical binding]; other site 657318001480 Mg2+ binding site [ion binding]; other site 657318001481 G-X-G motif; other site 657318001482 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 657318001483 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 657318001484 Catalytic site [active] 657318001485 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 657318001486 Cation efflux family; Region: Cation_efflux; pfam01545 657318001487 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657318001488 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 657318001489 active site 657318001490 phosphorylation site [posttranslational modification] 657318001491 intermolecular recognition site; other site 657318001492 dimerization interface [polypeptide binding]; other site 657318001493 LytTr DNA-binding domain; Region: LytTR; smart00850 657318001494 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 657318001495 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 657318001496 ATP binding site [chemical binding]; other site 657318001497 Mg2+ binding site [ion binding]; other site 657318001498 G-X-G motif; other site 657318001499 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 657318001500 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 657318001501 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 657318001502 putative active site [active] 657318001503 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318001504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318001505 Walker A/P-loop; other site 657318001506 ATP binding site [chemical binding]; other site 657318001507 Q-loop/lid; other site 657318001508 ABC transporter signature motif; other site 657318001509 Walker B; other site 657318001510 D-loop; other site 657318001511 H-loop/switch region; other site 657318001512 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657318001513 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 657318001514 HlyD family secretion protein; Region: HlyD_3; pfam13437 657318001515 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 657318001516 CAAX protease self-immunity; Region: Abi; pfam02517 657318001517 ATP phosphoribosyltransferase; Region: HisG; cl15266 657318001518 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 657318001519 AAA domain; Region: AAA_14; pfam13173 657318001520 Nuclease-related domain; Region: NERD; pfam08378 657318001521 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 657318001522 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657318001523 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318001524 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 657318001525 DNA binding residues [nucleotide binding] 657318001526 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 657318001527 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657318001528 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 657318001529 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 657318001530 toxin interface [polypeptide binding]; other site 657318001531 Zn binding site [ion binding]; other site 657318001532 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 657318001533 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318001534 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 657318001535 non-specific DNA binding site [nucleotide binding]; other site 657318001536 salt bridge; other site 657318001537 sequence-specific DNA binding site [nucleotide binding]; other site 657318001538 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 657318001539 Sm and related proteins; Region: Sm_like; cl00259 657318001540 Sm1 motif; other site 657318001541 RNA binding site [nucleotide binding]; other site 657318001542 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 657318001543 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 657318001544 Sulfatase; Region: Sulfatase; pfam00884 657318001545 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 657318001546 MgtE intracellular N domain; Region: MgtE_N; pfam03448 657318001547 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 657318001548 Divalent cation transporter; Region: MgtE; pfam01769 657318001549 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 657318001550 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 657318001551 trigger factor; Provisional; Region: tig; PRK01490 657318001552 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657318001553 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657318001554 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318001555 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 657318001556 active site 657318001557 phosphorylation site [posttranslational modification] 657318001558 intermolecular recognition site; other site 657318001559 dimerization interface [polypeptide binding]; other site 657318001560 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 657318001561 DNA binding site [nucleotide binding] 657318001562 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318001563 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 657318001564 ATP binding site [chemical binding]; other site 657318001565 Mg2+ binding site [ion binding]; other site 657318001566 G-X-G motif; other site 657318001567 Transcriptional regulators [Transcription]; Region: GntR; COG1802 657318001568 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318001569 DNA-binding site [nucleotide binding]; DNA binding site 657318001570 Transcriptional regulators [Transcription]; Region: GntR; COG1802 657318001571 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318001572 DNA-binding site [nucleotide binding]; DNA binding site 657318001573 FCD domain; Region: FCD; pfam07729 657318001574 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 657318001575 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 657318001576 transmembrane helices; other site 657318001577 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 657318001578 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 657318001579 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318001580 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318001581 Walker A/P-loop; other site 657318001582 ATP binding site [chemical binding]; other site 657318001583 Q-loop/lid; other site 657318001584 ABC transporter signature motif; other site 657318001585 Walker B; other site 657318001586 D-loop; other site 657318001587 H-loop/switch region; other site 657318001588 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657318001589 FtsX-like permease family; Region: FtsX; pfam02687 657318001590 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 657318001591 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 657318001592 DHHA1 domain; Region: DHHA1; pfam02272 657318001593 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 657318001594 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 657318001595 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 657318001596 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657318001597 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 657318001598 putative metal binding site; other site 657318001599 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 657318001600 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 657318001601 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 657318001602 putative RNA binding site [nucleotide binding]; other site 657318001603 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 657318001604 S-adenosylmethionine binding site [chemical binding]; other site 657318001605 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 657318001606 ATP binding site [chemical binding]; other site 657318001607 Mg2+ binding site [ion binding]; other site 657318001608 G-X-G motif; other site 657318001609 Response regulator receiver domain; Region: Response_reg; pfam00072 657318001610 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 657318001611 active site 657318001612 phosphorylation site [posttranslational modification] 657318001613 intermolecular recognition site; other site 657318001614 dimerization interface [polypeptide binding]; other site 657318001615 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 657318001616 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 657318001617 putative active site [active] 657318001618 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318001619 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318001620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318001621 Q-loop/lid; other site 657318001622 ABC transporter signature motif; other site 657318001623 Walker B; other site 657318001624 D-loop; other site 657318001625 H-loop/switch region; other site 657318001626 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 657318001627 Predicted ATPase [General function prediction only]; Region: COG3910 657318001628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318001629 Walker A/P-loop; other site 657318001630 ATP binding site [chemical binding]; other site 657318001631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 657318001632 Walker B; other site 657318001633 D-loop; other site 657318001634 H-loop/switch region; other site 657318001635 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 657318001636 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 657318001637 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 657318001638 dimer interface [polypeptide binding]; other site 657318001639 active site 657318001640 metal binding site [ion binding]; metal-binding site 657318001641 Catalytic domain of Protein Kinases; Region: PKc; cd00180 657318001642 substrate binding site [chemical binding]; other site 657318001643 activation loop (A-loop); other site 657318001644 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657318001645 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318001646 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 657318001647 DNA binding residues [nucleotide binding] 657318001648 Beta propeller domain; Region: Beta_propel; pfam09826 657318001649 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657318001650 EamA-like transporter family; Region: EamA; pfam00892 657318001651 EamA-like transporter family; Region: EamA; pfam00892 657318001652 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657318001653 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657318001654 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 657318001655 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 657318001656 S-adenosylmethionine binding site [chemical binding]; other site 657318001657 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 657318001658 nudix motif; other site 657318001659 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 657318001660 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 657318001661 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 657318001662 Predicted membrane protein [Function unknown]; Region: COG1971 657318001663 CAAX protease self-immunity; Region: Abi; pfam02517 657318001664 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 657318001665 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 657318001666 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 657318001667 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 657318001668 FeS/SAM binding site; other site 657318001669 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 657318001670 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 657318001671 active site 657318001672 catalytic site [active] 657318001673 substrate binding site [chemical binding]; other site 657318001674 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 657318001675 VanW like protein; Region: VanW; pfam04294 657318001676 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 657318001677 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 657318001678 dimerization interface [polypeptide binding]; other site 657318001679 ATP binding site [chemical binding]; other site 657318001680 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 657318001681 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 657318001682 AsnC family; Region: AsnC_trans_reg; pfam01037 657318001683 hypothetical protein; Validated; Region: PRK07682 657318001684 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 657318001685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318001686 homodimer interface [polypeptide binding]; other site 657318001687 catalytic residue [active] 657318001688 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 657318001689 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 657318001690 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657318001691 Walker A/P-loop; other site 657318001692 ATP binding site [chemical binding]; other site 657318001693 Q-loop/lid; other site 657318001694 ABC transporter signature motif; other site 657318001695 Walker B; other site 657318001696 D-loop; other site 657318001697 H-loop/switch region; other site 657318001698 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 657318001699 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657318001700 Walker A/P-loop; other site 657318001701 ATP binding site [chemical binding]; other site 657318001702 Q-loop/lid; other site 657318001703 ABC transporter signature motif; other site 657318001704 Walker B; other site 657318001705 D-loop; other site 657318001706 H-loop/switch region; other site 657318001707 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657318001708 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 657318001709 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 657318001710 dimerization interface 3.5A [polypeptide binding]; other site 657318001711 active site 657318001712 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 657318001713 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 657318001714 23S rRNA interface [nucleotide binding]; other site 657318001715 L3 interface [polypeptide binding]; other site 657318001716 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657318001717 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 657318001718 P-loop; other site 657318001719 Magnesium ion binding site [ion binding]; other site 657318001720 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 657318001721 Magnesium ion binding site [ion binding]; other site 657318001722 Helix-turn-helix domain; Region: HTH_36; pfam13730 657318001723 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657318001724 Maff2 family; Region: Maff2; pfam12750 657318001725 Protein of unknown function (DUF3851); Region: DUF3851; pfam12962 657318001726 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 657318001727 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 657318001728 DNA topoisomerase III; Provisional; Region: PRK07726 657318001729 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 657318001730 active site 657318001731 putative interdomain interaction site [polypeptide binding]; other site 657318001732 putative metal-binding site [ion binding]; other site 657318001733 putative nucleotide binding site [chemical binding]; other site 657318001734 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 657318001735 domain I; other site 657318001736 DNA binding groove [nucleotide binding] 657318001737 phosphate binding site [ion binding]; other site 657318001738 domain II; other site 657318001739 domain III; other site 657318001740 nucleotide binding site [chemical binding]; other site 657318001741 catalytic site [active] 657318001742 domain IV; other site 657318001743 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657318001744 CHC2 zinc finger; Region: zf-CHC2; cl17510 657318001745 YodL-like; Region: YodL; pfam14191 657318001746 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 657318001747 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 657318001748 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657318001749 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 657318001750 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657318001751 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657318001752 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 657318001753 ATP binding site [chemical binding]; other site 657318001754 putative Mg++ binding site [ion binding]; other site 657318001755 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657318001756 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657318001757 Protein of unknown function (DUF3848); Region: DUF3848; pfam12959 657318001758 Protein of unknown function (DUF3849); Region: DUF3849; pfam12960 657318001759 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 657318001760 Divergent AAA domain; Region: AAA_4; pfam04326 657318001761 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 657318001762 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657318001763 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 657318001764 non-specific DNA binding site [nucleotide binding]; other site 657318001765 salt bridge; other site 657318001766 sequence-specific DNA binding site [nucleotide binding]; other site 657318001767 Helix-turn-helix domain; Region: HTH_17; pfam12728 657318001768 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318001769 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 657318001770 active site 657318001771 phosphorylation site [posttranslational modification] 657318001772 intermolecular recognition site; other site 657318001773 dimerization interface [polypeptide binding]; other site 657318001774 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 657318001775 DNA binding site [nucleotide binding] 657318001776 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318001777 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 657318001778 dimer interface [polypeptide binding]; other site 657318001779 phosphorylation site [posttranslational modification] 657318001780 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 657318001781 ATP binding site [chemical binding]; other site 657318001782 Mg2+ binding site [ion binding]; other site 657318001783 G-X-G motif; other site 657318001784 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318001785 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318001786 Walker A/P-loop; other site 657318001787 ATP binding site [chemical binding]; other site 657318001788 Q-loop/lid; other site 657318001789 ABC transporter signature motif; other site 657318001790 Walker B; other site 657318001791 D-loop; other site 657318001792 H-loop/switch region; other site 657318001793 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657318001794 FtsX-like permease family; Region: FtsX; pfam02687 657318001795 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657318001796 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 657318001797 DNA binding residues [nucleotide binding] 657318001798 Helix-turn-helix domain; Region: HTH_17; pfam12728 657318001799 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 657318001800 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 657318001801 active site 657318001802 DNA binding site [nucleotide binding] 657318001803 Int/Topo IB signature motif; other site 657318001804 DNA binding domain, excisionase family; Region: excise; TIGR01764 657318001805 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 657318001806 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 657318001807 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 657318001808 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 657318001809 proline aminopeptidase P II; Provisional; Region: PRK10879 657318001810 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 657318001811 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 657318001812 active site 657318001813 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 657318001814 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657318001815 catalytic residues [active] 657318001816 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657318001817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318001818 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657318001819 Coenzyme A binding pocket [chemical binding]; other site 657318001820 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 657318001821 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 657318001822 Mitochondrial ribosomal death-associated protein 3; Region: DAP3; pfam10236 657318001823 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657318001824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318001825 Coenzyme A binding pocket [chemical binding]; other site 657318001826 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 657318001827 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 657318001828 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 657318001829 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 657318001830 Glutamine amidotransferase class-I; Region: GATase; pfam00117 657318001831 glutamine binding [chemical binding]; other site 657318001832 catalytic triad [active] 657318001833 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 657318001834 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 657318001835 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 657318001836 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 657318001837 active site 657318001838 ribulose/triose binding site [chemical binding]; other site 657318001839 phosphate binding site [ion binding]; other site 657318001840 substrate (anthranilate) binding pocket [chemical binding]; other site 657318001841 product (indole) binding pocket [chemical binding]; other site 657318001842 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 657318001843 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 657318001844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318001845 catalytic residue [active] 657318001846 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 657318001847 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 657318001848 substrate binding site [chemical binding]; other site 657318001849 active site 657318001850 catalytic residues [active] 657318001851 heterodimer interface [polypeptide binding]; other site 657318001852 HD domain; Region: HD_3; pfam13023 657318001853 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 657318001854 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 657318001855 Heavy-metal-associated domain; Region: HMA; pfam00403 657318001856 metal-binding site [ion binding] 657318001857 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 657318001858 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657318001859 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657318001860 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 657318001861 dimerization interface [polypeptide binding]; other site 657318001862 putative DNA binding site [nucleotide binding]; other site 657318001863 putative Zn2+ binding site [ion binding]; other site 657318001864 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 657318001865 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 657318001866 putative active site [active] 657318001867 putative metal binding site [ion binding]; other site 657318001868 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 657318001869 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme; Region: E_set_GDE_N; cd11234 657318001870 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 657318001871 active site 657318001872 catalytic site [active] 657318001873 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 657318001874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657318001875 NAD(P) binding site [chemical binding]; other site 657318001876 active site 657318001877 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 657318001878 PBP superfamily domain; Region: PBP_like_2; cl17296 657318001879 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 657318001880 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 657318001881 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 657318001882 dimer interface [polypeptide binding]; other site 657318001883 conserved gate region; other site 657318001884 putative PBP binding loops; other site 657318001885 ABC-ATPase subunit interface; other site 657318001886 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 657318001887 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 657318001888 dimer interface [polypeptide binding]; other site 657318001889 conserved gate region; other site 657318001890 putative PBP binding loops; other site 657318001891 ABC-ATPase subunit interface; other site 657318001892 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318001893 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 657318001894 active site 657318001895 phosphorylation site [posttranslational modification] 657318001896 intermolecular recognition site; other site 657318001897 dimerization interface [polypeptide binding]; other site 657318001898 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 657318001899 DNA binding site [nucleotide binding] 657318001900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318001901 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 657318001902 dimer interface [polypeptide binding]; other site 657318001903 phosphorylation site [posttranslational modification] 657318001904 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 657318001905 ATP binding site [chemical binding]; other site 657318001906 Mg2+ binding site [ion binding]; other site 657318001907 G-X-G motif; other site 657318001908 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 657318001909 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 657318001910 predicted active site [active] 657318001911 catalytic triad [active] 657318001912 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 657318001913 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 657318001914 active site 657318001915 multimer interface [polypeptide binding]; other site 657318001916 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 657318001917 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318001918 DNA-binding site [nucleotide binding]; DNA binding site 657318001919 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 657318001920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318001921 homodimer interface [polypeptide binding]; other site 657318001922 catalytic residue [active] 657318001923 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 657318001924 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 657318001925 Walker A/P-loop; other site 657318001926 ATP binding site [chemical binding]; other site 657318001927 Q-loop/lid; other site 657318001928 ABC transporter signature motif; other site 657318001929 Walker B; other site 657318001930 D-loop; other site 657318001931 H-loop/switch region; other site 657318001932 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 657318001933 PhoU domain; Region: PhoU; pfam01895 657318001934 PhoU domain; Region: PhoU; pfam01895 657318001935 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318001936 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 657318001937 active site 657318001938 phosphorylation site [posttranslational modification] 657318001939 intermolecular recognition site; other site 657318001940 dimerization interface [polypeptide binding]; other site 657318001941 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 657318001942 DNA binding site [nucleotide binding] 657318001943 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 657318001944 dimer interface [polypeptide binding]; other site 657318001945 phosphorylation site [posttranslational modification] 657318001946 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 657318001947 ATP binding site [chemical binding]; other site 657318001948 Mg2+ binding site [ion binding]; other site 657318001949 G-X-G motif; other site 657318001950 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 657318001951 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 657318001952 Walker A motif; other site 657318001953 ATP binding site [chemical binding]; other site 657318001954 Walker B motif; other site 657318001955 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 657318001956 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318001957 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318001958 ABC transporter; Region: ABC_tran_2; pfam12848 657318001959 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318001960 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 657318001961 30S subunit binding site; other site 657318001962 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 657318001963 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 657318001964 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 657318001965 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 657318001966 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657318001967 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 657318001968 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657318001969 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657318001970 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657318001971 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 657318001972 active site 657318001973 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657318001974 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657318001975 Coenzyme A binding pocket [chemical binding]; other site 657318001976 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 657318001977 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657318001978 nucleotide binding site [chemical binding]; other site 657318001979 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657318001980 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 657318001981 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 657318001982 FeS/SAM binding site; other site 657318001983 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 657318001984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318001985 Walker A/P-loop; other site 657318001986 ATP binding site [chemical binding]; other site 657318001987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318001988 Walker B; other site 657318001989 D-loop; other site 657318001990 H-loop/switch region; other site 657318001991 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 657318001992 active site 657318001993 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 657318001994 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657318001995 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657318001996 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 657318001997 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 657318001998 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 657318001999 FeS/SAM binding site; other site 657318002000 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 657318002001 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657318002002 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 657318002003 active site 657318002004 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 657318002005 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657318002006 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657318002007 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 657318002008 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 657318002009 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657318002010 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 657318002011 ligand binding site; other site 657318002012 tetramer interface; other site 657318002013 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 657318002014 active site 657318002015 catalytic residues [active] 657318002016 metal binding site [ion binding]; metal-binding site 657318002017 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 657318002018 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657318002019 substrate binding site [chemical binding]; other site 657318002020 ATP binding site [chemical binding]; other site 657318002021 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657318002022 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 657318002023 active site 657318002024 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 657318002025 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 657318002026 active site 657318002027 trimer interface [polypeptide binding]; other site 657318002028 allosteric site; other site 657318002029 active site lid [active] 657318002030 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657318002031 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 657318002032 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 657318002033 active site 657318002034 dimer interface [polypeptide binding]; other site 657318002035 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 657318002036 HPr interaction site; other site 657318002037 glycerol kinase (GK) interaction site [polypeptide binding]; other site 657318002038 active site 657318002039 phosphorylation site [posttranslational modification] 657318002040 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 657318002041 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657318002042 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 657318002043 active site turn [active] 657318002044 phosphorylation site [posttranslational modification] 657318002045 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 657318002046 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 657318002047 histidyl-tRNA synthetase; Region: hisS; TIGR00442 657318002048 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 657318002049 dimer interface [polypeptide binding]; other site 657318002050 motif 1; other site 657318002051 active site 657318002052 motif 2; other site 657318002053 motif 3; other site 657318002054 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 657318002055 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 657318002056 dimer interface [polypeptide binding]; other site 657318002057 anticodon binding site; other site 657318002058 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 657318002059 homodimer interface [polypeptide binding]; other site 657318002060 motif 1; other site 657318002061 active site 657318002062 motif 2; other site 657318002063 GAD domain; Region: GAD; pfam02938 657318002064 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 657318002065 active site 657318002066 motif 3; other site 657318002067 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318002068 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 657318002069 dimerization interface [polypeptide binding]; other site 657318002070 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 657318002071 dimer interface [polypeptide binding]; other site 657318002072 phosphorylation site [posttranslational modification] 657318002073 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 657318002074 ATP binding site [chemical binding]; other site 657318002075 Mg2+ binding site [ion binding]; other site 657318002076 G-X-G motif; other site 657318002077 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318002078 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 657318002079 active site 657318002080 phosphorylation site [posttranslational modification] 657318002081 intermolecular recognition site; other site 657318002082 dimerization interface [polypeptide binding]; other site 657318002083 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 657318002084 DNA binding site [nucleotide binding] 657318002085 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 657318002086 MutS domain III; Region: MutS_III; pfam05192 657318002087 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 657318002088 Walker A/P-loop; other site 657318002089 ATP binding site [chemical binding]; other site 657318002090 Q-loop/lid; other site 657318002091 ABC transporter signature motif; other site 657318002092 Walker B; other site 657318002093 D-loop; other site 657318002094 H-loop/switch region; other site 657318002095 Smr domain; Region: Smr; pfam01713 657318002096 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 657318002097 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657318002098 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 657318002099 protein binding site [polypeptide binding]; other site 657318002100 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 657318002101 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 657318002102 generic binding surface II; other site 657318002103 generic binding surface I; other site 657318002104 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318002105 Zn2+ binding site [ion binding]; other site 657318002106 Mg2+ binding site [ion binding]; other site 657318002107 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 657318002108 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 657318002109 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 657318002110 S-adenosylmethionine binding site [chemical binding]; other site 657318002111 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 657318002112 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318002113 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318002114 metal binding site [ion binding]; metal-binding site 657318002115 active site 657318002116 I-site; other site 657318002117 PAS domain S-box; Region: sensory_box; TIGR00229 657318002118 dihydroorotase; Validated; Region: pyrC; PRK09357 657318002119 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 657318002120 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 657318002121 active site 657318002122 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657318002123 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657318002124 Walker A/P-loop; other site 657318002125 ATP binding site [chemical binding]; other site 657318002126 Q-loop/lid; other site 657318002127 ABC transporter signature motif; other site 657318002128 Walker B; other site 657318002129 D-loop; other site 657318002130 H-loop/switch region; other site 657318002131 Predicted transcriptional regulators [Transcription]; Region: COG1725 657318002132 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318002133 DNA-binding site [nucleotide binding]; DNA binding site 657318002134 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657318002135 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318002136 Walker A/P-loop; other site 657318002137 ATP binding site [chemical binding]; other site 657318002138 Q-loop/lid; other site 657318002139 ABC transporter signature motif; other site 657318002140 Walker B; other site 657318002141 D-loop; other site 657318002142 H-loop/switch region; other site 657318002143 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657318002144 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 657318002145 active site 657318002146 metal binding site [ion binding]; metal-binding site 657318002147 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 657318002148 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 657318002149 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 657318002150 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 657318002151 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 657318002152 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 657318002153 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 657318002154 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 657318002155 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 657318002156 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 657318002157 core domain interface [polypeptide binding]; other site 657318002158 delta subunit interface [polypeptide binding]; other site 657318002159 epsilon subunit interface [polypeptide binding]; other site 657318002160 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 657318002161 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657318002162 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 657318002163 alpha subunit interaction interface [polypeptide binding]; other site 657318002164 Walker A motif; other site 657318002165 ATP binding site [chemical binding]; other site 657318002166 Walker B motif; other site 657318002167 inhibitor binding site; inhibition site 657318002168 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657318002169 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 657318002170 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 657318002171 gamma subunit interface [polypeptide binding]; other site 657318002172 epsilon subunit interface [polypeptide binding]; other site 657318002173 LBP interface [polypeptide binding]; other site 657318002174 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318002175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318002176 metal binding site [ion binding]; metal-binding site 657318002177 active site 657318002178 I-site; other site 657318002179 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 657318002180 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 657318002181 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 657318002182 LrgB-like family; Region: LrgB; pfam04172 657318002183 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657318002184 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 657318002185 PIN domain; Region: PIN_3; pfam13470 657318002186 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 657318002187 Helix-turn-helix domain; Region: HTH_38; pfam13936 657318002188 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 657318002189 Integrase core domain; Region: rve; pfam00665 657318002190 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 657318002191 Accessory gene regulator B; Region: AgrB; pfam04647 657318002192 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 657318002193 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 657318002194 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657318002195 catalytic residue [active] 657318002196 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 657318002197 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 657318002198 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 657318002199 SmpB-tmRNA interface; other site 657318002200 ribonuclease R; Region: RNase_R; TIGR02063 657318002201 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 657318002202 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 657318002203 RNB domain; Region: RNB; pfam00773 657318002204 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 657318002205 RNA binding site [nucleotide binding]; other site 657318002206 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 657318002207 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 657318002208 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 657318002209 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 657318002210 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 657318002211 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 657318002212 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 657318002213 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 657318002214 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318002215 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 657318002216 Walker A motif; other site 657318002217 Walker A/P-loop; other site 657318002218 ATP binding site [chemical binding]; other site 657318002219 ATP binding site [chemical binding]; other site 657318002220 Walker B motif; other site 657318002221 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 657318002222 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 657318002223 tetramer interface [polypeptide binding]; other site 657318002224 active site 657318002225 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 657318002226 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 657318002227 ATP binding site [chemical binding]; other site 657318002228 active site 657318002229 substrate binding site [chemical binding]; other site 657318002230 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 657318002231 phosphoglyceromutase; Provisional; Region: PRK05434 657318002232 triosephosphate isomerase; Provisional; Region: PRK14567 657318002233 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 657318002234 substrate binding site [chemical binding]; other site 657318002235 dimer interface [polypeptide binding]; other site 657318002236 catalytic triad [active] 657318002237 Phosphoglycerate kinase; Region: PGK; pfam00162 657318002238 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 657318002239 substrate binding site [chemical binding]; other site 657318002240 hinge regions; other site 657318002241 ADP binding site [chemical binding]; other site 657318002242 catalytic site [active] 657318002243 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 657318002244 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 657318002245 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 657318002246 histidinol-phosphatase; Provisional; Region: PRK05588 657318002247 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657318002248 active site 657318002249 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 657318002250 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 657318002251 active site 657318002252 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 657318002253 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 657318002254 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 657318002255 dimerization interface [polypeptide binding]; other site 657318002256 ATP binding site [chemical binding]; other site 657318002257 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 657318002258 dimerization interface [polypeptide binding]; other site 657318002259 ATP binding site [chemical binding]; other site 657318002260 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 657318002261 putative active site [active] 657318002262 catalytic triad [active] 657318002263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657318002264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657318002265 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 657318002266 dimerization interface [polypeptide binding]; other site 657318002267 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 657318002268 DEAD_2; Region: DEAD_2; pfam06733 657318002269 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 657318002270 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 657318002271 regulatory protein interface [polypeptide binding]; other site 657318002272 regulatory phosphorylation site [posttranslational modification]; other site 657318002273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657318002274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657318002275 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 657318002276 dimerization interface [polypeptide binding]; other site 657318002277 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 657318002278 RNA/DNA hybrid binding site [nucleotide binding]; other site 657318002279 active site 657318002280 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 657318002281 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 657318002282 GTP/Mg2+ binding site [chemical binding]; other site 657318002283 G4 box; other site 657318002284 G5 box; other site 657318002285 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 657318002286 G1 box; other site 657318002287 G1 box; other site 657318002288 GTP/Mg2+ binding site [chemical binding]; other site 657318002289 Switch I region; other site 657318002290 G2 box; other site 657318002291 G2 box; other site 657318002292 G3 box; other site 657318002293 G3 box; other site 657318002294 Switch II region; other site 657318002295 Switch II region; other site 657318002296 G4 box; other site 657318002297 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 657318002298 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 657318002299 Catalytic site [active] 657318002300 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 657318002301 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 657318002302 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 657318002303 RimM N-terminal domain; Region: RimM; pfam01782 657318002304 PRC-barrel domain; Region: PRC; pfam05239 657318002305 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 657318002306 hypothetical protein; Provisional; Region: PRK00468 657318002307 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 657318002308 signal recognition particle protein; Provisional; Region: PRK10867 657318002309 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 657318002310 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 657318002311 P loop; other site 657318002312 GTP binding site [chemical binding]; other site 657318002313 Signal peptide binding domain; Region: SRP_SPB; pfam02978 657318002314 putative DNA-binding protein; Validated; Region: PRK00118 657318002315 threonine dehydratase; Provisional; Region: PRK08198 657318002316 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 657318002317 tetramer interface [polypeptide binding]; other site 657318002318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318002319 catalytic residue [active] 657318002320 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 657318002321 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 657318002322 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 657318002323 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 657318002324 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 657318002325 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 657318002326 Walker A/P-loop; other site 657318002327 ATP binding site [chemical binding]; other site 657318002328 Q-loop/lid; other site 657318002329 Ubiquitin elongating factor core; Region: Ufd2P_core; pfam10408 657318002330 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 657318002331 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 657318002332 ABC transporter signature motif; other site 657318002333 Walker B; other site 657318002334 D-loop; other site 657318002335 H-loop/switch region; other site 657318002336 ribonuclease III; Reviewed; Region: rnc; PRK00102 657318002337 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 657318002338 dimerization interface [polypeptide binding]; other site 657318002339 active site 657318002340 metal binding site [ion binding]; metal-binding site 657318002341 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 657318002342 dsRNA binding site [nucleotide binding]; other site 657318002343 acyl carrier protein; Provisional; Region: acpP; PRK00982 657318002344 putative phosphate acyltransferase; Provisional; Region: PRK05331 657318002345 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 657318002346 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 657318002347 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 657318002348 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 657318002349 propionate/acetate kinase; Provisional; Region: PRK12379 657318002350 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 657318002351 hypothetical protein; Provisional; Region: PRK13670 657318002352 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 657318002353 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 657318002354 active site 657318002355 dimer interface [polypeptide binding]; other site 657318002356 metal binding site [ion binding]; metal-binding site 657318002357 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 657318002358 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 657318002359 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 657318002360 RNA/DNA hybrid binding site [nucleotide binding]; other site 657318002361 active site 657318002362 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 657318002363 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 657318002364 Walker A/P-loop; other site 657318002365 ATP binding site [chemical binding]; other site 657318002366 Q-loop/lid; other site 657318002367 ABC transporter signature motif; other site 657318002368 Walker B; other site 657318002369 D-loop; other site 657318002370 H-loop/switch region; other site 657318002371 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657318002372 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 657318002373 membrane-bound complex binding site; other site 657318002374 hinge residues; other site 657318002375 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 657318002376 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657318002377 substrate binding pocket [chemical binding]; other site 657318002378 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 657318002379 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 657318002380 dimer interface [polypeptide binding]; other site 657318002381 conserved gate region; other site 657318002382 putative PBP binding loops; other site 657318002383 ABC-ATPase subunit interface; other site 657318002384 peptide chain release factor 1; Validated; Region: prfA; PRK00591 657318002385 This domain is found in peptide chain release factors; Region: PCRF; smart00937 657318002386 RF-1 domain; Region: RF-1; pfam00472 657318002387 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 657318002388 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 657318002389 S-adenosylmethionine binding site [chemical binding]; other site 657318002390 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 657318002391 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 657318002392 transcription termination factor Rho; Provisional; Region: rho; PRK09376 657318002393 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 657318002394 RNA binding site [nucleotide binding]; other site 657318002395 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 657318002396 Walker A motif; other site 657318002397 ATP binding site [chemical binding]; other site 657318002398 Walker B motif; other site 657318002399 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 657318002400 Malic enzyme, N-terminal domain; Region: malic; pfam00390 657318002401 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 657318002402 putative NAD(P) binding site [chemical binding]; other site 657318002403 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 657318002404 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 657318002405 FeS/SAM binding site; other site 657318002406 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 657318002407 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 657318002408 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 657318002409 dihydrodipicolinate synthase; Region: dapA; TIGR00674 657318002410 dimer interface [polypeptide binding]; other site 657318002411 active site 657318002412 catalytic residue [active] 657318002413 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 657318002414 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657318002415 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657318002416 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657318002417 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 657318002418 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 657318002419 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 657318002420 Cupin domain; Region: Cupin_2; cl17218 657318002421 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 657318002422 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318002423 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318002424 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 657318002425 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 657318002426 DRTGG domain; Region: DRTGG; pfam07085 657318002427 DHHA2 domain; Region: DHHA2; pfam02833 657318002428 phosphodiesterase; Provisional; Region: PRK12704 657318002429 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 657318002430 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 657318002431 dimer interface [polypeptide binding]; other site 657318002432 PYR/PP interface [polypeptide binding]; other site 657318002433 TPP binding site [chemical binding]; other site 657318002434 substrate binding site [chemical binding]; other site 657318002435 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657318002436 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 657318002437 Domain of unknown function; Region: EKR; pfam10371 657318002438 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 657318002439 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 657318002440 TPP-binding site [chemical binding]; other site 657318002441 dimer interface [polypeptide binding]; other site 657318002442 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 657318002443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318002444 Walker A/P-loop; other site 657318002445 ATP binding site [chemical binding]; other site 657318002446 Q-loop/lid; other site 657318002447 ABC transporter signature motif; other site 657318002448 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318002449 ABC transporter; Region: ABC_tran_2; pfam12848 657318002450 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318002451 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 657318002452 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 657318002453 ligand binding site [chemical binding]; other site 657318002454 active site 657318002455 UGI interface [polypeptide binding]; other site 657318002456 catalytic site [active] 657318002457 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 657318002458 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 657318002459 substrate binding site [chemical binding]; other site 657318002460 glutamase interaction surface [polypeptide binding]; other site 657318002461 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 657318002462 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 657318002463 putative active site [active] 657318002464 oxyanion strand; other site 657318002465 catalytic triad [active] 657318002466 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 657318002467 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657318002468 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 657318002469 active site 657318002470 phosphorylation site [posttranslational modification] 657318002471 intermolecular recognition site; other site 657318002472 dimerization interface [polypeptide binding]; other site 657318002473 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 657318002474 HAMP domain; Region: HAMP; pfam00672 657318002475 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 657318002476 dimer interface [polypeptide binding]; other site 657318002477 phosphorylation site [posttranslational modification] 657318002478 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 657318002479 ATP binding site [chemical binding]; other site 657318002480 Mg2+ binding site [ion binding]; other site 657318002481 G-X-G motif; other site 657318002482 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 657318002483 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657318002484 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318002485 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 657318002486 non-specific DNA binding site [nucleotide binding]; other site 657318002487 salt bridge; other site 657318002488 sequence-specific DNA binding site [nucleotide binding]; other site 657318002489 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; cl10465 657318002490 Catalytic site [active] 657318002491 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 657318002492 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 657318002493 active site 657318002494 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657318002495 substrate binding site [chemical binding]; other site 657318002496 catalytic residues [active] 657318002497 dimer interface [polypeptide binding]; other site 657318002498 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 657318002499 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 657318002500 N-acetyl-D-glucosamine binding site [chemical binding]; other site 657318002501 catalytic residue [active] 657318002502 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 657318002503 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657318002504 active site 657318002505 metal binding site [ion binding]; metal-binding site 657318002506 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 657318002507 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 657318002508 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657318002509 CheC-like family; Region: CheC; pfam04509 657318002510 Chemotaxis phosphatase CheX; Region: CheX; cl15816 657318002511 Response regulator receiver domain; Region: Response_reg; pfam00072 657318002512 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 657318002513 active site 657318002514 phosphorylation site [posttranslational modification] 657318002515 intermolecular recognition site; other site 657318002516 dimerization interface [polypeptide binding]; other site 657318002517 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 657318002518 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657318002519 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 657318002520 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657318002521 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 657318002522 active site 657318002523 metal binding site [ion binding]; metal-binding site 657318002524 dimerization interface [polypeptide binding]; other site 657318002525 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 657318002526 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657318002527 active site 657318002528 HIGH motif; other site 657318002529 nucleotide binding site [chemical binding]; other site 657318002530 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 657318002531 KMSKS motif; other site 657318002532 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 657318002533 tRNA binding surface [nucleotide binding]; other site 657318002534 anticodon binding site; other site 657318002535 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 657318002536 homotrimer interaction site [polypeptide binding]; other site 657318002537 zinc binding site [ion binding]; other site 657318002538 CDP-binding sites; other site 657318002539 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 657318002540 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657318002541 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 657318002542 homodimer interface [polypeptide binding]; other site 657318002543 substrate-cofactor binding pocket; other site 657318002544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318002545 catalytic residue [active] 657318002546 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 657318002547 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 657318002548 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 657318002549 active site 657318002550 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 657318002551 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 657318002552 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 657318002553 substrate binding pocket [chemical binding]; other site 657318002554 dimer interface [polypeptide binding]; other site 657318002555 inhibitor binding site; inhibition site 657318002556 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 657318002557 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 657318002558 B12 binding site [chemical binding]; other site 657318002559 cobalt ligand [ion binding]; other site 657318002560 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 657318002561 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657318002562 active site 657318002563 motif I; other site 657318002564 motif II; other site 657318002565 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 657318002566 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318002567 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657318002568 elongation factor P; Validated; Region: PRK00529 657318002569 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 657318002570 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 657318002571 RNA binding site [nucleotide binding]; other site 657318002572 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 657318002573 RNA binding site [nucleotide binding]; other site 657318002574 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 657318002575 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 657318002576 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 657318002577 active site 657318002578 motif I; other site 657318002579 motif II; other site 657318002580 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 657318002581 ATP cone domain; Region: ATP-cone; pfam03477 657318002582 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 657318002583 GTP-binding protein YchF; Reviewed; Region: PRK09601 657318002584 YchF GTPase; Region: YchF; cd01900 657318002585 G1 box; other site 657318002586 GTP/Mg2+ binding site [chemical binding]; other site 657318002587 Switch I region; other site 657318002588 G2 box; other site 657318002589 Switch II region; other site 657318002590 G3 box; other site 657318002591 G4 box; other site 657318002592 G5 box; other site 657318002593 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 657318002594 transcriptional antiterminator BglG; Provisional; Region: PRK09772 657318002595 PRD domain; Region: PRD; pfam00874 657318002596 PRD domain; Region: PRD; pfam00874 657318002597 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 657318002598 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 657318002599 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 657318002600 active site turn [active] 657318002601 phosphorylation site [posttranslational modification] 657318002602 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 657318002603 HPr interaction site; other site 657318002604 glycerol kinase (GK) interaction site [polypeptide binding]; other site 657318002605 active site 657318002606 phosphorylation site [posttranslational modification] 657318002607 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 657318002608 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 657318002609 MoxR-like ATPases [General function prediction only]; Region: COG0714 657318002610 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 657318002611 Walker A motif; other site 657318002612 ATP binding site [chemical binding]; other site 657318002613 Walker B motif; other site 657318002614 arginine finger; other site 657318002615 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 657318002616 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657318002617 Na2 binding site [ion binding]; other site 657318002618 putative substrate binding site 1 [chemical binding]; other site 657318002619 Na binding site 1 [ion binding]; other site 657318002620 putative substrate binding site 2 [chemical binding]; other site 657318002621 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657318002622 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 657318002623 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 657318002624 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657318002625 active site 657318002626 motif I; other site 657318002627 motif II; other site 657318002628 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 657318002629 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 657318002630 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 657318002631 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 657318002632 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657318002633 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657318002634 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657318002635 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657318002636 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657318002637 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 657318002638 putative substrate binding site [chemical binding]; other site 657318002639 putative ATP binding site [chemical binding]; other site 657318002640 MFS/sugar transport protein; Region: MFS_2; pfam13347 657318002641 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 657318002642 putative substrate translocation pore; other site 657318002643 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657318002644 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 657318002645 active site 657318002646 metal binding site [ion binding]; metal-binding site 657318002647 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 657318002648 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 657318002649 putative NAD(P) binding site [chemical binding]; other site 657318002650 catalytic Zn binding site [ion binding]; other site 657318002651 structural Zn binding site [ion binding]; other site 657318002652 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657318002653 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657318002654 nucleotide binding site [chemical binding]; other site 657318002655 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657318002656 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 657318002657 FtsX-like permease family; Region: FtsX; pfam02687 657318002658 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657318002659 FtsX-like permease family; Region: FtsX; pfam02687 657318002660 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318002661 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318002662 Walker A/P-loop; other site 657318002663 ATP binding site [chemical binding]; other site 657318002664 Q-loop/lid; other site 657318002665 ABC transporter signature motif; other site 657318002666 Walker B; other site 657318002667 D-loop; other site 657318002668 H-loop/switch region; other site 657318002669 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318002670 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 657318002671 active site 657318002672 phosphorylation site [posttranslational modification] 657318002673 intermolecular recognition site; other site 657318002674 dimerization interface [polypeptide binding]; other site 657318002675 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 657318002676 DNA binding site [nucleotide binding] 657318002677 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 657318002678 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 657318002679 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 657318002680 KilA-N domain; Region: KilA-N; pfam04383 657318002681 Recombinase; Region: Recombinase; pfam07508 657318002682 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657318002683 ORF6N domain; Region: ORF6N; pfam10543 657318002684 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 657318002685 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657318002686 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 657318002687 Penicillinase repressor; Region: Pencillinase_R; pfam03965 657318002688 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 657318002689 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 657318002690 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 657318002691 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 657318002692 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657318002693 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657318002694 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657318002695 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 657318002696 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657318002697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318002698 ABC transporter signature motif; other site 657318002699 Walker B; other site 657318002700 D-loop; other site 657318002701 H-loop/switch region; other site 657318002702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318002703 Walker A/P-loop; other site 657318002704 ATP binding site [chemical binding]; other site 657318002705 Q-loop/lid; other site 657318002706 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657318002707 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318002708 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 657318002709 DNA binding residues [nucleotide binding] 657318002710 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657318002711 CHC2 zinc finger; Region: zf-CHC2; cl17510 657318002712 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 657318002713 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 657318002714 active site 657318002715 metal binding site [ion binding]; metal-binding site 657318002716 interdomain interaction site; other site 657318002717 AAA domain; Region: AAA_25; pfam13481 657318002718 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 657318002719 ATP binding site [chemical binding]; other site 657318002720 Walker A motif; other site 657318002721 Walker B motif; other site 657318002722 MobA/MobL family; Region: MobA_MobL; pfam03389 657318002723 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 657318002724 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657318002725 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657318002726 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657318002727 putative catalytic residues [active] 657318002728 catalytic nucleophile [active] 657318002729 Recombinase; Region: Recombinase; pfam07508 657318002730 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657318002731 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657318002732 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657318002733 Virulence-associated protein E; Region: VirE; pfam05272 657318002734 CHC2 zinc finger; Region: zf-CHC2; cl17510 657318002735 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 657318002736 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657318002737 Int/Topo IB signature motif; other site 657318002738 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318002739 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 657318002740 non-specific DNA binding site [nucleotide binding]; other site 657318002741 salt bridge; other site 657318002742 sequence-specific DNA binding site [nucleotide binding]; other site 657318002743 Helix-turn-helix domain; Region: HTH_17; cl17695 657318002744 MobA/MobL family; Region: MobA_MobL; pfam03389 657318002745 SdpI/YhfL protein family; Region: SdpI; pfam13630 657318002746 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 657318002747 dimerization interface [polypeptide binding]; other site 657318002748 putative DNA binding site [nucleotide binding]; other site 657318002749 putative Zn2+ binding site [ion binding]; other site 657318002750 AAA domain; Region: AAA_17; cl17253 657318002751 AAA domain; Region: AAA_18; pfam13238 657318002752 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318002753 Coenzyme A binding pocket [chemical binding]; other site 657318002754 AAA domain; Region: AAA_17; pfam13207 657318002755 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657318002756 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657318002757 putative catalytic residues [active] 657318002758 catalytic nucleophile [active] 657318002759 Recombinase; Region: Recombinase; pfam07508 657318002760 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657318002761 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657318002762 CHC2 zinc finger; Region: zf-CHC2; cl17510 657318002763 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 657318002764 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 657318002765 active site 657318002766 metal binding site [ion binding]; metal-binding site 657318002767 interdomain interaction site; other site 657318002768 AAA domain; Region: AAA_25; pfam13481 657318002769 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 657318002770 Walker A motif; other site 657318002771 ATP binding site [chemical binding]; other site 657318002772 Walker B motif; other site 657318002773 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 657318002774 DNA binding residues [nucleotide binding] 657318002775 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 657318002776 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657318002777 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318002778 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 657318002779 DNA binding residues [nucleotide binding] 657318002780 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657318002781 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657318002782 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657318002783 putative catalytic residues [active] 657318002784 catalytic nucleophile [active] 657318002785 Recombinase; Region: Recombinase; pfam07508 657318002786 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657318002787 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657318002788 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657318002789 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 657318002790 ParB-like nuclease domain; Region: ParB; smart00470 657318002791 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657318002792 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 657318002793 P-loop; other site 657318002794 Magnesium ion binding site [ion binding]; other site 657318002795 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 657318002796 Magnesium ion binding site [ion binding]; other site 657318002797 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 657318002798 RES domain; Region: RES; pfam08808 657318002799 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657318002800 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 657318002801 catalytic residues [active] 657318002802 catalytic nucleophile [active] 657318002803 Recombinase; Region: Recombinase; pfam07508 657318002804 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657318002805 Recombinase; Region: Recombinase; pfam07508 657318002806 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657318002807 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657318002808 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 657318002809 catalytic residues [active] 657318002810 catalytic nucleophile [active] 657318002811 Recombinase; Region: Recombinase; pfam07508 657318002812 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657318002813 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657318002814 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 657318002815 DNA binding residues [nucleotide binding] 657318002816 Accessory gene regulator B; Region: AgrB; pfam04647 657318002817 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657318002818 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657318002819 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 657318002820 active site 657318002821 phosphorylation site [posttranslational modification] 657318002822 intermolecular recognition site; other site 657318002823 dimerization interface [polypeptide binding]; other site 657318002824 LytTr DNA-binding domain; Region: LytTR; pfam04397 657318002825 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318002826 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 657318002827 non-specific DNA binding site [nucleotide binding]; other site 657318002828 salt bridge; other site 657318002829 sequence-specific DNA binding site [nucleotide binding]; other site 657318002830 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 657318002831 Helix-turn-helix domain; Region: HTH_38; pfam13936 657318002832 CHAP domain; Region: CHAP; pfam05257 657318002833 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 657318002834 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 657318002835 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cd00037 657318002836 ligand binding surface [chemical binding]; other site 657318002837 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657318002838 Peptidase family M23; Region: Peptidase_M23; pfam01551 657318002839 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 657318002840 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 657318002841 putative sugar binding sites [chemical binding]; other site 657318002842 Q-X-W motif; other site 657318002843 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 657318002844 putative sugar binding sites [chemical binding]; other site 657318002845 Q-X-W motif; other site 657318002846 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 657318002847 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657318002848 MFS/sugar transport protein; Region: MFS_2; pfam13347 657318002849 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318002850 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318002851 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 657318002852 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 657318002853 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657318002854 active site 657318002855 HIGH motif; other site 657318002856 nucleotide binding site [chemical binding]; other site 657318002857 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657318002858 active site 657318002859 KMSKS motif; other site 657318002860 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 657318002861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 657318002862 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 657318002863 argininosuccinate synthase; Provisional; Region: PRK13820 657318002864 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 657318002865 ANP binding site [chemical binding]; other site 657318002866 Substrate Binding Site II [chemical binding]; other site 657318002867 Substrate Binding Site I [chemical binding]; other site 657318002868 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 657318002869 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657318002870 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657318002871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318002872 Coenzyme A binding pocket [chemical binding]; other site 657318002873 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 657318002874 feedback inhibition sensing region; other site 657318002875 homohexameric interface [polypeptide binding]; other site 657318002876 nucleotide binding site [chemical binding]; other site 657318002877 N-acetyl-L-glutamate binding site [chemical binding]; other site 657318002878 acetylornithine aminotransferase; Provisional; Region: PRK02627 657318002879 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 657318002880 inhibitor-cofactor binding pocket; inhibition site 657318002881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318002882 catalytic residue [active] 657318002883 SLBB domain; Region: SLBB; pfam10531 657318002884 comEA protein; Region: comE; TIGR01259 657318002885 Helix-hairpin-helix motif; Region: HHH; pfam00633 657318002886 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318002887 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 657318002888 active site 657318002889 phosphorylation site [posttranslational modification] 657318002890 intermolecular recognition site; other site 657318002891 dimerization interface [polypeptide binding]; other site 657318002892 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 657318002893 DNA binding site [nucleotide binding] 657318002894 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318002895 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 657318002896 dimer interface [polypeptide binding]; other site 657318002897 phosphorylation site [posttranslational modification] 657318002898 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 657318002899 ATP binding site [chemical binding]; other site 657318002900 Mg2+ binding site [ion binding]; other site 657318002901 G-X-G motif; other site 657318002902 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 657318002903 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 657318002904 Competence protein; Region: Competence; pfam03772 657318002905 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 657318002906 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 657318002907 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 657318002908 stage II sporulation protein P; Region: spore_II_P; TIGR02867 657318002909 GTP-binding protein LepA; Provisional; Region: PRK05433 657318002910 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 657318002911 G1 box; other site 657318002912 putative GEF interaction site [polypeptide binding]; other site 657318002913 GTP/Mg2+ binding site [chemical binding]; other site 657318002914 Switch I region; other site 657318002915 G2 box; other site 657318002916 G3 box; other site 657318002917 Switch II region; other site 657318002918 G4 box; other site 657318002919 G5 box; other site 657318002920 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 657318002921 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 657318002922 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 657318002923 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 657318002924 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 657318002925 FeS/SAM binding site; other site 657318002926 HemN C-terminal domain; Region: HemN_C; pfam06969 657318002927 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 657318002928 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 657318002929 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657318002930 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657318002931 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 657318002932 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 657318002933 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 657318002934 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 657318002935 carboxyltransferase (CT) interaction site; other site 657318002936 biotinylation site [posttranslational modification]; other site 657318002937 oxaloacetate decarboxylase; Provisional; Region: PRK12331 657318002938 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 657318002939 active site 657318002940 catalytic residues [active] 657318002941 metal binding site [ion binding]; metal-binding site 657318002942 homodimer binding site [polypeptide binding]; other site 657318002943 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 657318002944 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657318002945 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 657318002946 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 657318002947 putative active site [active] 657318002948 flavoprotein, HI0933 family; Region: TIGR00275 657318002949 cytidylate kinase; Provisional; Region: cmk; PRK00023 657318002950 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 657318002951 CMP-binding site; other site 657318002952 The sites determining sugar specificity; other site 657318002953 LytB protein; Region: LYTB; cl00507 657318002954 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 657318002955 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 657318002956 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 657318002957 RNA binding site [nucleotide binding]; other site 657318002958 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 657318002959 RNA binding site [nucleotide binding]; other site 657318002960 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 657318002961 RNA binding site [nucleotide binding]; other site 657318002962 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 657318002963 RNA binding site [nucleotide binding]; other site 657318002964 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 657318002965 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 657318002966 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 657318002967 RNase_H superfamily; Region: RNase_H_2; pfam13482 657318002968 active site 657318002969 catalytic site [active] 657318002970 substrate binding site [chemical binding]; other site 657318002971 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 657318002972 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 657318002973 SLBB domain; Region: SLBB; pfam10531 657318002974 4Fe-4S binding domain; Region: Fer4_6; pfam12837 657318002975 FMN-binding domain; Region: FMN_bind; cl01081 657318002976 electron transport complex RsxE subunit; Provisional; Region: PRK12405 657318002977 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 657318002978 Predicted NADH:ubiquinone oxidoreductase, subunit RnfB [Energy production and conversion]; Region: COG2878 657318002979 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657318002980 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657318002981 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 657318002982 ApbE family; Region: ApbE; pfam02424 657318002983 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 657318002984 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 657318002985 nucleotide binding site [chemical binding]; other site 657318002986 homotetrameric interface [polypeptide binding]; other site 657318002987 putative phosphate binding site [ion binding]; other site 657318002988 putative allosteric binding site; other site 657318002989 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 657318002990 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 657318002991 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 657318002992 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 657318002993 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 657318002994 putative catalytic cysteine [active] 657318002995 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 657318002996 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657318002997 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 657318002998 FeS/SAM binding site; other site 657318002999 TRAM domain; Region: TRAM; cl01282 657318003000 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 657318003001 trimer interface [polypeptide binding]; other site 657318003002 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 657318003003 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 657318003004 RuvA N terminal domain; Region: RuvA_N; pfam01330 657318003005 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 657318003006 Cell division protein ZapA; Region: ZapA; pfam05164 657318003007 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657318003008 Peptidase family U32; Region: Peptidase_U32; pfam01136 657318003009 Collagenase; Region: DUF3656; pfam12392 657318003010 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 657318003011 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 657318003012 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657318003013 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 657318003014 active site 657318003015 Ap6A binding site [chemical binding]; other site 657318003016 nudix motif; other site 657318003017 metal binding site [ion binding]; metal-binding site 657318003018 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 657318003019 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 657318003020 Asp23 family; Region: Asp23; pfam03780 657318003021 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 657318003022 Y-family of DNA polymerases; Region: PolY; cl12025 657318003023 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 657318003024 ssDNA binding site; other site 657318003025 generic binding surface II; other site 657318003026 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 657318003027 ATP binding site [chemical binding]; other site 657318003028 putative Mg++ binding site [ion binding]; other site 657318003029 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 657318003030 nucleotide binding region [chemical binding]; other site 657318003031 ATP-binding site [chemical binding]; other site 657318003032 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 657318003033 Domain of unknown function (DUF814); Region: DUF814; pfam05670 657318003034 hypothetical protein; Provisional; Region: PRK11820 657318003035 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 657318003036 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 657318003037 Guanylate kinase; Region: Guanylate_kin; pfam00625 657318003038 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 657318003039 catalytic site [active] 657318003040 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 657318003041 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 657318003042 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657318003043 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 657318003044 FeS/SAM binding site; other site 657318003045 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 657318003046 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 657318003047 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 657318003048 S-adenosylmethionine binding site [chemical binding]; other site 657318003049 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 657318003050 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 657318003051 active site 657318003052 (T/H)XGH motif; other site 657318003053 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 657318003054 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 657318003055 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 657318003056 RNA binding surface [nucleotide binding]; other site 657318003057 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 657318003058 active site 657318003059 uracil binding [chemical binding]; other site 657318003060 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 657318003061 hypothetical protein; Provisional; Region: PRK00955 657318003062 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 657318003063 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657318003064 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 657318003065 RNA binding surface [nucleotide binding]; other site 657318003066 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657318003067 active site 657318003068 Recombination protein U; Region: RecU; cl01314 657318003069 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 657318003070 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 657318003071 dimer interface [polypeptide binding]; other site 657318003072 motif 1; other site 657318003073 active site 657318003074 motif 2; other site 657318003075 motif 3; other site 657318003076 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 657318003077 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 657318003078 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 657318003079 histidinol dehydrogenase; Region: hisD; TIGR00069 657318003080 NAD binding site [chemical binding]; other site 657318003081 dimerization interface [polypeptide binding]; other site 657318003082 product binding site; other site 657318003083 substrate binding site [chemical binding]; other site 657318003084 zinc binding site [ion binding]; other site 657318003085 catalytic residues [active] 657318003086 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 657318003087 putative active site pocket [active] 657318003088 4-fold oligomerization interface [polypeptide binding]; other site 657318003089 metal binding residues [ion binding]; metal-binding site 657318003090 3-fold/trimer interface [polypeptide binding]; other site 657318003091 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 657318003092 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 657318003093 FeS/SAM binding site; other site 657318003094 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 657318003095 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 657318003096 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 657318003097 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 657318003098 homodimer interface [polypeptide binding]; other site 657318003099 oligonucleotide binding site [chemical binding]; other site 657318003100 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 657318003101 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 657318003102 Protein of unknown function (DUF464); Region: DUF464; pfam04327 657318003103 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 657318003104 GTPase CgtA; Reviewed; Region: obgE; PRK12297 657318003105 GTP1/OBG; Region: GTP1_OBG; pfam01018 657318003106 Obg GTPase; Region: Obg; cd01898 657318003107 G1 box; other site 657318003108 GTP/Mg2+ binding site [chemical binding]; other site 657318003109 Switch I region; other site 657318003110 G2 box; other site 657318003111 G3 box; other site 657318003112 Switch II region; other site 657318003113 G4 box; other site 657318003114 G5 box; other site 657318003115 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 657318003116 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 657318003117 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 657318003118 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 657318003119 active site 657318003120 (T/H)XGH motif; other site 657318003121 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318003122 Zn2+ binding site [ion binding]; other site 657318003123 Mg2+ binding site [ion binding]; other site 657318003124 Oligomerisation domain; Region: Oligomerisation; pfam02410 657318003125 LexA repressor; Validated; Region: PRK00215 657318003126 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 657318003127 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 657318003128 Catalytic site [active] 657318003129 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657318003130 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657318003131 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657318003132 putative acyl-acceptor binding pocket; other site 657318003133 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 657318003134 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 657318003135 active site 657318003136 Int/Topo IB signature motif; other site 657318003137 DNA binding site [nucleotide binding] 657318003138 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657318003139 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657318003140 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 657318003141 dinuclear metal binding motif [ion binding]; other site 657318003142 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 657318003143 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 657318003144 putative active site [active] 657318003145 dimerization interface [polypeptide binding]; other site 657318003146 putative tRNAtyr binding site [nucleotide binding]; other site 657318003147 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 657318003148 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 657318003149 Ligand Binding Site [chemical binding]; other site 657318003150 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318003151 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318003152 DNA binding site [nucleotide binding] 657318003153 domain linker motif; other site 657318003154 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318003155 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657318003156 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657318003157 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318003158 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 657318003159 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 657318003160 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 657318003161 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 657318003162 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 657318003163 non-specific DNA binding site [nucleotide binding]; other site 657318003164 salt bridge; other site 657318003165 sequence-specific DNA binding site [nucleotide binding]; other site 657318003166 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 657318003167 FMN binding site [chemical binding]; other site 657318003168 dimer interface [polypeptide binding]; other site 657318003169 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 657318003170 WYL domain; Region: WYL; pfam13280 657318003171 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 657318003172 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318003173 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318003174 ABC transporter; Region: ABC_tran_2; pfam12848 657318003175 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318003176 Predicted permeases [General function prediction only]; Region: COG0679 657318003177 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 657318003178 active site 657318003179 substrate binding site [chemical binding]; other site 657318003180 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 657318003181 FMN binding site [chemical binding]; other site 657318003182 putative catalytic residues [active] 657318003183 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 657318003184 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 657318003185 TPP-binding site; other site 657318003186 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 657318003187 PYR/PP interface [polypeptide binding]; other site 657318003188 dimer interface [polypeptide binding]; other site 657318003189 TPP binding site [chemical binding]; other site 657318003190 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657318003191 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 657318003192 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657318003193 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 657318003194 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657318003195 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 657318003196 RNA binding surface [nucleotide binding]; other site 657318003197 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657318003198 active site 657318003199 lipoprotein signal peptidase; Provisional; Region: PRK14767 657318003200 lipoprotein signal peptidase; Provisional; Region: PRK14787 657318003201 Protein of unknown function (DUF552); Region: DUF552; pfam04472 657318003202 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 657318003203 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657318003204 catalytic residue [active] 657318003205 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657318003206 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657318003207 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 657318003208 active site 657318003209 dimer interfaces [polypeptide binding]; other site 657318003210 catalytic residues [active] 657318003211 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 657318003212 Septum formation topological specificity factor MinE; Region: MinE; cl00538 657318003213 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 657318003214 rod shape-determining protein MreC; Provisional; Region: PRK13922 657318003215 rod shape-determining protein MreC; Region: MreC; pfam04085 657318003216 rod shape-determining protein MreB; Provisional; Region: PRK13927 657318003217 MreB and similar proteins; Region: MreB_like; cd10225 657318003218 nucleotide binding site [chemical binding]; other site 657318003219 Mg binding site [ion binding]; other site 657318003220 putative protofilament interaction site [polypeptide binding]; other site 657318003221 RodZ interaction site [polypeptide binding]; other site 657318003222 hypothetical protein; Reviewed; Region: PRK00024 657318003223 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 657318003224 helix-hairpin-helix signature motif; other site 657318003225 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 657318003226 MPN+ (JAMM) motif; other site 657318003227 Zinc-binding site [ion binding]; other site 657318003228 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 657318003229 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 657318003230 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 657318003231 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 657318003232 ATP binding site [chemical binding]; other site 657318003233 Mg2+ binding site [ion binding]; other site 657318003234 G-X-G motif; other site 657318003235 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 657318003236 ATP binding site [chemical binding]; other site 657318003237 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 657318003238 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 657318003239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657318003240 flavoprotein, HI0933 family; Region: TIGR00275 657318003241 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 657318003242 stage V sporulation protein B; Region: spore_V_B; TIGR02900 657318003243 metal-binding heat shock protein; Provisional; Region: PRK00016 657318003244 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 657318003245 PhoH-like protein; Region: PhoH; pfam02562 657318003246 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 657318003247 YabP family; Region: YabP; cl06766 657318003248 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 657318003249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657318003250 active site 657318003251 GcpE protein; Region: GcpE; pfam04551 657318003252 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657318003253 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657318003254 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 657318003255 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 657318003256 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 657318003257 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 657318003258 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 657318003259 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 657318003260 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 657318003261 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 657318003262 catalytic residue [active] 657318003263 putative FPP diphosphate binding site; other site 657318003264 putative FPP binding hydrophobic cleft; other site 657318003265 dimer interface [polypeptide binding]; other site 657318003266 putative IPP diphosphate binding site; other site 657318003267 ribosome recycling factor; Reviewed; Region: frr; PRK00083 657318003268 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 657318003269 hinge region; other site 657318003270 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 657318003271 putative nucleotide binding site [chemical binding]; other site 657318003272 uridine monophosphate binding site [chemical binding]; other site 657318003273 homohexameric interface [polypeptide binding]; other site 657318003274 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 657318003275 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 657318003276 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 657318003277 NodB motif; other site 657318003278 active site 657318003279 catalytic site [active] 657318003280 Zn binding site [ion binding]; other site 657318003281 elongation factor Ts; Provisional; Region: tsf; PRK09377 657318003282 UBA/TS-N domain; Region: UBA; pfam00627 657318003283 Elongation factor TS; Region: EF_TS; pfam00889 657318003284 Elongation factor TS; Region: EF_TS; pfam00889 657318003285 Elongation factor TS; Region: EF_TS; pfam00889 657318003286 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 657318003287 rRNA interaction site [nucleotide binding]; other site 657318003288 S8 interaction site; other site 657318003289 putative laminin-1 binding site; other site 657318003290 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 657318003291 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318003292 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657318003293 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 657318003294 DNA binding residues [nucleotide binding] 657318003295 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13488 657318003296 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 657318003297 CheC-like family; Region: CheC; pfam04509 657318003298 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 657318003299 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 657318003300 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 657318003301 putative binding surface; other site 657318003302 active site 657318003303 P2 response regulator binding domain; Region: P2; pfam07194 657318003304 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 657318003305 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 657318003306 ATP binding site [chemical binding]; other site 657318003307 Mg2+ binding site [ion binding]; other site 657318003308 G-X-G motif; other site 657318003309 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 657318003310 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 657318003311 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 657318003312 active site 657318003313 phosphorylation site [posttranslational modification] 657318003314 intermolecular recognition site; other site 657318003315 dimerization interface [polypeptide binding]; other site 657318003316 CheB methylesterase; Region: CheB_methylest; pfam01339 657318003317 Flagellar protein YcgR; Region: YcgR_2; pfam12945 657318003318 PilZ domain; Region: PilZ; pfam07238 657318003319 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 657318003320 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 657318003321 P-loop; other site 657318003322 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 657318003323 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 657318003324 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 657318003325 FHIPEP family; Region: FHIPEP; pfam00771 657318003326 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 657318003327 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 657318003328 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 657318003329 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 657318003330 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 657318003331 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 657318003332 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 657318003333 CheC-like family; Region: CheC; pfam04509 657318003334 CheC-like family; Region: CheC; pfam04509 657318003335 flagellar motor switch protein FliN; Region: fliN; TIGR02480 657318003336 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 657318003337 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 657318003338 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 657318003339 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 657318003340 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 657318003341 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 657318003342 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 657318003343 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 657318003344 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 657318003345 Uncharacterized conserved protein [Function unknown]; Region: COG3334 657318003346 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 657318003347 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 657318003348 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 657318003349 MgtE intracellular N domain; Region: MgtE_N; cl15244 657318003350 FliG C-terminal domain; Region: FliG_C; pfam01706 657318003351 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 657318003352 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 657318003353 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 657318003354 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 657318003355 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 657318003356 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 657318003357 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 657318003358 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 657318003359 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 657318003360 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 657318003361 transcriptional repressor CodY; Validated; Region: PRK04158 657318003362 CodY GAF-like domain; Region: CodY; pfam06018 657318003363 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 657318003364 DNA topoisomerase I; Validated; Region: PRK05582 657318003365 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 657318003366 active site 657318003367 interdomain interaction site; other site 657318003368 putative metal-binding site [ion binding]; other site 657318003369 nucleotide binding site [chemical binding]; other site 657318003370 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 657318003371 domain I; other site 657318003372 DNA binding groove [nucleotide binding] 657318003373 phosphate binding site [ion binding]; other site 657318003374 domain II; other site 657318003375 domain III; other site 657318003376 nucleotide binding site [chemical binding]; other site 657318003377 catalytic site [active] 657318003378 domain IV; other site 657318003379 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657318003380 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657318003381 DNA protecting protein DprA; Region: dprA; TIGR00732 657318003382 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 657318003383 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 657318003384 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657318003385 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 657318003386 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 657318003387 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 657318003388 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318003389 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 657318003390 DNA binding residues [nucleotide binding] 657318003391 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657318003392 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657318003393 active site 657318003394 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 657318003395 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 657318003396 Alpha amylase catalytic domain family; Region: AmyAc_family; cd00551 657318003397 active site 657318003398 catalytic site [active] 657318003399 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657318003400 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 657318003401 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 657318003402 Part of AAA domain; Region: AAA_19; pfam13245 657318003403 Family description; Region: UvrD_C_2; pfam13538 657318003404 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 657318003405 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657318003406 active site 657318003407 HIGH motif; other site 657318003408 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657318003409 active site 657318003410 KMSKS motif; other site 657318003411 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 657318003412 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 657318003413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318003414 homodimer interface [polypeptide binding]; other site 657318003415 catalytic residue [active] 657318003416 putative oxidoreductase; Provisional; Region: PRK12831 657318003417 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 657318003418 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657318003419 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 657318003420 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 657318003421 FAD binding pocket [chemical binding]; other site 657318003422 FAD binding motif [chemical binding]; other site 657318003423 phosphate binding motif [ion binding]; other site 657318003424 beta-alpha-beta structure motif; other site 657318003425 NAD binding pocket [chemical binding]; other site 657318003426 Iron coordination center [ion binding]; other site 657318003427 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 657318003428 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 657318003429 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 657318003430 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 657318003431 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 657318003432 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 657318003433 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 657318003434 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 657318003435 HAMP domain; Region: HAMP; pfam00672 657318003436 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657318003437 dimer interface [polypeptide binding]; other site 657318003438 putative CheW interface [polypeptide binding]; other site 657318003439 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657318003440 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 657318003441 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 657318003442 motif 1; other site 657318003443 active site 657318003444 motif 2; other site 657318003445 motif 3; other site 657318003446 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 657318003447 DHHA1 domain; Region: DHHA1; pfam02272 657318003448 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 657318003449 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 657318003450 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 657318003451 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 657318003452 4-alpha-glucanotransferase; Provisional; Region: PRK14508 657318003453 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 657318003454 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; cl02915 657318003455 Cl- selectivity filter; other site 657318003456 Cl- binding residues [ion binding]; other site 657318003457 pore gating glutamate residue; other site 657318003458 dimer interface [polypeptide binding]; other site 657318003459 pullulanase, type I; Region: pulA_typeI; TIGR02104 657318003460 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 657318003461 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 657318003462 Ca binding site [ion binding]; other site 657318003463 active site 657318003464 catalytic site [active] 657318003465 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 657318003466 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 657318003467 classical (c) SDRs; Region: SDR_c; cd05233 657318003468 NAD(P) binding site [chemical binding]; other site 657318003469 active site 657318003470 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 657318003471 active site 657318003472 catalytic site [active] 657318003473 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 657318003474 Catalytic site [active] 657318003475 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 657318003476 DNA binding site [nucleotide binding] 657318003477 Bacterial transcriptional activator domain; Region: BTAD; smart01043 657318003478 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 657318003479 binding surface 657318003480 TPR motif; other site 657318003481 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318003482 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 657318003483 metal binding site [ion binding]; metal-binding site 657318003484 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 657318003485 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 657318003486 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 657318003487 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 657318003488 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 657318003489 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 657318003490 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 657318003491 CHAT domain; Region: CHAT; cl17868 657318003492 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 657318003493 flagellin; Validated; Region: PRK08026 657318003494 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 657318003495 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 657318003496 active site 657318003497 DNA binding site [nucleotide binding] 657318003498 Int/Topo IB signature motif; other site 657318003499 flagellin; Provisional; Region: PRK12806 657318003500 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 657318003501 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 657318003502 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318003503 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318003504 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 657318003505 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 657318003506 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657318003507 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 657318003508 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 657318003509 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657318003510 dimer interface [polypeptide binding]; other site 657318003511 putative CheW interface [polypeptide binding]; other site 657318003512 PilZ domain; Region: PilZ; pfam07238 657318003513 pyruvate phosphate dikinase; Provisional; Region: PRK09279 657318003514 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 657318003515 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657318003516 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657318003517 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 657318003518 alternate signal-mediated exported protein, CPF_0494 family; Region: exp_by_SipW_IV; TIGR04090 657318003519 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 657318003520 active site 657318003521 catalytic site [active] 657318003522 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 657318003523 Cna protein B-type domain; Region: Cna_B; pfam05738 657318003524 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 657318003525 domain interaction interfaces [polypeptide binding]; other site 657318003526 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 657318003527 Collagen binding domain; Region: Collagen_bind; pfam05737 657318003528 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 657318003529 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 657318003530 Catalytic site [active] 657318003531 glycyl-tRNA synthetase; Provisional; Region: PRK04173 657318003532 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 657318003533 motif 1; other site 657318003534 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 657318003535 active site 657318003536 motif 2; other site 657318003537 motif 3; other site 657318003538 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 657318003539 anticodon binding site; other site 657318003540 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 657318003541 Recombination protein O N terminal; Region: RecO_N; pfam11967 657318003542 Recombination protein O C terminal; Region: RecO_C; pfam02565 657318003543 GTPase Era; Reviewed; Region: era; PRK00089 657318003544 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 657318003545 G1 box; other site 657318003546 GTP/Mg2+ binding site [chemical binding]; other site 657318003547 Switch I region; other site 657318003548 G2 box; other site 657318003549 Switch II region; other site 657318003550 G3 box; other site 657318003551 G4 box; other site 657318003552 G5 box; other site 657318003553 KH domain; Region: KH_2; pfam07650 657318003554 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 657318003555 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 657318003556 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657318003557 Peptidase M16C associated; Region: M16C_assoc; pfam08367 657318003558 Mechanosensitive ion channel; Region: MS_channel; pfam00924 657318003559 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 657318003560 putative ligand binding site [chemical binding]; other site 657318003561 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 657318003562 putative NAD binding site [chemical binding]; other site 657318003563 putative catalytic site [active] 657318003564 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 657318003565 L-serine binding site [chemical binding]; other site 657318003566 ACT domain interface; other site 657318003567 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 657318003568 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657318003569 PYR/PP interface [polypeptide binding]; other site 657318003570 dimer interface [polypeptide binding]; other site 657318003571 TPP binding site [chemical binding]; other site 657318003572 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657318003573 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 657318003574 TPP-binding site [chemical binding]; other site 657318003575 dimer interface [polypeptide binding]; other site 657318003576 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 657318003577 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 657318003578 tartrate dehydrogenase; Region: TTC; TIGR02089 657318003579 Preprotein translocase subunit; Region: YajC; pfam02699 657318003580 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 657318003581 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 657318003582 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 657318003583 homodimer interface [polypeptide binding]; other site 657318003584 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 657318003585 active site 657318003586 homodimer interface [polypeptide binding]; other site 657318003587 catalytic site [active] 657318003588 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 657318003589 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 657318003590 Tetramer interface [polypeptide binding]; other site 657318003591 active site 657318003592 FMN-binding site [chemical binding]; other site 657318003593 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657318003594 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 657318003595 Walker A/P-loop; other site 657318003596 ATP binding site [chemical binding]; other site 657318003597 Q-loop/lid; other site 657318003598 ABC transporter signature motif; other site 657318003599 Walker B; other site 657318003600 D-loop; other site 657318003601 H-loop/switch region; other site 657318003602 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318003603 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 657318003604 Accessory gene regulator B; Region: AgrB; cl01873 657318003605 NADH dehydrogenase; Region: NADHdh; cl00469 657318003606 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657318003607 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 657318003608 active site 657318003609 phosphorylation site [posttranslational modification] 657318003610 intermolecular recognition site; other site 657318003611 LytTr DNA-binding domain; Region: LytTR; pfam04397 657318003612 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 657318003613 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 657318003614 DNA-binding interface [nucleotide binding]; DNA binding site 657318003615 Integrase core domain; Region: rve; pfam00665 657318003616 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 657318003617 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 657318003618 Holin family; Region: Phage_holin_4; pfam05105 657318003619 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 657318003620 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 657318003621 putative active site [active] 657318003622 putative NTP binding site [chemical binding]; other site 657318003623 putative nucleic acid binding site [nucleotide binding]; other site 657318003624 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 657318003625 four helix bundle protein; Region: TIGR02436 657318003626 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 657318003627 Phage tail protein; Region: Sipho_tail; cl17486 657318003628 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 657318003629 Phage capsid family; Region: Phage_capsid; pfam05065 657318003630 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 657318003631 oligomer interface [polypeptide binding]; other site 657318003632 Clp protease; Region: CLP_protease; pfam00574 657318003633 active site residues [active] 657318003634 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 657318003635 VRR-NUC domain; Region: VRR_NUC; pfam08774 657318003636 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 657318003637 ParB-like nuclease domain; Region: ParB; smart00470 657318003638 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657318003639 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 657318003640 P-loop; other site 657318003641 Magnesium ion binding site [ion binding]; other site 657318003642 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 657318003643 Magnesium ion binding site [ion binding]; other site 657318003644 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 657318003645 cofactor binding site; other site 657318003646 DNA binding site [nucleotide binding] 657318003647 substrate interaction site [chemical binding]; other site 657318003648 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657318003649 Peptidase family U32; Region: Peptidase_U32; pfam01136 657318003650 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 657318003651 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 657318003652 S-adenosylmethionine binding site [chemical binding]; other site 657318003653 YceG-like family; Region: YceG; pfam02618 657318003654 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 657318003655 hypothetical protein; Provisional; Region: PRK05473 657318003656 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 657318003657 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657318003658 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 657318003659 FeS/SAM binding site; other site 657318003660 PTS HPr component phosphorylation site; Region: PTS-HPr; pfam00381 657318003661 regulatory protein interface [polypeptide binding]; other site 657318003662 regulatory phosphorylation site [posttranslational modification]; other site 657318003663 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 657318003664 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 657318003665 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 657318003666 Ligand Binding Site [chemical binding]; other site 657318003667 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 657318003668 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 657318003669 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657318003670 catalytic residue [active] 657318003671 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 657318003672 RNA methyltransferase, RsmE family; Region: TIGR00046 657318003673 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 657318003674 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 657318003675 S-adenosylmethionine binding site [chemical binding]; other site 657318003676 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 657318003677 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 657318003678 HSP70 interaction site [polypeptide binding]; other site 657318003679 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 657318003680 substrate binding site [polypeptide binding]; other site 657318003681 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 657318003682 Zn binding sites [ion binding]; other site 657318003683 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 657318003684 dimer interface [polypeptide binding]; other site 657318003685 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 657318003686 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 657318003687 nucleotide binding site [chemical binding]; other site 657318003688 NEF interaction site [polypeptide binding]; other site 657318003689 SBD interface [polypeptide binding]; other site 657318003690 GrpE; Region: GrpE; pfam01025 657318003691 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 657318003692 dimer interface [polypeptide binding]; other site 657318003693 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 657318003694 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 657318003695 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 657318003696 RelB antitoxin; Region: RelB; cl01171 657318003697 Cysteine-rich small domain; Region: zf-like; cl00946 657318003698 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 657318003699 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 657318003700 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 657318003701 catalytic triad [active] 657318003702 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 657318003703 active site 657318003704 SAM binding site [chemical binding]; other site 657318003705 homodimer interface [polypeptide binding]; other site 657318003706 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 657318003707 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 657318003708 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 657318003709 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 657318003710 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 657318003711 active site 657318003712 SAM binding site [chemical binding]; other site 657318003713 homodimer interface [polypeptide binding]; other site 657318003714 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 657318003715 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 657318003716 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 657318003717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318003718 homodimer interface [polypeptide binding]; other site 657318003719 catalytic residue [active] 657318003720 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 657318003721 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 657318003722 catalytic core [active] 657318003723 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 657318003724 cobalamin synthase; Reviewed; Region: cobS; PRK00235 657318003725 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 657318003726 Walker A motif; other site 657318003727 ATP binding site [chemical binding]; other site 657318003728 Walker B motif; other site 657318003729 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 657318003730 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 657318003731 putative dimer interface [polypeptide binding]; other site 657318003732 active site pocket [active] 657318003733 putative cataytic base [active] 657318003734 cobyric acid synthase; Provisional; Region: PRK00784 657318003735 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 657318003736 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 657318003737 catalytic triad [active] 657318003738 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 657318003739 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 657318003740 Walker A/P-loop; other site 657318003741 ATP binding site [chemical binding]; other site 657318003742 Q-loop/lid; other site 657318003743 ABC transporter signature motif; other site 657318003744 Walker B; other site 657318003745 D-loop; other site 657318003746 H-loop/switch region; other site 657318003747 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 657318003748 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 657318003749 ABC-ATPase subunit interface; other site 657318003750 dimer interface [polypeptide binding]; other site 657318003751 putative PBP binding regions; other site 657318003752 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 657318003753 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 657318003754 intersubunit interface [polypeptide binding]; other site 657318003755 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 657318003756 heme-binding site [chemical binding]; other site 657318003757 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 657318003758 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 657318003759 active site 657318003760 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 657318003761 active site 657318003762 N-terminal domain interface [polypeptide binding]; other site 657318003763 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 657318003764 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 657318003765 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 657318003766 putative active site [active] 657318003767 catalytic site [active] 657318003768 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 657318003769 putative active site [active] 657318003770 catalytic site [active] 657318003771 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 657318003772 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 657318003773 RNase E interface [polypeptide binding]; other site 657318003774 trimer interface [polypeptide binding]; other site 657318003775 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 657318003776 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 657318003777 RNase E interface [polypeptide binding]; other site 657318003778 trimer interface [polypeptide binding]; other site 657318003779 active site 657318003780 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 657318003781 putative nucleic acid binding region [nucleotide binding]; other site 657318003782 G-X-X-G motif; other site 657318003783 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 657318003784 RNA binding site [nucleotide binding]; other site 657318003785 domain interface; other site 657318003786 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 657318003787 16S/18S rRNA binding site [nucleotide binding]; other site 657318003788 S13e-L30e interaction site [polypeptide binding]; other site 657318003789 25S rRNA binding site [nucleotide binding]; other site 657318003790 Bacterial SH3 domain; Region: SH3_3; pfam08239 657318003791 Bacterial SH3 domain; Region: SH3_3; pfam08239 657318003792 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657318003793 NlpC/P60 family; Region: NLPC_P60; pfam00877 657318003794 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 657318003795 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 657318003796 active site 657318003797 Riboflavin kinase; Region: Flavokinase; pfam01687 657318003798 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 657318003799 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 657318003800 RNA binding site [nucleotide binding]; other site 657318003801 active site 657318003802 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 657318003803 DHH family; Region: DHH; pfam01368 657318003804 DHHA1 domain; Region: DHHA1; pfam02272 657318003805 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 657318003806 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 657318003807 translation initiation factor IF-2; Region: IF-2; TIGR00487 657318003808 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 657318003809 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 657318003810 G1 box; other site 657318003811 putative GEF interaction site [polypeptide binding]; other site 657318003812 GTP/Mg2+ binding site [chemical binding]; other site 657318003813 Switch I region; other site 657318003814 G2 box; other site 657318003815 G3 box; other site 657318003816 Switch II region; other site 657318003817 G4 box; other site 657318003818 G5 box; other site 657318003819 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 657318003820 Translation-initiation factor 2; Region: IF-2; pfam11987 657318003821 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 657318003822 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 657318003823 putative RNA binding cleft [nucleotide binding]; other site 657318003824 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 657318003825 NusA N-terminal domain; Region: NusA_N; pfam08529 657318003826 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 657318003827 RNA binding site [nucleotide binding]; other site 657318003828 homodimer interface [polypeptide binding]; other site 657318003829 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 657318003830 G-X-X-G motif; other site 657318003831 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 657318003832 G-X-X-G motif; other site 657318003833 ribosome maturation protein RimP; Reviewed; Region: PRK00092 657318003834 Sm and related proteins; Region: Sm_like; cl00259 657318003835 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 657318003836 putative oligomer interface [polypeptide binding]; other site 657318003837 putative RNA binding site [nucleotide binding]; other site 657318003838 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 657318003839 UDP-glucose 4-epimerase; Region: PLN02240 657318003840 NAD binding site [chemical binding]; other site 657318003841 homodimer interface [polypeptide binding]; other site 657318003842 active site 657318003843 substrate binding site [chemical binding]; other site 657318003844 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657318003845 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657318003846 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318003847 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318003848 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 657318003849 23S rRNA binding site [nucleotide binding]; other site 657318003850 L21 binding site [polypeptide binding]; other site 657318003851 L13 binding site [polypeptide binding]; other site 657318003852 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 657318003853 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 657318003854 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 657318003855 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 657318003856 Fic/DOC family; Region: Fic; pfam02661 657318003857 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 657318003858 non-specific DNA binding site [nucleotide binding]; other site 657318003859 salt bridge; other site 657318003860 sequence-specific DNA binding site [nucleotide binding]; other site 657318003861 ParB-like nuclease domain; Region: ParBc; pfam02195 657318003862 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657318003863 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 657318003864 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 657318003865 Chorismate mutase type II; Region: CM_2; pfam01817 657318003866 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 657318003867 Prephenate dehydratase; Region: PDT; pfam00800 657318003868 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 657318003869 putative L-Phe binding site [chemical binding]; other site 657318003870 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657318003871 TPR repeat; Region: TPR_11; pfam13414 657318003872 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 657318003873 binding surface 657318003874 TPR motif; other site 657318003875 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657318003876 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 657318003877 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 657318003878 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 657318003879 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 657318003880 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 657318003881 homodimer interface [polypeptide binding]; other site 657318003882 NADP binding site [chemical binding]; other site 657318003883 substrate binding site [chemical binding]; other site 657318003884 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 657318003885 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 657318003886 Potassium binding sites [ion binding]; other site 657318003887 Cesium cation binding sites [ion binding]; other site 657318003888 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657318003889 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 657318003890 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 657318003891 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 657318003892 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 657318003893 glycogen synthase; Provisional; Region: glgA; PRK00654 657318003894 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 657318003895 ADP-binding pocket [chemical binding]; other site 657318003896 homodimer interface [polypeptide binding]; other site 657318003897 hypothetical protein; Validated; Region: PRK00110 657318003898 FOG: CBS domain [General function prediction only]; Region: COG0517 657318003899 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 657318003900 Transporter associated domain; Region: CorC_HlyC; pfam03471 657318003901 PemK-like protein; Region: PemK; pfam02452 657318003902 alanine racemase; Reviewed; Region: alr; PRK00053 657318003903 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 657318003904 active site 657318003905 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657318003906 dimer interface [polypeptide binding]; other site 657318003907 substrate binding site [chemical binding]; other site 657318003908 catalytic residues [active] 657318003909 isocitrate dehydrogenase; Validated; Region: PRK08299 657318003910 Transcriptional regulators [Transcription]; Region: FadR; COG2186 657318003911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318003912 DNA-binding site [nucleotide binding]; DNA binding site 657318003913 FCD domain; Region: FCD; pfam07729 657318003914 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 657318003915 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 657318003916 active site 657318003917 catalytic residues [active] 657318003918 metal binding site [ion binding]; metal-binding site 657318003919 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 657318003920 elongation factor G; Reviewed; Region: PRK12740 657318003921 G1 box; other site 657318003922 putative GEF interaction site [polypeptide binding]; other site 657318003923 GTP/Mg2+ binding site [chemical binding]; other site 657318003924 Switch I region; other site 657318003925 G2 box; other site 657318003926 G3 box; other site 657318003927 Switch II region; other site 657318003928 G4 box; other site 657318003929 G5 box; other site 657318003930 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 657318003931 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 657318003932 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 657318003933 prephenate dehydrogenase; Validated; Region: PRK06545 657318003934 prephenate dehydrogenase; Validated; Region: PRK08507 657318003935 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657318003936 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 657318003937 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 657318003938 hinge; other site 657318003939 active site 657318003940 PilZ domain; Region: PilZ; pfam07238 657318003941 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 657318003942 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 657318003943 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 657318003944 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 657318003945 putative tRNA-binding site [nucleotide binding]; other site 657318003946 B3/4 domain; Region: B3_4; pfam03483 657318003947 tRNA synthetase B5 domain; Region: B5; smart00874 657318003948 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 657318003949 dimer interface [polypeptide binding]; other site 657318003950 motif 1; other site 657318003951 motif 3; other site 657318003952 motif 2; other site 657318003953 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 657318003954 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 657318003955 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 657318003956 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 657318003957 dimer interface [polypeptide binding]; other site 657318003958 motif 1; other site 657318003959 active site 657318003960 motif 2; other site 657318003961 motif 3; other site 657318003962 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 657318003963 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 657318003964 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 657318003965 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657318003966 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 657318003967 active site 657318003968 phosphorylation site [posttranslational modification] 657318003969 intermolecular recognition site; other site 657318003970 dimerization interface [polypeptide binding]; other site 657318003971 FAE1/Type III polyketide synthase-like protein; Region: FAE1_CUT1_RppA; pfam08392 657318003972 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 657318003973 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 657318003974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318003975 catalytic residue [active] 657318003976 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 657318003977 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 657318003978 substrate binding site [chemical binding]; other site 657318003979 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 657318003980 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 657318003981 substrate binding site [chemical binding]; other site 657318003982 ligand binding site [chemical binding]; other site 657318003983 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657318003984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657318003985 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 657318003986 dimerization interface [polypeptide binding]; other site 657318003987 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 657318003988 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 657318003989 HIGH motif; other site 657318003990 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657318003991 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657318003992 KMSKS motif; other site 657318003993 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 657318003994 tRNA binding surface [nucleotide binding]; other site 657318003995 ketol-acid reductoisomerase; Provisional; Region: PRK05479 657318003996 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 657318003997 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 657318003998 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 657318003999 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 657318004000 putative valine binding site [chemical binding]; other site 657318004001 dimer interface [polypeptide binding]; other site 657318004002 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 657318004003 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 657318004004 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 657318004005 active site 657318004006 substrate-binding site [chemical binding]; other site 657318004007 metal-binding site [ion binding] 657318004008 ATP binding site [chemical binding]; other site 657318004009 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 657318004010 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 657318004011 Walker A/P-loop; other site 657318004012 ATP binding site [chemical binding]; other site 657318004013 Q-loop/lid; other site 657318004014 ABC transporter signature motif; other site 657318004015 Walker B; other site 657318004016 D-loop; other site 657318004017 H-loop/switch region; other site 657318004018 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 657318004019 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 657318004020 dimer interface [polypeptide binding]; other site 657318004021 conserved gate region; other site 657318004022 putative PBP binding loops; other site 657318004023 ABC-ATPase subunit interface; other site 657318004024 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 657318004025 membrane-bound complex binding site; other site 657318004026 hinge residues; other site 657318004027 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 657318004028 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657318004029 substrate binding pocket [chemical binding]; other site 657318004030 Predicted permeases [General function prediction only]; Region: COG0679 657318004031 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 657318004032 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 657318004033 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318004034 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318004035 metal binding site [ion binding]; metal-binding site 657318004036 active site 657318004037 I-site; other site 657318004038 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 657318004039 Abi-like protein; Region: Abi_2; pfam07751 657318004040 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657318004041 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657318004042 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657318004043 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657318004044 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 657318004045 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657318004046 Helix-turn-helix domain; Region: HTH_18; pfam12833 657318004047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318004048 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 657318004049 putative binding surface; other site 657318004050 active site 657318004051 Helix-turn-helix domain; Region: HTH_17; pfam12728 657318004052 Fic family protein [Function unknown]; Region: COG3177 657318004053 Fic/DOC family; Region: Fic; pfam02661 657318004054 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318004055 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 657318004056 dimerization interface [polypeptide binding]; other site 657318004057 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 657318004058 dimer interface [polypeptide binding]; other site 657318004059 phosphorylation site [posttranslational modification] 657318004060 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 657318004061 ATP binding site [chemical binding]; other site 657318004062 Mg2+ binding site [ion binding]; other site 657318004063 G-X-G motif; other site 657318004064 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 657318004065 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657318004066 catalytic residues [active] 657318004067 MFS/sugar transport protein; Region: MFS_2; pfam13347 657318004068 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657318004069 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657318004070 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657318004071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318004072 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318004073 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 657318004074 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657318004075 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657318004076 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657318004077 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318004078 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 657318004079 dimerization interface [polypeptide binding]; other site 657318004080 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 657318004081 dimer interface [polypeptide binding]; other site 657318004082 phosphorylation site [posttranslational modification] 657318004083 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 657318004084 ATP binding site [chemical binding]; other site 657318004085 Mg2+ binding site [ion binding]; other site 657318004086 G-X-G motif; other site 657318004087 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318004088 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 657318004089 active site 657318004090 phosphorylation site [posttranslational modification] 657318004091 intermolecular recognition site; other site 657318004092 dimerization interface [polypeptide binding]; other site 657318004093 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 657318004094 DNA binding site [nucleotide binding] 657318004095 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 657318004096 putative active site [active] 657318004097 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657318004098 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 657318004099 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657318004100 Na2 binding site [ion binding]; other site 657318004101 putative substrate binding site 1 [chemical binding]; other site 657318004102 Na binding site 1 [ion binding]; other site 657318004103 putative substrate binding site 2 [chemical binding]; other site 657318004104 Membrane transport protein; Region: Mem_trans; cl09117 657318004105 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 657318004106 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 657318004107 putative ligand binding site [chemical binding]; other site 657318004108 putative NAD binding site [chemical binding]; other site 657318004109 catalytic site [active] 657318004110 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 657318004111 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 657318004112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318004113 homodimer interface [polypeptide binding]; other site 657318004114 catalytic residue [active] 657318004115 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657318004116 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 657318004117 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657318004118 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657318004119 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 657318004120 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657318004121 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318004122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318004123 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 657318004124 Catalytic site [active] 657318004125 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318004126 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 657318004127 non-specific DNA binding site [nucleotide binding]; other site 657318004128 salt bridge; other site 657318004129 sequence-specific DNA binding site [nucleotide binding]; other site 657318004130 Hemerythrin; Region: Hemerythrin; cd12107 657318004131 Fe binding site [ion binding]; other site 657318004132 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 657318004133 substrate binding site [chemical binding]; other site 657318004134 THF binding site; other site 657318004135 zinc-binding site [ion binding]; other site 657318004136 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 657318004137 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cl00018 657318004138 non-heme iron binding site [ion binding]; other site 657318004139 dimer interface [polypeptide binding]; other site 657318004140 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 657318004141 non-heme iron binding site [ion binding]; other site 657318004142 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 657318004143 Rubredoxin; Region: Rubredoxin; pfam00301 657318004144 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 657318004145 iron binding site [ion binding]; other site 657318004146 Rubrerythrin [Energy production and conversion]; Region: COG1592 657318004147 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 657318004148 binuclear metal center [ion binding]; other site 657318004149 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 657318004150 iron binding site [ion binding]; other site 657318004151 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 657318004152 4Fe-4S binding domain; Region: Fer4; pfam00037 657318004153 4Fe-4S binding domain; Region: Fer4_6; pfam12837 657318004154 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657318004155 Protein of unknown function (DUF328); Region: DUF328; pfam03883 657318004156 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 657318004157 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 657318004158 catalytic triad [active] 657318004159 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 657318004160 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 657318004161 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 657318004162 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657318004163 ligand binding site [chemical binding]; other site 657318004164 flexible hinge region; other site 657318004165 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 657318004166 putative switch regulator; other site 657318004167 non-specific DNA interactions [nucleotide binding]; other site 657318004168 DNA binding site [nucleotide binding] 657318004169 sequence specific DNA binding site [nucleotide binding]; other site 657318004170 putative cAMP binding site [chemical binding]; other site 657318004171 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 657318004172 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657318004173 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 657318004174 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 657318004175 active site residue [active] 657318004176 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 657318004177 active site residue [active] 657318004178 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 657318004179 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657318004180 catalytic residues [active] 657318004181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657318004182 GGGtGRT protein; Region: GGGtGRT; pfam14057 657318004183 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657318004184 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 657318004185 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 657318004186 DNA topoisomerase III; Provisional; Region: PRK07726 657318004187 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 657318004188 active site 657318004189 putative interdomain interaction site [polypeptide binding]; other site 657318004190 putative metal-binding site [ion binding]; other site 657318004191 putative nucleotide binding site [chemical binding]; other site 657318004192 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 657318004193 domain I; other site 657318004194 DNA binding groove [nucleotide binding] 657318004195 phosphate binding site [ion binding]; other site 657318004196 domain II; other site 657318004197 domain III; other site 657318004198 nucleotide binding site [chemical binding]; other site 657318004199 catalytic site [active] 657318004200 domain IV; other site 657318004201 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657318004202 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657318004203 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657318004204 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657318004205 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657318004206 Archaeal ATPase; Region: Arch_ATPase; pfam01637 657318004207 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 657318004208 Walker A motif; other site 657318004209 ATP binding site [chemical binding]; other site 657318004210 Walker B motif; other site 657318004211 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 657318004212 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 657318004213 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657318004214 argininosuccinate lyase; Provisional; Region: PRK00855 657318004215 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 657318004216 active sites [active] 657318004217 tetramer interface [polypeptide binding]; other site 657318004218 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 657318004219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318004220 Zn2+ binding site [ion binding]; other site 657318004221 Mg2+ binding site [ion binding]; other site 657318004222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318004223 Walker A/P-loop; other site 657318004224 ATP binding site [chemical binding]; other site 657318004225 Q-loop/lid; other site 657318004226 ABC transporter signature motif; other site 657318004227 Predicted transcriptional regulators [Transcription]; Region: COG1725 657318004228 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318004229 DNA-binding site [nucleotide binding]; DNA binding site 657318004230 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 657318004231 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 657318004232 non-specific DNA binding site [nucleotide binding]; other site 657318004233 salt bridge; other site 657318004234 sequence-specific DNA binding site [nucleotide binding]; other site 657318004235 Cupin domain; Region: Cupin_2; pfam07883 657318004236 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 657318004237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318004238 Walker A/P-loop; other site 657318004239 ATP binding site [chemical binding]; other site 657318004240 Q-loop/lid; other site 657318004241 ABC transporter signature motif; other site 657318004242 Walker B; other site 657318004243 D-loop; other site 657318004244 H-loop/switch region; other site 657318004245 TOBE domain; Region: TOBE_2; pfam08402 657318004246 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 657318004247 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 657318004248 dimer interface [polypeptide binding]; other site 657318004249 conserved gate region; other site 657318004250 putative PBP binding loops; other site 657318004251 ABC-ATPase subunit interface; other site 657318004252 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 657318004253 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 657318004254 dimer interface [polypeptide binding]; other site 657318004255 conserved gate region; other site 657318004256 putative PBP binding loops; other site 657318004257 ABC-ATPase subunit interface; other site 657318004258 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 657318004259 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 657318004260 glycogen synthase; Provisional; Region: glgA; PRK00654 657318004261 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 657318004262 ADP-binding pocket [chemical binding]; other site 657318004263 homodimer interface [polypeptide binding]; other site 657318004264 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 657318004265 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657318004266 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318004267 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 657318004268 Walker A/P-loop; other site 657318004269 ATP binding site [chemical binding]; other site 657318004270 Q-loop/lid; other site 657318004271 ABC transporter signature motif; other site 657318004272 Walker B; other site 657318004273 D-loop; other site 657318004274 H-loop/switch region; other site 657318004275 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318004276 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657318004277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318004278 Walker A/P-loop; other site 657318004279 ATP binding site [chemical binding]; other site 657318004280 Q-loop/lid; other site 657318004281 ABC transporter signature motif; other site 657318004282 Walker B; other site 657318004283 D-loop; other site 657318004284 H-loop/switch region; other site 657318004285 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 657318004286 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 657318004287 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 657318004288 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 657318004289 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 657318004290 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 657318004291 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 657318004292 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 657318004293 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 657318004294 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 657318004295 Walker A motif; other site 657318004296 ATP binding site [chemical binding]; other site 657318004297 Walker B motif; other site 657318004298 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 657318004299 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 657318004300 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 657318004301 Walker A motif; other site 657318004302 ATP binding site [chemical binding]; other site 657318004303 Walker B motif; other site 657318004304 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657318004305 Na2 binding site [ion binding]; other site 657318004306 putative substrate binding site 1 [chemical binding]; other site 657318004307 Na binding site 1 [ion binding]; other site 657318004308 putative substrate binding site 2 [chemical binding]; other site 657318004309 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 657318004310 FAD binding site [chemical binding]; other site 657318004311 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318004312 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657318004313 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 657318004314 protein binding site [polypeptide binding]; other site 657318004315 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 657318004316 potassium/proton antiporter; Reviewed; Region: PRK05326 657318004317 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 657318004318 TrkA-C domain; Region: TrkA_C; pfam02080 657318004319 TrkA-C domain; Region: TrkA_C; pfam02080 657318004320 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 657318004321 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 657318004322 Walker A/P-loop; other site 657318004323 ATP binding site [chemical binding]; other site 657318004324 Q-loop/lid; other site 657318004325 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 657318004326 ABC transporter signature motif; other site 657318004327 Walker B; other site 657318004328 D-loop; other site 657318004329 H-loop/switch region; other site 657318004330 arginine repressor; Provisional; Region: argR; PRK00441 657318004331 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 657318004332 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 657318004333 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 657318004334 ATP-NAD kinase; Region: NAD_kinase; pfam01513 657318004335 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 657318004336 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 657318004337 RNA binding surface [nucleotide binding]; other site 657318004338 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 657318004339 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 657318004340 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 657318004341 TPP-binding site; other site 657318004342 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 657318004343 PYR/PP interface [polypeptide binding]; other site 657318004344 dimer interface [polypeptide binding]; other site 657318004345 TPP binding site [chemical binding]; other site 657318004346 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657318004347 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 657318004348 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 657318004349 substrate binding pocket [chemical binding]; other site 657318004350 chain length determination region; other site 657318004351 substrate-Mg2+ binding site; other site 657318004352 catalytic residues [active] 657318004353 aspartate-rich region 1; other site 657318004354 active site lid residues [active] 657318004355 aspartate-rich region 2; other site 657318004356 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 657318004357 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 657318004358 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 657318004359 generic binding surface II; other site 657318004360 generic binding surface I; other site 657318004361 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 657318004362 putative RNA binding site [nucleotide binding]; other site 657318004363 Asp23 family; Region: Asp23; pfam03780 657318004364 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 657318004365 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657318004366 ligand binding site; other site 657318004367 oligomer interface; other site 657318004368 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657318004369 dimer interface [polypeptide binding]; other site 657318004370 N-terminal domain interface [polypeptide binding]; other site 657318004371 sulfate 1 binding site; other site 657318004372 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 657318004373 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657318004374 ligand binding site; other site 657318004375 oligomer interface; other site 657318004376 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657318004377 dimer interface [polypeptide binding]; other site 657318004378 N-terminal domain interface [polypeptide binding]; other site 657318004379 sulfate 1 binding site; other site 657318004380 Homoserine O-succinyltransferase; Region: HTS; pfam04204 657318004381 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 657318004382 proposed active site lysine [active] 657318004383 conserved cys residue [active] 657318004384 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 657318004385 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; cl03295 657318004386 nucleotide binding pocket [chemical binding]; other site 657318004387 K-X-D-G motif; other site 657318004388 catalytic site [active] 657318004389 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 657318004390 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 657318004391 Dimer interface [polypeptide binding]; other site 657318004392 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 657318004393 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 657318004394 RNA binding surface [nucleotide binding]; other site 657318004395 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 657318004396 probable active site [active] 657318004397 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 657318004398 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 657318004399 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 657318004400 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 657318004401 dimer interface [polypeptide binding]; other site 657318004402 ADP-ribose binding site [chemical binding]; other site 657318004403 active site 657318004404 nudix motif; other site 657318004405 metal binding site [ion binding]; metal-binding site 657318004406 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 657318004407 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 657318004408 putative active site [active] 657318004409 metal binding site [ion binding]; metal-binding site 657318004410 phosphodiesterase; Provisional; Region: PRK12704 657318004411 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318004412 Zn2+ binding site [ion binding]; other site 657318004413 Mg2+ binding site [ion binding]; other site 657318004414 recombination regulator RecX; Reviewed; Region: recX; PRK00117 657318004415 recombinase A; Provisional; Region: recA; PRK09354 657318004416 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 657318004417 hexamer interface [polypeptide binding]; other site 657318004418 Walker A motif; other site 657318004419 ATP binding site [chemical binding]; other site 657318004420 Walker B motif; other site 657318004421 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; cl17562 657318004422 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 657318004423 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 657318004424 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 657318004425 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 657318004426 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 657318004427 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657318004428 active site 657318004429 HIGH motif; other site 657318004430 nucleotide binding site [chemical binding]; other site 657318004431 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 657318004432 KMSK motif region; other site 657318004433 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 657318004434 tRNA binding surface [nucleotide binding]; other site 657318004435 anticodon binding site; other site 657318004436 sporulation sigma factor SigG; Reviewed; Region: PRK08215 657318004437 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318004438 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657318004439 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 657318004440 DNA binding residues [nucleotide binding] 657318004441 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 657318004442 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318004443 Zn2+ binding site [ion binding]; other site 657318004444 Mg2+ binding site [ion binding]; other site 657318004445 QueT transporter; Region: QueT; pfam06177 657318004446 VanZ like family; Region: VanZ; pfam04892 657318004447 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 657318004448 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657318004449 Beta-Casp domain; Region: Beta-Casp; smart01027 657318004450 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 657318004451 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 657318004452 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 657318004453 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 657318004454 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657318004455 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657318004456 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 657318004457 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657318004458 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657318004459 MraW methylase family; Region: Methyltransf_5; pfam01795 657318004460 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 657318004461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 657318004462 MraZ protein; Region: MraZ; pfam02381 657318004463 MraZ protein; Region: MraZ; pfam02381 657318004464 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 657318004465 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 657318004466 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 657318004467 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 657318004468 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 657318004469 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 657318004470 active site 657318004471 dimer interface [polypeptide binding]; other site 657318004472 motif 1; other site 657318004473 motif 2; other site 657318004474 motif 3; other site 657318004475 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 657318004476 anticodon binding site; other site 657318004477 hypothetical protein; Provisional; Region: PRK05590 657318004478 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 657318004479 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657318004480 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 657318004481 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 657318004482 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657318004483 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 657318004484 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 657318004485 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 657318004486 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 657318004487 EDD domain protein, DegV family; Region: DegV; TIGR00762 657318004488 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657318004489 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 657318004490 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 657318004491 ring oligomerisation interface [polypeptide binding]; other site 657318004492 ATP/Mg binding site [chemical binding]; other site 657318004493 stacking interactions; other site 657318004494 hinge regions; other site 657318004495 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 657318004496 oligomerisation interface [polypeptide binding]; other site 657318004497 mobile loop; other site 657318004498 roof hairpin; other site 657318004499 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 657318004500 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 657318004501 active site 657318004502 motif I; other site 657318004503 motif II; other site 657318004504 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 657318004505 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 657318004506 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657318004507 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 657318004508 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 657318004509 active site 657318004510 dimer interface [polypeptide binding]; other site 657318004511 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 657318004512 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 657318004513 active site 657318004514 FMN binding site [chemical binding]; other site 657318004515 substrate binding site [chemical binding]; other site 657318004516 3Fe-4S cluster binding site [ion binding]; other site 657318004517 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 657318004518 domain interface; other site 657318004519 CAAX protease self-immunity; Region: Abi; pfam02517 657318004520 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657318004521 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 657318004522 motif II; other site 657318004523 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 657318004524 metal ion-dependent adhesion site (MIDAS); other site 657318004525 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 657318004526 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 657318004527 CAP-like domain; other site 657318004528 active site 657318004529 primary dimer interface [polypeptide binding]; other site 657318004530 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 657318004531 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 657318004532 Mg2+ binding site [ion binding]; other site 657318004533 G-X-G motif; other site 657318004534 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 657318004535 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 657318004536 anchoring element; other site 657318004537 dimer interface [polypeptide binding]; other site 657318004538 ATP binding site [chemical binding]; other site 657318004539 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 657318004540 active site 657318004541 putative metal-binding site [ion binding]; other site 657318004542 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657318004543 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 657318004544 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 657318004545 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 657318004546 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 657318004547 Walker A/P-loop; other site 657318004548 ATP binding site [chemical binding]; other site 657318004549 Q-loop/lid; other site 657318004550 ABC transporter signature motif; other site 657318004551 Walker B; other site 657318004552 D-loop; other site 657318004553 H-loop/switch region; other site 657318004554 TOBE domain; Region: TOBE_2; pfam08402 657318004555 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 657318004556 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 657318004557 trimer interface [polypeptide binding]; other site 657318004558 active site 657318004559 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 657318004560 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 657318004561 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 657318004562 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 657318004563 GTP-binding protein Der; Reviewed; Region: PRK00093 657318004564 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 657318004565 G1 box; other site 657318004566 GTP/Mg2+ binding site [chemical binding]; other site 657318004567 Switch I region; other site 657318004568 G2 box; other site 657318004569 Switch II region; other site 657318004570 G3 box; other site 657318004571 G4 box; other site 657318004572 G5 box; other site 657318004573 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 657318004574 G1 box; other site 657318004575 GTP/Mg2+ binding site [chemical binding]; other site 657318004576 Switch I region; other site 657318004577 G2 box; other site 657318004578 G3 box; other site 657318004579 Switch II region; other site 657318004580 G4 box; other site 657318004581 G5 box; other site 657318004582 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 657318004583 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 657318004584 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657318004585 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657318004586 Walker A/P-loop; other site 657318004587 ATP binding site [chemical binding]; other site 657318004588 Q-loop/lid; other site 657318004589 ABC transporter signature motif; other site 657318004590 Walker B; other site 657318004591 D-loop; other site 657318004592 H-loop/switch region; other site 657318004593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318004594 DNA-binding site [nucleotide binding]; DNA binding site 657318004595 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 657318004596 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 657318004597 hypothetical protein; Reviewed; Region: PRK12497 657318004598 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 657318004599 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 657318004600 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 657318004601 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 657318004602 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 657318004603 FeS/SAM binding site; other site 657318004604 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 657318004605 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657318004606 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 657318004607 active site 657318004608 substrate binding site [chemical binding]; other site 657318004609 trimer interface [polypeptide binding]; other site 657318004610 CoA binding site [chemical binding]; other site 657318004611 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657318004612 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 657318004613 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 657318004614 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657318004615 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 657318004616 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 657318004617 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 657318004618 Transposase; Region: DEDD_Tnp_IS110; pfam01548 657318004619 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 657318004620 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 657318004621 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657318004622 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 657318004623 active site 657318004624 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 657318004625 trimer interface [polypeptide binding]; other site 657318004626 active site 657318004627 substrate binding site [chemical binding]; other site 657318004628 CoA binding site [chemical binding]; other site 657318004629 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657318004630 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 657318004631 active site 657318004632 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657318004633 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 657318004634 active site 657318004635 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 657318004636 active site 657318004637 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 657318004638 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 657318004639 FeS/SAM binding site; other site 657318004640 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 657318004641 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 657318004642 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657318004643 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 657318004644 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657318004645 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 657318004646 ATP binding site [chemical binding]; other site 657318004647 putative Mg++ binding site [ion binding]; other site 657318004648 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 657318004649 nucleotide binding region [chemical binding]; other site 657318004650 ATP-binding site [chemical binding]; other site 657318004651 Helicase associated domain; Region: HA; pfam03457 657318004652 Helicase associated domain; Region: HA; pfam03457 657318004653 Helicase associated domain; Region: HA; pfam03457 657318004654 Helicase associated domain; Region: HA; pfam03457 657318004655 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318004656 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 657318004657 non-specific DNA binding site [nucleotide binding]; other site 657318004658 salt bridge; other site 657318004659 sequence-specific DNA binding site [nucleotide binding]; other site 657318004660 HipA-like C-terminal domain; Region: HipA_C; pfam07804 657318004661 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657318004662 Int/Topo IB signature motif; other site 657318004663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 657318004664 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 657318004665 Probable transposase; Region: OrfB_IS605; pfam01385 657318004666 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 657318004667 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657318004668 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657318004669 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 657318004670 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 657318004671 putative DNA binding helix; other site 657318004672 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657318004673 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657318004674 G1 box; other site 657318004675 GTP/Mg2+ binding site [chemical binding]; other site 657318004676 Switch I region; other site 657318004677 G2 box; other site 657318004678 G3 box; other site 657318004679 Switch II region; other site 657318004680 G4 box; other site 657318004681 G5 box; other site 657318004682 Nucleoside recognition; Region: Gate; pfam07670 657318004683 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657318004684 Nucleoside recognition; Region: Gate; pfam07670 657318004685 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 657318004686 FeoA domain; Region: FeoA; pfam04023 657318004687 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 657318004688 serine O-acetyltransferase; Region: cysE; TIGR01172 657318004689 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 657318004690 trimer interface [polypeptide binding]; other site 657318004691 active site 657318004692 substrate binding site [chemical binding]; other site 657318004693 CoA binding site [chemical binding]; other site 657318004694 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 657318004695 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 657318004696 active site 1 [active] 657318004697 active site 2 [active] 657318004698 heat shock protein 90; Provisional; Region: PRK05218 657318004699 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 657318004700 ATP binding site [chemical binding]; other site 657318004701 Mg2+ binding site [ion binding]; other site 657318004702 G-X-G motif; other site 657318004703 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 657318004704 active site 657318004705 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 657318004706 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 657318004707 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 657318004708 Part of AAA domain; Region: AAA_19; pfam13245 657318004709 Family description; Region: UvrD_C_2; pfam13538 657318004710 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657318004711 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 657318004712 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657318004713 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 657318004714 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 657318004715 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 657318004716 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 657318004717 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 657318004718 cell division protein FtsA; Region: ftsA; TIGR01174 657318004719 Cell division protein FtsA; Region: FtsA; smart00842 657318004720 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657318004721 nucleotide binding site [chemical binding]; other site 657318004722 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 657318004723 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 657318004724 CoA-binding site [chemical binding]; other site 657318004725 ATP-binding [chemical binding]; other site 657318004726 DNA polymerase I; Provisional; Region: PRK05755 657318004727 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 657318004728 active site 657318004729 metal binding site 1 [ion binding]; metal-binding site 657318004730 putative 5' ssDNA interaction site; other site 657318004731 metal binding site 3; metal-binding site 657318004732 metal binding site 2 [ion binding]; metal-binding site 657318004733 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 657318004734 putative DNA binding site [nucleotide binding]; other site 657318004735 putative metal binding site [ion binding]; other site 657318004736 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 657318004737 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 657318004738 active site 657318004739 DNA binding site [nucleotide binding] 657318004740 catalytic site [active] 657318004741 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657318004742 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 657318004743 Poxvirus M2 protein; Region: Pox_M2; pfam04887 657318004744 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 657318004745 active site 657318004746 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 657318004747 active site 657318004748 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 657318004749 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 657318004750 ATP binding site [chemical binding]; other site 657318004751 putative Mg++ binding site [ion binding]; other site 657318004752 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 657318004753 nucleotide binding region [chemical binding]; other site 657318004754 ATP-binding site [chemical binding]; other site 657318004755 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 657318004756 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657318004757 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 657318004758 Sulfatase; Region: Sulfatase; pfam00884 657318004759 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318004760 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318004761 metal binding site [ion binding]; metal-binding site 657318004762 active site 657318004763 I-site; other site 657318004764 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 657318004765 uracil-xanthine permease; Region: ncs2; TIGR00801 657318004766 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 657318004767 Putative transposase; Region: Y2_Tnp; pfam04986 657318004768 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657318004769 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 657318004770 active site 657318004771 DNA binding site [nucleotide binding] 657318004772 Int/Topo IB signature motif; other site 657318004773 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 657318004774 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318004775 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 657318004776 Walker A/P-loop; other site 657318004777 ATP binding site [chemical binding]; other site 657318004778 Q-loop/lid; other site 657318004779 ABC transporter signature motif; other site 657318004780 Walker B; other site 657318004781 D-loop; other site 657318004782 H-loop/switch region; other site 657318004783 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 657318004784 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 657318004785 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 657318004786 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 657318004787 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 657318004788 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 657318004789 putative active site [active] 657318004790 putative metal binding site [ion binding]; other site 657318004791 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657318004792 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 657318004793 active site 657318004794 metal binding site [ion binding]; metal-binding site 657318004795 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 657318004796 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 657318004797 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 657318004798 metal binding site [ion binding]; metal-binding site 657318004799 dimer interface [polypeptide binding]; other site 657318004800 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657318004801 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318004802 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318004803 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318004804 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 657318004805 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 657318004806 Ca binding site [ion binding]; other site 657318004807 active site 657318004808 catalytic site [active] 657318004809 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 657318004810 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 657318004811 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 657318004812 Ca binding site [ion binding]; other site 657318004813 active site 657318004814 catalytic site [active] 657318004815 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 657318004816 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657318004817 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657318004818 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657318004819 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 657318004820 homodimer interface [polypeptide binding]; other site 657318004821 substrate-cofactor binding pocket; other site 657318004822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318004823 catalytic residue [active] 657318004824 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 657318004825 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 657318004826 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657318004827 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 657318004828 CPxP motif; other site 657318004829 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 657318004830 catalytic residues [active] 657318004831 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 657318004832 thiS-thiF/thiG interaction site; other site 657318004833 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 657318004834 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 657318004835 ATP binding site [chemical binding]; other site 657318004836 substrate interface [chemical binding]; other site 657318004837 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 657318004838 MPN+ (JAMM) motif; other site 657318004839 Zinc-binding site [ion binding]; other site 657318004840 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 657318004841 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 657318004842 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 657318004843 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 657318004844 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 657318004845 domain interfaces; other site 657318004846 active site 657318004847 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 657318004848 active site 657318004849 SAM binding site [chemical binding]; other site 657318004850 homodimer interface [polypeptide binding]; other site 657318004851 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 657318004852 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 657318004853 active site 657318004854 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 657318004855 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 657318004856 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657318004857 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 657318004858 homodimer interface [polypeptide binding]; other site 657318004859 substrate-cofactor binding pocket; other site 657318004860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318004861 catalytic residue [active] 657318004862 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318004863 metal binding site [ion binding]; metal-binding site 657318004864 active site 657318004865 I-site; other site 657318004866 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 657318004867 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 657318004868 active site residue [active] 657318004869 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 657318004870 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 657318004871 active site 657318004872 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657318004873 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 657318004874 active site 657318004875 metal binding site [ion binding]; metal-binding site 657318004876 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 657318004877 active site 657318004878 dimerization interface [polypeptide binding]; other site 657318004879 Predicted membrane protein [Function unknown]; Region: COG2510 657318004880 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 657318004881 Predicted membrane protein [Function unknown]; Region: COG2510 657318004882 biotin synthase; Region: bioB; TIGR00433 657318004883 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 657318004884 FeS/SAM binding site; other site 657318004885 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 657318004886 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 657318004887 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657318004888 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318004889 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 657318004890 active site 657318004891 phosphorylation site [posttranslational modification] 657318004892 intermolecular recognition site; other site 657318004893 dimerization interface [polypeptide binding]; other site 657318004894 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 657318004895 DNA binding site [nucleotide binding] 657318004896 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318004897 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 657318004898 dimerization interface [polypeptide binding]; other site 657318004899 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 657318004900 dimer interface [polypeptide binding]; other site 657318004901 phosphorylation site [posttranslational modification] 657318004902 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 657318004903 ATP binding site [chemical binding]; other site 657318004904 Mg2+ binding site [ion binding]; other site 657318004905 G-X-G motif; other site 657318004906 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 657318004907 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657318004908 FtsX-like permease family; Region: FtsX; pfam02687 657318004909 FtsX-like permease family; Region: FtsX; pfam02687 657318004910 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318004911 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318004912 Walker A/P-loop; other site 657318004913 ATP binding site [chemical binding]; other site 657318004914 Q-loop/lid; other site 657318004915 ABC transporter signature motif; other site 657318004916 Walker B; other site 657318004917 D-loop; other site 657318004918 H-loop/switch region; other site 657318004919 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318004920 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318004921 Walker A/P-loop; other site 657318004922 ATP binding site [chemical binding]; other site 657318004923 Q-loop/lid; other site 657318004924 ABC transporter signature motif; other site 657318004925 Walker B; other site 657318004926 D-loop; other site 657318004927 H-loop/switch region; other site 657318004928 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 657318004929 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657318004930 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 657318004931 active site 657318004932 phosphorylation site [posttranslational modification] 657318004933 intermolecular recognition site; other site 657318004934 dimerization interface [polypeptide binding]; other site 657318004935 LytTr DNA-binding domain; Region: LytTR; smart00850 657318004936 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318004937 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 657318004938 non-specific DNA binding site [nucleotide binding]; other site 657318004939 salt bridge; other site 657318004940 sequence-specific DNA binding site [nucleotide binding]; other site 657318004941 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 657318004942 Accessory gene regulator B; Region: AgrB; pfam04647 657318004943 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 657318004944 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 657318004945 putative active site [active] 657318004946 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318004947 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318004948 Walker A/P-loop; other site 657318004949 ATP binding site [chemical binding]; other site 657318004950 Q-loop/lid; other site 657318004951 ABC transporter signature motif; other site 657318004952 Walker B; other site 657318004953 D-loop; other site 657318004954 H-loop/switch region; other site 657318004955 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318004956 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318004957 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 657318004958 active site 657318004959 metal binding site [ion binding]; metal-binding site 657318004960 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657318004961 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318004962 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 657318004963 dimer interface [polypeptide binding]; other site 657318004964 phosphorylation site [posttranslational modification] 657318004965 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 657318004966 ATP binding site [chemical binding]; other site 657318004967 Mg2+ binding site [ion binding]; other site 657318004968 G-X-G motif; other site 657318004969 Domain of unknown function, E. rectale Gene description (DUF3878); Region: DUF3878; pfam12994 657318004970 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 657318004971 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 657318004972 dimer interface [polypeptide binding]; other site 657318004973 conserved gate region; other site 657318004974 putative PBP binding loops; other site 657318004975 ABC-ATPase subunit interface; other site 657318004976 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 657318004977 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 657318004978 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 657318004979 dimer interface [polypeptide binding]; other site 657318004980 conserved gate region; other site 657318004981 putative PBP binding loops; other site 657318004982 ABC-ATPase subunit interface; other site 657318004983 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 657318004984 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657318004985 Walker A/P-loop; other site 657318004986 ATP binding site [chemical binding]; other site 657318004987 Q-loop/lid; other site 657318004988 ABC transporter signature motif; other site 657318004989 Walker B; other site 657318004990 D-loop; other site 657318004991 H-loop/switch region; other site 657318004992 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 657318004993 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 657318004994 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657318004995 Walker A/P-loop; other site 657318004996 ATP binding site [chemical binding]; other site 657318004997 Q-loop/lid; other site 657318004998 ABC transporter signature motif; other site 657318004999 Walker B; other site 657318005000 D-loop; other site 657318005001 H-loop/switch region; other site 657318005002 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 657318005003 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 657318005004 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 657318005005 peptide binding site [polypeptide binding]; other site 657318005006 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 657318005007 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 657318005008 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 657318005009 putative active site [active] 657318005010 putative metal binding residues [ion binding]; other site 657318005011 signature motif; other site 657318005012 putative dimer interface [polypeptide binding]; other site 657318005013 putative phosphate binding site [ion binding]; other site 657318005014 DJ-1 family protein; Region: not_thiJ; TIGR01383 657318005015 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 657318005016 conserved cys residue [active] 657318005017 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 657318005018 trigger factor; Provisional; Region: tig; PRK01490 657318005019 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657318005020 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657318005021 Clp protease; Region: CLP_protease; pfam00574 657318005022 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 657318005023 oligomer interface [polypeptide binding]; other site 657318005024 active site residues [active] 657318005025 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 657318005026 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 657318005027 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 657318005028 Walker A motif; other site 657318005029 ATP binding site [chemical binding]; other site 657318005030 Walker B motif; other site 657318005031 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657318005032 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 657318005033 G1 box; other site 657318005034 GTP/Mg2+ binding site [chemical binding]; other site 657318005035 Switch I region; other site 657318005036 G2 box; other site 657318005037 G3 box; other site 657318005038 Switch II region; other site 657318005039 G4 box; other site 657318005040 G5 box; other site 657318005041 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 657318005042 intersubunit interface [polypeptide binding]; other site 657318005043 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 657318005044 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 657318005045 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 657318005046 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 657318005047 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 657318005048 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 657318005049 ABC-ATPase subunit interface; other site 657318005050 dimer interface [polypeptide binding]; other site 657318005051 putative PBP binding regions; other site 657318005052 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 657318005053 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 657318005054 dimerization interface [polypeptide binding]; other site 657318005055 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657318005056 dimer interface [polypeptide binding]; other site 657318005057 putative CheW interface [polypeptide binding]; other site 657318005058 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 657318005059 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657318005060 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 657318005061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318005062 DNA-binding site [nucleotide binding]; DNA binding site 657318005063 Transcriptional regulators [Transcription]; Region: FadR; COG2186 657318005064 FCD domain; Region: FCD; pfam07729 657318005065 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 657318005066 Spore germination protein; Region: Spore_permease; cl17796 657318005067 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 657318005068 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 657318005069 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 657318005070 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 657318005071 dimerization interface [polypeptide binding]; other site 657318005072 ligand binding site [chemical binding]; other site 657318005073 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318005074 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318005075 metal binding site [ion binding]; metal-binding site 657318005076 active site 657318005077 I-site; other site 657318005078 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 657318005079 trigger factor; Region: tig; TIGR00115 657318005080 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657318005081 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657318005082 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 657318005083 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 657318005084 putative dimer interface [polypeptide binding]; other site 657318005085 putative anticodon binding site; other site 657318005086 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 657318005087 homodimer interface [polypeptide binding]; other site 657318005088 motif 1; other site 657318005089 motif 2; other site 657318005090 active site 657318005091 motif 3; other site 657318005092 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 657318005093 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 657318005094 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 657318005095 Protein export membrane protein; Region: SecD_SecF; pfam02355 657318005096 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 657318005097 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 657318005098 active site 657318005099 catalytic site [active] 657318005100 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 657318005101 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 657318005102 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657318005103 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 657318005104 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 657318005105 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 657318005106 substrate binding site [chemical binding]; other site 657318005107 oxyanion hole (OAH) forming residues; other site 657318005108 trimer interface [polypeptide binding]; other site 657318005109 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657318005110 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318005111 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 657318005112 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 657318005113 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657318005114 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657318005115 SCP-2 sterol transfer family; Region: SCP2; pfam02036 657318005116 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 657318005117 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 657318005118 Condensation domain; Region: Condensation; pfam00668 657318005119 acyl carrier protein; Provisional; Region: acpP; PRK00982 657318005120 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 657318005121 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 657318005122 acyl-activating enzyme (AAE) consensus motif; other site 657318005123 putative AMP binding site [chemical binding]; other site 657318005124 putative active site [active] 657318005125 putative CoA binding site [chemical binding]; other site 657318005126 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 657318005127 active site 657318005128 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657318005129 active site 657318005130 NTP binding site [chemical binding]; other site 657318005131 metal binding triad [ion binding]; metal-binding site 657318005132 antibiotic binding site [chemical binding]; other site 657318005133 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 657318005134 Quinolinate synthetase A protein; Region: NadA; pfam02445 657318005135 L-aspartate oxidase; Provisional; Region: PRK06175 657318005136 FAD binding domain; Region: FAD_binding_2; pfam00890 657318005137 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 657318005138 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 657318005139 dimerization interface [polypeptide binding]; other site 657318005140 active site 657318005141 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 657318005142 HTH domain; Region: HTH_11; pfam08279 657318005143 3H domain; Region: 3H; pfam02829 657318005144 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318005145 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 657318005146 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 657318005147 active site 657318005148 catalytic triad [active] 657318005149 oxyanion hole [active] 657318005150 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 657318005151 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 657318005152 inhibitor binding site; inhibition site 657318005153 active site 657318005154 Cupin domain; Region: Cupin_2; pfam07883 657318005155 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318005156 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318005157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318005158 Probable beta-xylosidase; Provisional; Region: PLN03080 657318005159 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657318005160 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657318005161 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318005162 HAMP domain; Region: HAMP; pfam00672 657318005163 Histidine kinase; Region: His_kinase; pfam06580 657318005164 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 657318005165 ATP binding site [chemical binding]; other site 657318005166 Mg2+ binding site [ion binding]; other site 657318005167 G-X-G motif; other site 657318005168 Response regulator receiver domain; Region: Response_reg; pfam00072 657318005169 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 657318005170 active site 657318005171 phosphorylation site [posttranslational modification] 657318005172 intermolecular recognition site; other site 657318005173 dimerization interface [polypeptide binding]; other site 657318005174 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318005175 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318005176 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318005177 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318005178 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657318005179 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 657318005180 dimer interface [polypeptide binding]; other site 657318005181 conserved gate region; other site 657318005182 putative PBP binding loops; other site 657318005183 ABC-ATPase subunit interface; other site 657318005184 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318005185 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 657318005186 dimer interface [polypeptide binding]; other site 657318005187 conserved gate region; other site 657318005188 ABC-ATPase subunit interface; other site 657318005189 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657318005190 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657318005191 dimer interface [polypeptide binding]; other site 657318005192 putative CheW interface [polypeptide binding]; other site 657318005193 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 657318005194 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 657318005195 HIGH motif; other site 657318005196 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 657318005197 active site 657318005198 KMSKS motif; other site 657318005199 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 657318005200 tRNA binding surface [nucleotide binding]; other site 657318005201 anticodon binding site; other site 657318005202 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 657318005203 homodimer interface [polypeptide binding]; other site 657318005204 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 657318005205 active site pocket [active] 657318005206 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 657318005207 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 657318005208 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 657318005209 active site 657318005210 PHP Thumb interface [polypeptide binding]; other site 657318005211 metal binding site [ion binding]; metal-binding site 657318005212 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 657318005213 generic binding surface II; other site 657318005214 generic binding surface I; other site 657318005215 6-phosphofructokinase; Provisional; Region: PRK03202 657318005216 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657318005217 active site 657318005218 ADP/pyrophosphate binding site [chemical binding]; other site 657318005219 dimerization interface [polypeptide binding]; other site 657318005220 allosteric effector site; other site 657318005221 fructose-1,6-bisphosphate binding site; other site 657318005222 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657318005223 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 657318005224 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657318005225 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 657318005226 synthetase active site [active] 657318005227 NTP binding site [chemical binding]; other site 657318005228 metal binding site [ion binding]; metal-binding site 657318005229 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 657318005230 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318005231 ABC transporter; Region: ABC_tran_2; pfam12848 657318005232 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318005233 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 657318005234 Uncharacterized conserved protein [Function unknown]; Region: COG2966 657318005235 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 657318005236 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 657318005237 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 657318005238 Domain of unknown function (DUF3837); Region: DUF3837; pfam12939 657318005239 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 657318005240 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 657318005241 catalytic domain interface [polypeptide binding]; other site 657318005242 homodimer interface [polypeptide binding]; other site 657318005243 putative active site [active] 657318005244 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318005245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318005246 DNA binding site [nucleotide binding] 657318005247 domain linker motif; other site 657318005248 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 657318005249 dimerization interface [polypeptide binding]; other site 657318005250 ligand binding site [chemical binding]; other site 657318005251 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318005252 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657318005253 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 657318005254 dimer interface [polypeptide binding]; other site 657318005255 conserved gate region; other site 657318005256 putative PBP binding loops; other site 657318005257 ABC-ATPase subunit interface; other site 657318005258 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318005259 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 657318005260 dimer interface [polypeptide binding]; other site 657318005261 conserved gate region; other site 657318005262 putative PBP binding loops; other site 657318005263 ABC-ATPase subunit interface; other site 657318005264 EamA-like transporter family; Region: EamA; pfam00892 657318005265 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657318005266 EamA-like transporter family; Region: EamA; cl17759 657318005267 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 657318005268 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 657318005269 FeS/SAM binding site; other site 657318005270 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 657318005271 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 657318005272 DNA binding residues [nucleotide binding] 657318005273 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 657318005274 catalytic residues [active] 657318005275 catalytic nucleophile [active] 657318005276 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657318005277 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 657318005278 active site 657318005279 catalytic site [active] 657318005280 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657318005281 Sel1-like repeats; Region: SEL1; smart00671 657318005282 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657318005283 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657318005284 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 657318005285 dimerization interface [polypeptide binding]; other site 657318005286 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 657318005287 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657318005288 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 657318005289 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 657318005290 GDP-binding site [chemical binding]; other site 657318005291 ACT binding site; other site 657318005292 IMP binding site; other site 657318005293 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 657318005294 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 657318005295 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657318005296 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657318005297 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 657318005298 dimerization interface [polypeptide binding]; other site 657318005299 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 657318005300 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 657318005301 dimer interface [polypeptide binding]; other site 657318005302 active site 657318005303 metal binding site [ion binding]; metal-binding site 657318005304 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 657318005305 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657318005306 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 657318005307 YcfA-like protein; Region: YcfA; pfam07927 657318005308 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318005309 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657318005310 Cupin domain; Region: Cupin_2; pfam07883 657318005311 SpoVA protein; Region: SpoVA; pfam03862 657318005312 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 657318005313 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 657318005314 dimer interface [polypeptide binding]; other site 657318005315 active site 657318005316 glycine-pyridoxal phosphate binding site [chemical binding]; other site 657318005317 folate binding site [chemical binding]; other site 657318005318 seryl-tRNA synthetase; Provisional; Region: PRK05431 657318005319 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 657318005320 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 657318005321 motif 1; other site 657318005322 dimer interface [polypeptide binding]; other site 657318005323 active site 657318005324 motif 2; other site 657318005325 motif 3; other site 657318005326 YcfA-like protein; Region: YcfA; cl00752 657318005327 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 657318005328 HicB family; Region: HicB; pfam05534 657318005329 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657318005330 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657318005331 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657318005332 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 657318005333 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 657318005334 dimerization interface [polypeptide binding]; other site 657318005335 putative ATP binding site [chemical binding]; other site 657318005336 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 657318005337 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 657318005338 active site 657318005339 substrate binding site [chemical binding]; other site 657318005340 cosubstrate binding site; other site 657318005341 catalytic site [active] 657318005342 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 657318005343 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 657318005344 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 657318005345 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 657318005346 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657318005347 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657318005348 PAS domain; Region: PAS_9; pfam13426 657318005349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318005350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318005351 metal binding site [ion binding]; metal-binding site 657318005352 active site 657318005353 I-site; other site 657318005354 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318005355 metal binding site [ion binding]; metal-binding site 657318005356 active site 657318005357 I-site; other site 657318005358 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 657318005359 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 657318005360 Y-family of DNA polymerases; Region: PolY; cl12025 657318005361 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 657318005362 active site 657318005363 Y-family of DNA polymerases; Region: PolY; cl12025 657318005364 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 657318005365 DNA binding site [nucleotide binding] 657318005366 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 657318005367 active site 657318005368 SAM binding site [chemical binding]; other site 657318005369 homodimer interface [polypeptide binding]; other site 657318005370 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 657318005371 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 657318005372 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 657318005373 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 657318005374 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 657318005375 Ferredoxin [Energy production and conversion]; Region: COG1146 657318005376 4Fe-4S binding domain; Region: Fer4_6; pfam12837 657318005377 Cupin domain; Region: Cupin_2; cl17218 657318005378 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318005379 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 657318005380 non-specific DNA binding site [nucleotide binding]; other site 657318005381 salt bridge; other site 657318005382 sequence-specific DNA binding site [nucleotide binding]; other site 657318005383 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318005384 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 657318005385 non-specific DNA binding site [nucleotide binding]; other site 657318005386 salt bridge; other site 657318005387 sequence-specific DNA binding site [nucleotide binding]; other site 657318005388 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 657318005389 Mg binding site [ion binding]; other site 657318005390 nucleotide binding site [chemical binding]; other site 657318005391 putative protofilament interface [polypeptide binding]; other site 657318005392 Cna protein B-type domain; Region: Cna_B; pfam05738 657318005393 Cna protein B-type domain; Region: Cna_B; pfam05738 657318005394 Cna protein B-type domain; Region: Cna_B; pfam05738 657318005395 Cna protein B-type domain; Region: Cna_B; pfam05738 657318005396 Cna protein B-type domain; Region: Cna_B; pfam05738 657318005397 Cna protein B-type domain; Region: Cna_B; pfam05738 657318005398 Cna protein B-type domain; Region: Cna_B; pfam05738 657318005399 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 657318005400 MPN+ (JAMM) motif; other site 657318005401 Zinc-binding site [ion binding]; other site 657318005402 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 657318005403 Toprim-like; Region: Toprim_2; pfam13155 657318005404 active site 657318005405 metal binding site [ion binding]; metal-binding site 657318005406 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 657318005407 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 657318005408 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657318005409 AAA-like domain; Region: AAA_10; pfam12846 657318005410 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 657318005411 Walker A motif; other site 657318005412 ATP binding site [chemical binding]; other site 657318005413 Walker B motif; other site 657318005414 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657318005415 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318005416 Coenzyme A binding pocket [chemical binding]; other site 657318005417 Domain of unknown function (DUF4313); Region: DUF4313; pfam14190 657318005418 PrgI family protein; Region: PrgI; pfam12666 657318005419 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 657318005420 AAA-like domain; Region: AAA_10; pfam12846 657318005421 Domain of unknown function DUF87; Region: DUF87; pfam01935 657318005422 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 657318005423 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657318005424 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 657318005425 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657318005426 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657318005427 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 657318005428 ATP binding site [chemical binding]; other site 657318005429 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657318005430 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657318005431 nucleotide binding region [chemical binding]; other site 657318005432 ATP-binding site [chemical binding]; other site 657318005433 Sortase family; Region: Sortase; pfam04203 657318005434 active site 657318005435 catalytic site [active] 657318005436 SpoVG; Region: SpoVG; cl00915 657318005437 SpoVG; Region: SpoVG; pfam04026 657318005438 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]; Region: COG3863 657318005439 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318005440 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 657318005441 non-specific DNA binding site [nucleotide binding]; other site 657318005442 salt bridge; other site 657318005443 sequence-specific DNA binding site [nucleotide binding]; other site 657318005444 Predicted transcriptional regulator [Transcription]; Region: COG2932 657318005445 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 657318005446 Catalytic site [active] 657318005447 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657318005448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 657318005449 Integrase core domain; Region: rve; pfam00665 657318005450 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 657318005451 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 657318005452 Walker A motif; other site 657318005453 ATP binding site [chemical binding]; other site 657318005454 Walker B motif; other site 657318005455 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318005456 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 657318005457 non-specific DNA binding site [nucleotide binding]; other site 657318005458 salt bridge; other site 657318005459 sequence-specific DNA binding site [nucleotide binding]; other site 657318005460 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318005461 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 657318005462 non-specific DNA binding site [nucleotide binding]; other site 657318005463 salt bridge; other site 657318005464 sequence-specific DNA binding site [nucleotide binding]; other site 657318005465 Predicted transcriptional regulator [Transcription]; Region: COG2932 657318005466 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 657318005467 Catalytic site [active] 657318005468 DNA polymerase IV; Reviewed; Region: PRK03103 657318005469 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 657318005470 active site 657318005471 DNA binding site [nucleotide binding] 657318005472 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 657318005473 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 657318005474 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318005475 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 657318005476 non-specific DNA binding site [nucleotide binding]; other site 657318005477 salt bridge; other site 657318005478 sequence-specific DNA binding site [nucleotide binding]; other site 657318005479 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657318005480 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 657318005481 catalytic residues [active] 657318005482 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318005483 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 657318005484 non-specific DNA binding site [nucleotide binding]; other site 657318005485 salt bridge; other site 657318005486 sequence-specific DNA binding site [nucleotide binding]; other site 657318005487 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 657318005488 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657318005489 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 657318005490 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657318005491 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 657318005492 active site 657318005493 DNA binding site [nucleotide binding] 657318005494 Int/Topo IB signature motif; other site 657318005495 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 657318005496 Low molecular weight phosphatase family; Region: LMWPc; cl00105 657318005497 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 657318005498 putative deacylase active site [active] 657318005499 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657318005500 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 657318005501 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 657318005502 motif II; other site 657318005503 Part of AAA domain; Region: AAA_19; pfam13245 657318005504 Family description; Region: UvrD_C_2; pfam13538 657318005505 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 657318005506 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657318005507 active site 657318005508 motif I; other site 657318005509 motif II; other site 657318005510 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 657318005511 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 657318005512 Dimer interface [polypeptide binding]; other site 657318005513 anticodon binding site; other site 657318005514 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 657318005515 homodimer interface [polypeptide binding]; other site 657318005516 motif 1; other site 657318005517 motif 2; other site 657318005518 active site 657318005519 motif 3; other site 657318005520 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657318005521 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657318005522 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 657318005523 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 657318005524 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 657318005525 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 657318005526 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 657318005527 GatB domain; Region: GatB_Yqey; smart00845 657318005528 Accessory gene regulator B; Region: AgrB; cl01873 657318005529 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657318005530 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 657318005531 active site 657318005532 phosphorylation site [posttranslational modification] 657318005533 intermolecular recognition site; other site 657318005534 dimerization interface [polypeptide binding]; other site 657318005535 LytTr DNA-binding domain; Region: LytTR; pfam04397 657318005536 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 657318005537 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657318005538 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 657318005539 Walker A/P-loop; other site 657318005540 ATP binding site [chemical binding]; other site 657318005541 Q-loop/lid; other site 657318005542 ABC transporter signature motif; other site 657318005543 Walker B; other site 657318005544 D-loop; other site 657318005545 H-loop/switch region; other site 657318005546 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657318005547 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 657318005548 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 657318005549 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 657318005550 Walker A motif; other site 657318005551 ATP binding site [chemical binding]; other site 657318005552 Walker B motif; other site 657318005553 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657318005554 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 657318005555 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657318005556 active site 657318005557 metal binding site [ion binding]; metal-binding site 657318005558 DNA binding site [nucleotide binding] 657318005559 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 657318005560 active site 657318005561 catalytic triad [active] 657318005562 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 657318005563 dimer interface [polypeptide binding]; other site 657318005564 Citrate synthase; Region: Citrate_synt; pfam00285 657318005565 active site 657318005566 citrylCoA binding site [chemical binding]; other site 657318005567 oxalacetate/citrate binding site [chemical binding]; other site 657318005568 coenzyme A binding site [chemical binding]; other site 657318005569 catalytic triad [active] 657318005570 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 657318005571 heterotetramer interface [polypeptide binding]; other site 657318005572 active site pocket [active] 657318005573 cleavage site 657318005574 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 657318005575 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 657318005576 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 657318005577 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318005578 Zn2+ binding site [ion binding]; other site 657318005579 Mg2+ binding site [ion binding]; other site 657318005580 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 657318005581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318005582 Zn2+ binding site [ion binding]; other site 657318005583 Mg2+ binding site [ion binding]; other site 657318005584 Hemerythrin; Region: Hemerythrin; cd12107 657318005585 Fe binding site [ion binding]; other site 657318005586 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 657318005587 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657318005588 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657318005589 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 657318005590 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657318005591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 657318005592 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 657318005593 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 657318005594 metal ion-dependent adhesion site (MIDAS); other site 657318005595 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 657318005596 AAA domain; Region: AAA_22; pfam13401 657318005597 Walker A motif; other site 657318005598 ATP binding site [chemical binding]; other site 657318005599 Walker B motif; other site 657318005600 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 657318005601 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 657318005602 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 657318005603 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 657318005604 classical (c) SDRs; Region: SDR_c; cd05233 657318005605 NAD(P) binding site [chemical binding]; other site 657318005606 active site 657318005607 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 657318005608 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 657318005609 FMN binding site [chemical binding]; other site 657318005610 active site 657318005611 catalytic residues [active] 657318005612 substrate binding site [chemical binding]; other site 657318005613 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 657318005614 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 657318005615 dimerization interface [polypeptide binding]; other site 657318005616 active site 657318005617 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 657318005618 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 657318005619 folate binding site [chemical binding]; other site 657318005620 NADP+ binding site [chemical binding]; other site 657318005621 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 657318005622 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657318005623 PYR/PP interface [polypeptide binding]; other site 657318005624 dimer interface [polypeptide binding]; other site 657318005625 TPP binding site [chemical binding]; other site 657318005626 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657318005627 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 657318005628 TPP-binding site [chemical binding]; other site 657318005629 dimer interface [polypeptide binding]; other site 657318005630 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 657318005631 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 657318005632 putative valine binding site [chemical binding]; other site 657318005633 dimer interface [polypeptide binding]; other site 657318005634 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 657318005635 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 657318005636 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657318005637 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 657318005638 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657318005639 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 657318005640 DHH family; Region: DHH; pfam01368 657318005641 DHHA1 domain; Region: DHHA1; pfam02272 657318005642 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 657318005643 active site 657318005644 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 657318005645 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 657318005646 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 657318005647 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318005648 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318005649 DNA binding site [nucleotide binding] 657318005650 domain linker motif; other site 657318005651 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 657318005652 ligand binding site [chemical binding]; other site 657318005653 dimerization interface [polypeptide binding]; other site 657318005654 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK14654 657318005655 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 657318005656 Mg++ binding site [ion binding]; other site 657318005657 putative catalytic motif [active] 657318005658 putative substrate binding site [chemical binding]; other site 657318005659 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 657318005660 active site 657318005661 catalytic residues [active] 657318005662 metal binding site [ion binding]; metal-binding site 657318005663 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318005664 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 657318005665 active site 657318005666 phosphorylation site [posttranslational modification] 657318005667 intermolecular recognition site; other site 657318005668 dimerization interface [polypeptide binding]; other site 657318005669 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 657318005670 DNA binding site [nucleotide binding] 657318005671 Protein of unknown function (DUF2712); Region: DUF2712; pfam10916 657318005672 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 657318005673 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657318005674 Walker A/P-loop; other site 657318005675 ATP binding site [chemical binding]; other site 657318005676 Q-loop/lid; other site 657318005677 ABC transporter signature motif; other site 657318005678 Walker B; other site 657318005679 D-loop; other site 657318005680 H-loop/switch region; other site 657318005681 Large family of predicted nucleotide-binding domains; Region: PINc; smart00670 657318005682 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 657318005683 Domain of unknown function, E. rectale Gene description (DUF3879); Region: DUF3879; pfam12995 657318005684 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 657318005685 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 657318005686 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 657318005687 active site 657318005688 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657318005689 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 657318005690 active site 657318005691 phosphorylation site [posttranslational modification] 657318005692 intermolecular recognition site; other site 657318005693 dimerization interface [polypeptide binding]; other site 657318005694 LytTr DNA-binding domain; Region: LytTR; pfam04397 657318005695 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 657318005696 Accessory gene regulator B; Region: AgrB; pfam04647 657318005697 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 657318005698 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 657318005699 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 657318005700 dimerization interface [polypeptide binding]; other site 657318005701 domain crossover interface; other site 657318005702 redox-dependent activation switch; other site 657318005703 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 657318005704 putative active site [active] 657318005705 asparagine synthetase AsnA; Provisional; Region: PRK05425 657318005706 motif 1; other site 657318005707 dimer interface [polypeptide binding]; other site 657318005708 active site 657318005709 motif 2; other site 657318005710 motif 3; other site 657318005711 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 657318005712 active site residue [active] 657318005713 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 657318005714 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 657318005715 Ligand Binding Site [chemical binding]; other site 657318005716 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 657318005717 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 657318005718 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 657318005719 putative ATP binding site [chemical binding]; other site 657318005720 putative substrate interface [chemical binding]; other site 657318005721 aminotransferase AlaT; Validated; Region: PRK09265 657318005722 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 657318005723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318005724 homodimer interface [polypeptide binding]; other site 657318005725 catalytic residue [active] 657318005726 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318005727 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318005728 Walker A/P-loop; other site 657318005729 ATP binding site [chemical binding]; other site 657318005730 Q-loop/lid; other site 657318005731 ABC transporter signature motif; other site 657318005732 Walker B; other site 657318005733 D-loop; other site 657318005734 H-loop/switch region; other site 657318005735 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657318005736 FtsX-like permease family; Region: FtsX; pfam02687 657318005737 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657318005738 FtsX-like permease family; Region: FtsX; pfam02687 657318005739 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318005740 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 657318005741 active site 657318005742 phosphorylation site [posttranslational modification] 657318005743 intermolecular recognition site; other site 657318005744 dimerization interface [polypeptide binding]; other site 657318005745 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 657318005746 DNA binding site [nucleotide binding] 657318005747 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318005748 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 657318005749 dimer interface [polypeptide binding]; other site 657318005750 phosphorylation site [posttranslational modification] 657318005751 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 657318005752 ATP binding site [chemical binding]; other site 657318005753 Mg2+ binding site [ion binding]; other site 657318005754 G-X-G motif; other site 657318005755 FeoA domain; Region: FeoA; pfam04023 657318005756 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657318005757 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657318005758 G1 box; other site 657318005759 GTP/Mg2+ binding site [chemical binding]; other site 657318005760 Switch I region; other site 657318005761 G2 box; other site 657318005762 G3 box; other site 657318005763 Switch II region; other site 657318005764 G4 box; other site 657318005765 G5 box; other site 657318005766 Nucleoside recognition; Region: Gate; pfam07670 657318005767 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657318005768 Nucleoside recognition; Region: Gate; pfam07670 657318005769 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 657318005770 active site 657318005771 catalytic residues [active] 657318005772 DNA helicase II; Region: uvrD; TIGR01075 657318005773 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 657318005774 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657318005775 active site 657318005776 motif I; other site 657318005777 motif II; other site 657318005778 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 657318005779 motif II; other site 657318005780 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 657318005781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318005782 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318005783 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 657318005784 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657318005785 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657318005786 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657318005787 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 657318005788 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 657318005789 galactokinase; Provisional; Region: PRK05322 657318005790 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 657318005791 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657318005792 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 657318005793 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 657318005794 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 657318005795 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 657318005796 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318005797 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657318005798 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 657318005799 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 657318005800 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318005801 homodimer interface [polypeptide binding]; other site 657318005802 catalytic residue [active] 657318005803 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 657318005804 CAAX protease self-immunity; Region: Abi; pfam02517 657318005805 Trp repressor protein; Region: Trp_repressor; cl17266 657318005806 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 657318005807 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 657318005808 Part of AAA domain; Region: AAA_19; pfam13245 657318005809 Family description; Region: UvrD_C_2; pfam13538 657318005810 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 657318005811 TRAM domain; Region: TRAM; cl01282 657318005812 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 657318005813 S-adenosylmethionine binding site [chemical binding]; other site 657318005814 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 657318005815 AAA domain; Region: AAA_13; pfam13166 657318005816 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 657318005817 YodL-like; Region: YodL; pfam14191 657318005818 SpoVG; Region: SpoVG; pfam04026 657318005819 SpoVG; Region: SpoVG; cl00915 657318005820 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 657318005821 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 657318005822 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 657318005823 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 657318005824 Walker A motif; other site 657318005825 ATP binding site [chemical binding]; other site 657318005826 Walker B motif; other site 657318005827 indole acetimide hydrolase; Validated; Region: PRK07488 657318005828 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 657318005829 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 657318005830 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657318005831 active site 657318005832 NTP binding site [chemical binding]; other site 657318005833 metal binding triad [ion binding]; metal-binding site 657318005834 antibiotic binding site [chemical binding]; other site 657318005835 Protein of unknown function DUF86; Region: DUF86; cl01031 657318005836 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 657318005837 cofactor binding site; other site 657318005838 DNA binding site [nucleotide binding] 657318005839 substrate interaction site [chemical binding]; other site 657318005840 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 657318005841 AAA-like domain; Region: AAA_10; pfam12846 657318005842 Domain of unknown function DUF87; Region: DUF87; pfam01935 657318005843 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 657318005844 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657318005845 NlpC/P60 family; Region: NLPC_P60; cl17555 657318005846 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 657318005847 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 657318005848 cofactor binding site; other site 657318005849 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657318005850 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318005851 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 657318005852 DNA binding residues [nucleotide binding] 657318005853 Domain of unknown function, E. rectale Gene description (DUF3879); Region: DUF3879; pfam12995 657318005854 PIN domain; Region: PIN_3; pfam13470 657318005855 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657318005856 Sel1-like repeats; Region: SEL1; smart00671 657318005857 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657318005858 Sel1-like repeats; Region: SEL1; smart00671 657318005859 Sel1-like repeats; Region: SEL1; smart00671 657318005860 Sel1-like repeats; Region: SEL1; smart00671 657318005861 Sel1-like repeats; Region: SEL1; smart00671 657318005862 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 657318005863 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 657318005864 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657318005865 ATP binding site [chemical binding]; other site 657318005866 Mg2+ binding site [ion binding]; other site 657318005867 G-X-G motif; other site 657318005868 Domain of unknown function, E. rectale Gene description (DUF3879); Region: DUF3879; pfam12995 657318005869 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 657318005870 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 657318005871 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657318005872 DNA binding residues [nucleotide binding] 657318005873 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 657318005874 Integrase core domain; Region: rve; pfam00665 657318005875 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 657318005876 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 657318005877 Walker A motif; other site 657318005878 ATP binding site [chemical binding]; other site 657318005879 Walker B motif; other site 657318005880 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 657318005881 active site 657318005882 Int/Topo IB signature motif; other site 657318005883 DNA binding site [nucleotide binding] 657318005884 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 657318005885 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657318005886 Walker A/P-loop; other site 657318005887 ATP binding site [chemical binding]; other site 657318005888 Q-loop/lid; other site 657318005889 ABC transporter signature motif; other site 657318005890 Walker B; other site 657318005891 D-loop; other site 657318005892 H-loop/switch region; other site 657318005893 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 657318005894 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318005895 Walker A/P-loop; other site 657318005896 ATP binding site [chemical binding]; other site 657318005897 Q-loop/lid; other site 657318005898 ABC transporter signature motif; other site 657318005899 Walker B; other site 657318005900 D-loop; other site 657318005901 H-loop/switch region; other site 657318005902 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 657318005903 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 657318005904 putative dimer interface [polypeptide binding]; other site 657318005905 chaperone protein DnaJ; Provisional; Region: PRK14299 657318005906 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 657318005907 HSP70 interaction site [polypeptide binding]; other site 657318005908 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 657318005909 substrate binding site [polypeptide binding]; other site 657318005910 dimer interface [polypeptide binding]; other site 657318005911 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_18; cd04677 657318005912 nudix motif; other site 657318005913 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 657318005914 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 657318005915 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 657318005916 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 657318005917 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 657318005918 shikimate binding site; other site 657318005919 NAD(P) binding site [chemical binding]; other site 657318005920 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 657318005921 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 657318005922 active site 657318005923 FMN binding site [chemical binding]; other site 657318005924 substrate binding site [chemical binding]; other site 657318005925 putative catalytic residue [active] 657318005926 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 657318005927 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657318005928 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657318005929 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657318005930 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657318005931 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 657318005932 putative dimerization interface [polypeptide binding]; other site 657318005933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657318005934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657318005935 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 657318005936 dimerization interface [polypeptide binding]; other site 657318005937 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 657318005938 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 657318005939 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 657318005940 shikimate binding site; other site 657318005941 NAD(P) binding site [chemical binding]; other site 657318005942 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 657318005943 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 657318005944 active site 657318005945 catalytic residue [active] 657318005946 dimer interface [polypeptide binding]; other site 657318005947 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 657318005948 DctM-like transporters; Region: DctM; pfam06808 657318005949 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 657318005950 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 657318005951 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 657318005952 Chorismate mutase type II; Region: CM_2; cl00693 657318005953 shikimate kinase; Reviewed; Region: aroK; PRK00131 657318005954 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 657318005955 ADP binding site [chemical binding]; other site 657318005956 magnesium binding site [ion binding]; other site 657318005957 putative shikimate binding site; other site 657318005958 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 657318005959 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 657318005960 active site 657318005961 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 657318005962 dimer interface [polypeptide binding]; other site 657318005963 ADP-ribose binding site [chemical binding]; other site 657318005964 active site 657318005965 nudix motif; other site 657318005966 metal binding site [ion binding]; metal-binding site 657318005967 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657318005968 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318005969 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318005970 Walker A/P-loop; other site 657318005971 ATP binding site [chemical binding]; other site 657318005972 Q-loop/lid; other site 657318005973 ABC transporter signature motif; other site 657318005974 Walker B; other site 657318005975 D-loop; other site 657318005976 H-loop/switch region; other site 657318005977 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657318005978 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318005979 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657318005980 Walker A/P-loop; other site 657318005981 ATP binding site [chemical binding]; other site 657318005982 Q-loop/lid; other site 657318005983 ABC transporter signature motif; other site 657318005984 Walker B; other site 657318005985 D-loop; other site 657318005986 H-loop/switch region; other site 657318005987 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 657318005988 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 657318005989 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318005990 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657318005991 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 657318005992 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 657318005993 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 657318005994 salt bridge; other site 657318005995 non-specific DNA binding site [nucleotide binding]; other site 657318005996 sequence-specific DNA binding site [nucleotide binding]; other site 657318005997 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 657318005998 enolase; Provisional; Region: eno; PRK00077 657318005999 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 657318006000 dimer interface [polypeptide binding]; other site 657318006001 metal binding site [ion binding]; metal-binding site 657318006002 substrate binding pocket [chemical binding]; other site 657318006003 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 657318006004 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318006005 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318006006 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 657318006007 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657318006008 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657318006009 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657318006010 Cupin domain; Region: Cupin_2; pfam07883 657318006011 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657318006012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318006013 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 657318006014 N-terminal domain of chitobiose phosphorylase (ChBP) and similar proteins; Region: GH94N_ChBP_like; cd11755 657318006015 catalytic domain interface [polypeptide binding]; other site 657318006016 putative homodimer interface [polypeptide binding]; other site 657318006017 Protein of unknown function, DUF608; Region: DUF608; pfam04685 657318006018 N-terminal-like domain of Paenibacillus sp. YM-1 Laminaribiose Phosphorylase and similar proteins; Region: GH94N_LBP_like; cd11749 657318006019 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318006020 Helix-turn-helix domain; Region: HTH_18; pfam12833 657318006021 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318006022 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 657318006023 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657318006024 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 657318006025 dimer interface [polypeptide binding]; other site 657318006026 ABC-ATPase subunit interface; other site 657318006027 putative PBP binding loops; other site 657318006028 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318006029 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 657318006030 dimer interface [polypeptide binding]; other site 657318006031 conserved gate region; other site 657318006032 putative PBP binding loops; other site 657318006033 ABC-ATPase subunit interface; other site 657318006034 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 657318006035 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318006036 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318006037 ABC transporter; Region: ABC_tran_2; pfam12848 657318006038 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657318006039 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657318006040 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 657318006041 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 657318006042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318006043 Zn2+ binding site [ion binding]; other site 657318006044 Mg2+ binding site [ion binding]; other site 657318006045 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657318006046 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657318006047 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 657318006048 TrkA-N domain; Region: TrkA_N; pfam02254 657318006049 TrkA-C domain; Region: TrkA_C; pfam02080 657318006050 TrkA-N domain; Region: TrkA_N; pfam02254 657318006051 TrkA-C domain; Region: TrkA_C; pfam02080 657318006052 histidinol-phosphatase; Provisional; Region: PRK07328 657318006053 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 657318006054 active site 657318006055 dimer interface [polypeptide binding]; other site 657318006056 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 657318006057 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 657318006058 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657318006059 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 657318006060 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657318006061 active site 657318006062 metal binding site [ion binding]; metal-binding site 657318006063 homotetramer interface [polypeptide binding]; other site 657318006064 aspartate kinase; Reviewed; Region: PRK09034 657318006065 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 657318006066 nucleotide binding site [chemical binding]; other site 657318006067 substrate binding site [chemical binding]; other site 657318006068 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 657318006069 allosteric regulatory residue; other site 657318006070 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 657318006071 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 657318006072 NAD binding site [chemical binding]; other site 657318006073 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 657318006074 TSCPD domain; Region: TSCPD; cl14834 657318006075 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 657318006076 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 657318006077 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 657318006078 nucleotide binding region [chemical binding]; other site 657318006079 ATP-binding site [chemical binding]; other site 657318006080 SEC-C motif; Region: SEC-C; pfam02810 657318006081 excinuclease ABC subunit B; Provisional; Region: PRK05298 657318006082 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 657318006083 ATP binding site [chemical binding]; other site 657318006084 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 657318006085 nucleotide binding region [chemical binding]; other site 657318006086 ATP-binding site [chemical binding]; other site 657318006087 Ultra-violet resistance protein B; Region: UvrB; pfam12344 657318006088 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 657318006089 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657318006090 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657318006091 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 657318006092 rod shape-determining protein MreB; Provisional; Region: PRK13930 657318006093 MreB and similar proteins; Region: MreB_like; cd10225 657318006094 nucleotide binding site [chemical binding]; other site 657318006095 Mg binding site [ion binding]; other site 657318006096 putative protofilament interaction site [polypeptide binding]; other site 657318006097 RodZ interaction site [polypeptide binding]; other site 657318006098 flagellar operon protein TIGR03826; Region: YvyF 657318006099 Uncharacterized conserved protein [Function unknown]; Region: COG1624 657318006100 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 657318006101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 657318006102 YbbR-like protein; Region: YbbR; pfam07949 657318006103 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 657318006104 active site 657318006105 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 657318006106 active site 657318006107 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 657318006108 active site 657318006109 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 657318006110 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 657318006111 Chain length determinant protein; Region: Wzz; cl15801 657318006112 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 657318006113 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 657318006114 ParA/MinD ATPase like; Region: ParA; pfam10609 657318006115 Transcriptional regulator [Transcription]; Region: LytR; COG1316 657318006116 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657318006117 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 657318006118 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 657318006119 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 657318006120 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 657318006121 active site 657318006122 substrate binding site [chemical binding]; other site 657318006123 metal binding site [ion binding]; metal-binding site 657318006124 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 657318006125 Ligand binding site; other site 657318006126 Putative Catalytic site; other site 657318006127 DXD motif; other site 657318006128 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657318006129 AMP-binding enzyme; Region: AMP-binding; pfam00501 657318006130 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657318006131 acyl-activating enzyme (AAE) consensus motif; other site 657318006132 AMP binding site [chemical binding]; other site 657318006133 active site 657318006134 CoA binding site [chemical binding]; other site 657318006135 Phosphopantetheine attachment site; Region: PP-binding; cl09936 657318006136 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 657318006137 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 657318006138 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657318006139 catalytic residue [active] 657318006140 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 657318006141 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657318006142 UDP-galactopyranose mutase; Region: GLF; pfam03275 657318006143 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 657318006144 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 657318006145 DNA binding residues [nucleotide binding] 657318006146 dimer interface [polypeptide binding]; other site 657318006147 Methyltransferase domain; Region: Methyltransf_31; pfam13847 657318006148 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 657318006149 S-adenosylmethionine binding site [chemical binding]; other site 657318006150 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 657318006151 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 657318006152 substrate binding site; other site 657318006153 tetramer interface; other site 657318006154 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 657318006155 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 657318006156 NAD binding site [chemical binding]; other site 657318006157 substrate binding site [chemical binding]; other site 657318006158 homodimer interface [polypeptide binding]; other site 657318006159 active site 657318006160 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 657318006161 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 657318006162 NADP binding site [chemical binding]; other site 657318006163 active site 657318006164 putative substrate binding site [chemical binding]; other site 657318006165 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 657318006166 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 657318006167 Bacterial sugar transferase; Region: Bac_transf; cl00939 657318006168 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657318006169 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 657318006170 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657318006171 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 657318006172 active site 657318006173 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657318006174 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 657318006175 putative ADP-binding pocket [chemical binding]; other site 657318006176 O-Antigen ligase; Region: Wzy_C; pfam04932 657318006177 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 657318006178 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 657318006179 trimer interface [polypeptide binding]; other site 657318006180 active site 657318006181 substrate binding site [chemical binding]; other site 657318006182 CoA binding site [chemical binding]; other site 657318006183 putative glycosyl transferase; Provisional; Region: PRK10073 657318006184 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 657318006185 active site 657318006186 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 657318006187 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657318006188 Sulfatase; Region: Sulfatase; cl17466 657318006189 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657318006190 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 657318006191 active site 657318006192 metal binding site [ion binding]; metal-binding site 657318006193 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 657318006194 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657318006195 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 657318006196 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 657318006197 Predicted membrane protein [Function unknown]; Region: COG2246 657318006198 GtrA-like protein; Region: GtrA; pfam04138 657318006199 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 657318006200 TRC8 N-terminal domain; Region: TRC8_N; pfam13705 657318006201 CoA binding domain; Region: CoA_binding; cl17356 657318006202 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 657318006203 NAD(P) binding site [chemical binding]; other site 657318006204 homodimer interface [polypeptide binding]; other site 657318006205 substrate binding site [chemical binding]; other site 657318006206 active site 657318006207 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 657318006208 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 657318006209 inhibitor-cofactor binding pocket; inhibition site 657318006210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318006211 catalytic residue [active] 657318006212 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657318006213 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657318006214 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 657318006215 active site 657318006216 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 657318006217 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 657318006218 active site 657318006219 substrate binding site [chemical binding]; other site 657318006220 metal binding site [ion binding]; metal-binding site 657318006221 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 657318006222 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 657318006223 substrate binding site; other site 657318006224 dimerization interface; other site 657318006225 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657318006226 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 657318006227 protein binding site [polypeptide binding]; other site 657318006228 carbamate kinase; Reviewed; Region: PRK12686 657318006229 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 657318006230 putative substrate binding site [chemical binding]; other site 657318006231 nucleotide binding site [chemical binding]; other site 657318006232 nucleotide binding site [chemical binding]; other site 657318006233 homodimer interface [polypeptide binding]; other site 657318006234 oligoendopeptidase F; Region: pepF; TIGR00181 657318006235 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 657318006236 active site 657318006237 Zn binding site [ion binding]; other site 657318006238 S-ribosylhomocysteinase; Provisional; Region: PRK02260 657318006239 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 657318006240 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 657318006241 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 657318006242 NodB motif; other site 657318006243 active site 657318006244 catalytic site [active] 657318006245 metal binding site [ion binding]; metal-binding site 657318006246 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657318006247 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657318006248 Protein export membrane protein; Region: SecD_SecF; cl14618 657318006249 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 657318006250 Class I aldolases; Region: Aldolase_Class_I; cl17187 657318006251 catalytic residue [active] 657318006252 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 657318006253 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 657318006254 putative transporter; Provisional; Region: PRK10484 657318006255 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 657318006256 Na binding site [ion binding]; other site 657318006257 alpha-glucosidase; Provisional; Region: PRK10426 657318006258 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 657318006259 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 657318006260 putative active site [active] 657318006261 putative catalytic site [active] 657318006262 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 657318006263 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 657318006264 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657318006265 trimer interface [polypeptide binding]; other site 657318006266 substrate binding site [chemical binding]; other site 657318006267 Mn binding site [ion binding]; other site 657318006268 glycerol kinase; Provisional; Region: glpK; PRK00047 657318006269 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 657318006270 N- and C-terminal domain interface [polypeptide binding]; other site 657318006271 active site 657318006272 MgATP binding site [chemical binding]; other site 657318006273 catalytic site [active] 657318006274 metal binding site [ion binding]; metal-binding site 657318006275 glycerol binding site [chemical binding]; other site 657318006276 homotetramer interface [polypeptide binding]; other site 657318006277 homodimer interface [polypeptide binding]; other site 657318006278 FBP binding site [chemical binding]; other site 657318006279 protein IIAGlc interface [polypeptide binding]; other site 657318006280 Predicted dehydrogenase [General function prediction only]; Region: COG0579 657318006281 hydroxyglutarate oxidase; Provisional; Region: PRK11728 657318006282 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 657318006283 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 657318006284 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657318006285 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 657318006286 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 657318006287 putative DNA binding site [nucleotide binding]; other site 657318006288 putative Zn2+ binding site [ion binding]; other site 657318006289 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 657318006290 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657318006291 RelB antitoxin; Region: RelB; cl01171 657318006292 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 657318006293 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 657318006294 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657318006295 active site 657318006296 HIGH motif; other site 657318006297 nucleotide binding site [chemical binding]; other site 657318006298 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657318006299 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 657318006300 active site 657318006301 KMSKS motif; other site 657318006302 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 657318006303 tRNA binding surface [nucleotide binding]; other site 657318006304 anticodon binding site; other site 657318006305 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 657318006306 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 657318006307 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 657318006308 active site 657318006309 Protein of unknown function (DUF342); Region: DUF342; pfam03961 657318006310 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 657318006311 binding surface 657318006312 TPR motif; other site 657318006313 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 657318006314 anti sigma factor interaction site; other site 657318006315 regulatory phosphorylation site [posttranslational modification]; other site 657318006316 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 657318006317 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 657318006318 ATP binding site [chemical binding]; other site 657318006319 Mg2+ binding site [ion binding]; other site 657318006320 G-X-G motif; other site 657318006321 RNA polymerase sigma-F factor; Region: spore_sigF; TIGR02885 657318006322 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318006323 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 657318006324 DNA binding residues [nucleotide binding] 657318006325 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 657318006326 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 657318006327 motif II; other site 657318006328 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 657318006329 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 657318006330 transmembrane helices; other site 657318006331 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657318006332 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 657318006333 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 657318006334 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 657318006335 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 657318006336 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 657318006337 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 657318006338 synthetase active site [active] 657318006339 NTP binding site [chemical binding]; other site 657318006340 metal binding site [ion binding]; metal-binding site 657318006341 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 657318006342 Clp amino terminal domain; Region: Clp_N; pfam02861 657318006343 Clp amino terminal domain; Region: Clp_N; pfam02861 657318006344 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 657318006345 Walker A motif; other site 657318006346 ATP binding site [chemical binding]; other site 657318006347 Walker B motif; other site 657318006348 arginine finger; other site 657318006349 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 657318006350 Walker A motif; other site 657318006351 ATP binding site [chemical binding]; other site 657318006352 Walker B motif; other site 657318006353 arginine finger; other site 657318006354 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 657318006355 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318006356 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318006357 DNA binding site [nucleotide binding] 657318006358 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 657318006359 ligand binding site [chemical binding]; other site 657318006360 dimerization interface [polypeptide binding]; other site 657318006361 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 657318006362 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 657318006363 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657318006364 substrate binding site [chemical binding]; other site 657318006365 trimer interface [polypeptide binding]; other site 657318006366 Mn binding site [ion binding]; other site 657318006367 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 657318006368 N- and C-terminal domain interface [polypeptide binding]; other site 657318006369 D-xylulose kinase; Region: XylB; TIGR01312 657318006370 active site 657318006371 MgATP binding site [chemical binding]; other site 657318006372 catalytic site [active] 657318006373 metal binding site [ion binding]; metal-binding site 657318006374 xylulose binding site [chemical binding]; other site 657318006375 homodimer interface [polypeptide binding]; other site 657318006376 recombination factor protein RarA; Reviewed; Region: PRK13342 657318006377 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 657318006378 Walker A motif; other site 657318006379 ATP binding site [chemical binding]; other site 657318006380 Walker B motif; other site 657318006381 arginine finger; other site 657318006382 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 657318006383 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 657318006384 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 657318006385 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657318006386 catalytic residue [active] 657318006387 Type II/IV secretion system protein; Region: T2SE; pfam00437 657318006388 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 657318006389 Walker A motif; other site 657318006390 ATP binding site [chemical binding]; other site 657318006391 Walker B motif; other site 657318006392 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 657318006393 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 657318006394 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 657318006395 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 657318006396 active site 657318006397 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 657318006398 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 657318006399 active site 657318006400 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 657318006401 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 657318006402 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 657318006403 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 657318006404 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 657318006405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318006406 homodimer interface [polypeptide binding]; other site 657318006407 catalytic residue [active] 657318006408 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 657318006409 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 657318006410 G1 box; other site 657318006411 putative GEF interaction site [polypeptide binding]; other site 657318006412 GTP/Mg2+ binding site [chemical binding]; other site 657318006413 Switch I region; other site 657318006414 G2 box; other site 657318006415 G3 box; other site 657318006416 Switch II region; other site 657318006417 G4 box; other site 657318006418 G5 box; other site 657318006419 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 657318006420 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 657318006421 single-stranded DNA-binding protein; Provisional; Region: PRK05813 657318006422 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 657318006423 dimer interface [polypeptide binding]; other site 657318006424 ssDNA binding site [nucleotide binding]; other site 657318006425 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657318006426 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 657318006427 Walker A motif; other site 657318006428 ATP binding site [chemical binding]; other site 657318006429 Walker B motif; other site 657318006430 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 657318006431 dihydrodipicolinate synthase; Region: dapA; TIGR00674 657318006432 dimer interface [polypeptide binding]; other site 657318006433 active site 657318006434 catalytic residue [active] 657318006435 dihydrodipicolinate reductase; Provisional; Region: PRK00048 657318006436 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 657318006437 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 657318006438 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 657318006439 substrate binding site [chemical binding]; other site 657318006440 multimerization interface [polypeptide binding]; other site 657318006441 ATP binding site [chemical binding]; other site 657318006442 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 657318006443 thiamine phosphate binding site [chemical binding]; other site 657318006444 active site 657318006445 pyrophosphate binding site [ion binding]; other site 657318006446 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 657318006447 dimer interface [polypeptide binding]; other site 657318006448 substrate binding site [chemical binding]; other site 657318006449 ATP binding site [chemical binding]; other site 657318006450 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 657318006451 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 657318006452 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 657318006453 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 657318006454 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 657318006455 Mg2+ binding site [ion binding]; other site 657318006456 G-X-G motif; other site 657318006457 Response regulator receiver domain; Region: Response_reg; pfam00072 657318006458 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 657318006459 active site 657318006460 phosphorylation site [posttranslational modification] 657318006461 intermolecular recognition site; other site 657318006462 dimerization interface [polypeptide binding]; other site 657318006463 LytTr DNA-binding domain; Region: LytTR; pfam04397 657318006464 Bacterial transcriptional activator domain; Region: BTAD; smart01043 657318006465 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 657318006466 active site 657318006467 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 657318006468 Ligand binding site; other site 657318006469 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 657318006470 metal-binding site 657318006471 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 657318006472 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 657318006473 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 657318006474 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 657318006475 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 657318006476 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 657318006477 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 657318006478 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 657318006479 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 657318006480 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 657318006481 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 657318006482 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 657318006483 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 657318006484 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318006485 Zn2+ binding site [ion binding]; other site 657318006486 Mg2+ binding site [ion binding]; other site 657318006487 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318006488 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318006489 metal binding site [ion binding]; metal-binding site 657318006490 active site 657318006491 I-site; other site 657318006492 Uncharacterized conserved protein [Function unknown]; Region: COG5495 657318006493 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657318006494 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 657318006495 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 657318006496 oligomerization interface [polypeptide binding]; other site 657318006497 active site 657318006498 metal binding site [ion binding]; metal-binding site 657318006499 pantoate--beta-alanine ligase; Region: panC; TIGR00018 657318006500 Pantoate-beta-alanine ligase; Region: PanC; cd00560 657318006501 active site 657318006502 ATP-binding site [chemical binding]; other site 657318006503 pantoate-binding site; other site 657318006504 HXXH motif; other site 657318006505 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 657318006506 tetramerization interface [polypeptide binding]; other site 657318006507 active site 657318006508 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 657318006509 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657318006510 active site 657318006511 catalytic tetrad [active] 657318006512 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 657318006513 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 657318006514 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 657318006515 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 657318006516 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 657318006517 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 657318006518 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 657318006519 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 657318006520 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 657318006521 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 657318006522 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 657318006523 active site 657318006524 dimer interface [polypeptide binding]; other site 657318006525 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 657318006526 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 657318006527 FAD binding pocket [chemical binding]; other site 657318006528 FAD binding motif [chemical binding]; other site 657318006529 phosphate binding motif [ion binding]; other site 657318006530 beta-alpha-beta structure motif; other site 657318006531 NAD binding pocket [chemical binding]; other site 657318006532 Iron coordination center [ion binding]; other site 657318006533 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 657318006534 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 657318006535 heterodimer interface [polypeptide binding]; other site 657318006536 active site 657318006537 FMN binding site [chemical binding]; other site 657318006538 homodimer interface [polypeptide binding]; other site 657318006539 substrate binding site [chemical binding]; other site 657318006540 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 657318006541 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 657318006542 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 657318006543 dimer interface [polypeptide binding]; other site 657318006544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318006545 catalytic residue [active] 657318006546 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 657318006547 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 657318006548 substrate binding pocket [chemical binding]; other site 657318006549 membrane-bound complex binding site; other site 657318006550 hinge residues; other site 657318006551 sulfate transport protein; Provisional; Region: cysT; CHL00187 657318006552 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 657318006553 dimer interface [polypeptide binding]; other site 657318006554 conserved gate region; other site 657318006555 putative PBP binding loops; other site 657318006556 ABC-ATPase subunit interface; other site 657318006557 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 657318006558 dimer interface [polypeptide binding]; other site 657318006559 conserved gate region; other site 657318006560 ABC-ATPase subunit interface; other site 657318006561 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 657318006562 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 657318006563 Walker A/P-loop; other site 657318006564 ATP binding site [chemical binding]; other site 657318006565 Q-loop/lid; other site 657318006566 ABC transporter signature motif; other site 657318006567 Walker B; other site 657318006568 D-loop; other site 657318006569 H-loop/switch region; other site 657318006570 TOBE domain; Region: TOBE_2; pfam08402 657318006571 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 657318006572 L-aspartate oxidase; Provisional; Region: PRK06175 657318006573 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 657318006574 Ferredoxin [Energy production and conversion]; Region: COG1146 657318006575 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657318006576 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 657318006577 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 657318006578 Active Sites [active] 657318006579 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 657318006580 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 657318006581 CysD dimerization site [polypeptide binding]; other site 657318006582 G1 box; other site 657318006583 putative GEF interaction site [polypeptide binding]; other site 657318006584 GTP/Mg2+ binding site [chemical binding]; other site 657318006585 Switch I region; other site 657318006586 G2 box; other site 657318006587 G3 box; other site 657318006588 Switch II region; other site 657318006589 G4 box; other site 657318006590 G5 box; other site 657318006591 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 657318006592 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 657318006593 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657318006594 active site 657318006595 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 657318006596 AIR carboxylase; Region: AIRC; cl00310 657318006597 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657318006598 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 657318006599 TPR motif; other site 657318006600 binding surface 657318006601 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657318006602 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318006603 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318006604 metal binding site [ion binding]; metal-binding site 657318006605 active site 657318006606 I-site; other site 657318006607 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657318006608 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 657318006609 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657318006610 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 657318006611 active site 657318006612 intersubunit interactions; other site 657318006613 catalytic residue [active] 657318006614 transketolase; Reviewed; Region: PRK05899 657318006615 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 657318006616 TPP-binding site [chemical binding]; other site 657318006617 dimer interface [polypeptide binding]; other site 657318006618 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 657318006619 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 657318006620 PYR/PP interface [polypeptide binding]; other site 657318006621 dimer interface [polypeptide binding]; other site 657318006622 TPP binding site [chemical binding]; other site 657318006623 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657318006624 Predicted transcriptional regulator [Transcription]; Region: COG4189 657318006625 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 657318006626 dimerization interface [polypeptide binding]; other site 657318006627 putative DNA binding site [nucleotide binding]; other site 657318006628 putative Zn2+ binding site [ion binding]; other site 657318006629 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 657318006630 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 657318006631 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 657318006632 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 657318006633 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 657318006634 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 657318006635 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657318006636 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318006637 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657318006638 active site 657318006639 NTP binding site [chemical binding]; other site 657318006640 metal binding triad [ion binding]; metal-binding site 657318006641 antibiotic binding site [chemical binding]; other site 657318006642 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 657318006643 ATP binding site [chemical binding]; other site 657318006644 Mg2+ binding site [ion binding]; other site 657318006645 G-X-G motif; other site 657318006646 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657318006647 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 657318006648 active site 657318006649 phosphorylation site [posttranslational modification] 657318006650 intermolecular recognition site; other site 657318006651 dimerization interface [polypeptide binding]; other site 657318006652 LytTr DNA-binding domain; Region: LytTR; pfam04397 657318006653 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318006654 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 657318006655 sequence-specific DNA binding site [nucleotide binding]; other site 657318006656 salt bridge; other site 657318006657 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 657318006658 Accessory gene regulator B; Region: AgrB; pfam04647 657318006659 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318006660 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 657318006661 Walker A/P-loop; other site 657318006662 ATP binding site [chemical binding]; other site 657318006663 Q-loop/lid; other site 657318006664 ABC transporter signature motif; other site 657318006665 Walker B; other site 657318006666 D-loop; other site 657318006667 H-loop/switch region; other site 657318006668 Protein of unknown function (DUF419); Region: DUF419; pfam04237 657318006669 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 657318006670 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 657318006671 active site 657318006672 DNA binding site [nucleotide binding] 657318006673 Predicted membrane protein [General function prediction only]; Region: COG4194 657318006674 Predicted transcriptional regulators [Transcription]; Region: COG1725 657318006675 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318006676 DNA-binding site [nucleotide binding]; DNA binding site 657318006677 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 657318006678 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318006679 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318006680 metal binding site [ion binding]; metal-binding site 657318006681 active site 657318006682 I-site; other site 657318006683 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 657318006684 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 657318006685 active site 657318006686 NAD binding site [chemical binding]; other site 657318006687 metal binding site [ion binding]; metal-binding site 657318006688 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 657318006689 homodimer interaction site [polypeptide binding]; other site 657318006690 cofactor binding site; other site 657318006691 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657318006692 active site 657318006693 stage V sporulation protein AD; Validated; Region: PRK08304 657318006694 stage V sporulation protein AD; Provisional; Region: PRK12404 657318006695 SpoVA protein; Region: SpoVA; pfam03862 657318006696 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 657318006697 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 657318006698 sequence-specific DNA binding site [nucleotide binding]; other site 657318006699 salt bridge; other site 657318006700 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 657318006701 active site 657318006702 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657318006703 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657318006704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318006705 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318006706 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 657318006707 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 657318006708 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 657318006709 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 657318006710 binding surface 657318006711 TPR motif; other site 657318006712 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 657318006713 binding surface 657318006714 TPR motif; other site 657318006715 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 657318006716 binding surface 657318006717 TPR motif; other site 657318006718 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 657318006719 binding surface 657318006720 TPR motif; other site 657318006721 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 657318006722 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 657318006723 HflX GTPase family; Region: HflX; cd01878 657318006724 G1 box; other site 657318006725 GTP/Mg2+ binding site [chemical binding]; other site 657318006726 Switch I region; other site 657318006727 G2 box; other site 657318006728 G3 box; other site 657318006729 Switch II region; other site 657318006730 G4 box; other site 657318006731 G5 box; other site 657318006732 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 657318006733 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 657318006734 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 657318006735 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 657318006736 HsdM N-terminal domain; Region: HsdM_N; pfam12161 657318006737 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 657318006738 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657318006739 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657318006740 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657318006741 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 657318006742 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657318006743 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 657318006744 active site 657318006745 DNA binding site [nucleotide binding] 657318006746 Int/Topo IB signature motif; other site 657318006747 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657318006748 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657318006749 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657318006750 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318006751 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318006752 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 657318006753 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 657318006754 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 657318006755 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 657318006756 ATP binding site [chemical binding]; other site 657318006757 putative Mg++ binding site [ion binding]; other site 657318006758 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 657318006759 nucleotide binding region [chemical binding]; other site 657318006760 ATP-binding site [chemical binding]; other site 657318006761 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 657318006762 nudix motif; other site 657318006763 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657318006764 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 657318006765 active site 657318006766 HIGH motif; other site 657318006767 nucleotide binding site [chemical binding]; other site 657318006768 Isochorismatase family; Region: Isochorismatase; pfam00857 657318006769 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 657318006770 catalytic triad [active] 657318006771 conserved cis-peptide bond; other site 657318006772 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 657318006773 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 657318006774 active site 657318006775 NAD synthetase; Reviewed; Region: nadE; PRK02628 657318006776 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 657318006777 multimer interface [polypeptide binding]; other site 657318006778 active site 657318006779 catalytic triad [active] 657318006780 protein interface 1 [polypeptide binding]; other site 657318006781 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 657318006782 homodimer interface [polypeptide binding]; other site 657318006783 NAD binding pocket [chemical binding]; other site 657318006784 ATP binding pocket [chemical binding]; other site 657318006785 Mg binding site [ion binding]; other site 657318006786 active-site loop [active] 657318006787 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657318006788 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318006789 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657318006790 Walker A/P-loop; other site 657318006791 ATP binding site [chemical binding]; other site 657318006792 Q-loop/lid; other site 657318006793 ABC transporter signature motif; other site 657318006794 Walker B; other site 657318006795 D-loop; other site 657318006796 H-loop/switch region; other site 657318006797 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657318006798 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318006799 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318006800 Walker A/P-loop; other site 657318006801 ATP binding site [chemical binding]; other site 657318006802 Q-loop/lid; other site 657318006803 ABC transporter signature motif; other site 657318006804 Walker B; other site 657318006805 D-loop; other site 657318006806 H-loop/switch region; other site 657318006807 MarR family; Region: MarR_2; pfam12802 657318006808 MarR family; Region: MarR_2; cl17246 657318006809 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 657318006810 ATP cone domain; Region: ATP-cone; pfam03477 657318006811 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657318006812 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 657318006813 Na binding site [ion binding]; other site 657318006814 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 657318006815 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657318006816 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657318006817 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 657318006818 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 657318006819 active site 657318006820 catalytic triad [active] 657318006821 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657318006822 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 657318006823 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318006824 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318006825 Walker A/P-loop; other site 657318006826 ATP binding site [chemical binding]; other site 657318006827 Q-loop/lid; other site 657318006828 ABC transporter signature motif; other site 657318006829 Walker B; other site 657318006830 D-loop; other site 657318006831 H-loop/switch region; other site 657318006832 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657318006833 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657318006834 HlyD family secretion protein; Region: HlyD_3; pfam13437 657318006835 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657318006836 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657318006837 FtsX-like permease family; Region: FtsX; pfam02687 657318006838 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 657318006839 4Fe-4S binding domain; Region: Fer4; pfam00037 657318006840 4Fe-4S binding domain; Region: Fer4; pfam00037 657318006841 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657318006842 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 657318006843 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 657318006844 NodB motif; other site 657318006845 active site 657318006846 catalytic site [active] 657318006847 Zn binding site [ion binding]; other site 657318006848 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 657318006849 DNA-binding site [nucleotide binding]; DNA binding site 657318006850 RNA-binding motif; other site 657318006851 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 657318006852 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 657318006853 active site 657318006854 metal binding site [ion binding]; metal-binding site 657318006855 EDD domain protein, DegV family; Region: DegV; TIGR00762 657318006856 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657318006857 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 657318006858 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657318006859 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657318006860 Predicted membrane protein [Function unknown]; Region: COG1511 657318006861 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 657318006862 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 657318006863 Predicted membrane protein [Function unknown]; Region: COG1511 657318006864 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 657318006865 FlxA-like protein; Region: FlxA; pfam14282 657318006866 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 657318006867 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 657318006868 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 657318006869 homodimer interface [polypeptide binding]; other site 657318006870 substrate-cofactor binding pocket; other site 657318006871 catalytic residue [active] 657318006872 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 657318006873 amidase catalytic site [active] 657318006874 Zn binding residues [ion binding]; other site 657318006875 substrate binding site [chemical binding]; other site 657318006876 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 657318006877 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318006878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318006879 metal binding site [ion binding]; metal-binding site 657318006880 active site 657318006881 I-site; other site 657318006882 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 657318006883 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318006884 Walker A/P-loop; other site 657318006885 ATP binding site [chemical binding]; other site 657318006886 Q-loop/lid; other site 657318006887 ABC transporter signature motif; other site 657318006888 Walker B; other site 657318006889 D-loop; other site 657318006890 H-loop/switch region; other site 657318006891 Predicted transcriptional regulators [Transcription]; Region: COG1695 657318006892 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 657318006893 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 657318006894 putative metal binding site [ion binding]; other site 657318006895 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 657318006896 non-specific DNA binding site [nucleotide binding]; other site 657318006897 salt bridge; other site 657318006898 sequence-specific DNA binding site [nucleotide binding]; other site 657318006899 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657318006900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318006901 Coenzyme A binding pocket [chemical binding]; other site 657318006902 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 657318006903 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 657318006904 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657318006905 catalytic residue [active] 657318006906 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 657318006907 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318006908 Zn2+ binding site [ion binding]; other site 657318006909 Mg2+ binding site [ion binding]; other site 657318006910 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 657318006911 DNA primase; Validated; Region: dnaG; PRK05667 657318006912 CHC2 zinc finger; Region: zf-CHC2; pfam01807 657318006913 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 657318006914 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 657318006915 active site 657318006916 metal binding site [ion binding]; metal-binding site 657318006917 interdomain interaction site; other site 657318006918 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 657318006919 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 657318006920 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 657318006921 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318006922 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657318006923 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 657318006924 DNA binding residues [nucleotide binding] 657318006925 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 657318006926 Family of unknown function (DUF633); Region: DUF633; pfam04816 657318006927 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 657318006928 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 657318006929 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 657318006930 active site 657318006931 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 657318006932 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 657318006933 HSP70 interaction site [polypeptide binding]; other site 657318006934 Mitochondria Fission Protein Fis1, cytosolic domain; Region: Fis1; cd12212 657318006935 Bacterial PH domain; Region: DUF304; pfam03703 657318006936 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 657318006937 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657318006938 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657318006939 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 657318006940 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 657318006941 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 657318006942 primosome assembly protein PriA; Validated; Region: PRK05580 657318006943 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 657318006944 ATP binding site [chemical binding]; other site 657318006945 putative Mg++ binding site [ion binding]; other site 657318006946 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657318006947 ATP-binding site [chemical binding]; other site 657318006948 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 657318006949 active site 657318006950 catalytic residues [active] 657318006951 metal binding site [ion binding]; metal-binding site 657318006952 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 657318006953 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 657318006954 putative active site [active] 657318006955 substrate binding site [chemical binding]; other site 657318006956 putative cosubstrate binding site; other site 657318006957 catalytic site [active] 657318006958 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 657318006959 substrate binding site [chemical binding]; other site 657318006960 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 657318006961 16S rRNA methyltransferase B; Provisional; Region: PRK14902 657318006962 NusB family; Region: NusB; pfam01029 657318006963 putative RNA binding site [nucleotide binding]; other site 657318006964 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 657318006965 S-adenosylmethionine binding site [chemical binding]; other site 657318006966 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 657318006967 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 657318006968 FeS/SAM binding site; other site 657318006969 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 657318006970 Protein phosphatase 2C; Region: PP2C; pfam00481 657318006971 active site 657318006972 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 657318006973 Catalytic domain of Protein Kinases; Region: PKc; cd00180 657318006974 active site 657318006975 ATP binding site [chemical binding]; other site 657318006976 substrate binding site [chemical binding]; other site 657318006977 activation loop (A-loop); other site 657318006978 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 657318006979 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 657318006980 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 657318006981 GTPase RsgA; Reviewed; Region: PRK00098 657318006982 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 657318006983 RNA binding site [nucleotide binding]; other site 657318006984 homodimer interface [polypeptide binding]; other site 657318006985 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 657318006986 GTPase/Zn-binding domain interface [polypeptide binding]; other site 657318006987 GTP/Mg2+ binding site [chemical binding]; other site 657318006988 G4 box; other site 657318006989 G5 box; other site 657318006990 G1 box; other site 657318006991 Switch I region; other site 657318006992 G2 box; other site 657318006993 G3 box; other site 657318006994 Switch II region; other site 657318006995 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 657318006996 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 657318006997 substrate binding site [chemical binding]; other site 657318006998 hexamer interface [polypeptide binding]; other site 657318006999 metal binding site [ion binding]; metal-binding site 657318007000 Thiamine pyrophosphokinase; Region: TPK; cd07995 657318007001 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 657318007002 active site 657318007003 dimerization interface [polypeptide binding]; other site 657318007004 thiamine binding site [chemical binding]; other site 657318007005 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657318007006 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657318007007 metal binding site [ion binding]; metal-binding site 657318007008 active site 657318007009 I-site; other site 657318007010 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 657318007011 Sterol carrier protein domain; Region: SCP2_2; pfam13530 657318007012 EDD domain protein, DegV family; Region: DegV; TIGR00762 657318007013 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657318007014 2-isopropylmalate synthase; Validated; Region: PRK03739 657318007015 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 657318007016 active site 657318007017 catalytic residues [active] 657318007018 metal binding site [ion binding]; metal-binding site 657318007019 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 657318007020 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318007021 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318007022 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 657318007023 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 657318007024 NAD binding site [chemical binding]; other site 657318007025 dimer interface [polypeptide binding]; other site 657318007026 substrate binding site [chemical binding]; other site 657318007027 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657318007028 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 657318007029 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 657318007030 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 657318007031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318007032 homodimer interface [polypeptide binding]; other site 657318007033 catalytic residue [active] 657318007034 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 657318007035 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 657318007036 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 657318007037 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657318007038 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318007039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318007040 Walker A/P-loop; other site 657318007041 ATP binding site [chemical binding]; other site 657318007042 Q-loop/lid; other site 657318007043 ABC transporter signature motif; other site 657318007044 Walker B; other site 657318007045 D-loop; other site 657318007046 H-loop/switch region; other site 657318007047 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657318007048 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318007049 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657318007050 Walker A/P-loop; other site 657318007051 ATP binding site [chemical binding]; other site 657318007052 Q-loop/lid; other site 657318007053 ABC transporter signature motif; other site 657318007054 Walker B; other site 657318007055 D-loop; other site 657318007056 H-loop/switch region; other site 657318007057 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 657318007058 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 657318007059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 657318007060 6-phosphofructokinase; Provisional; Region: PRK14072 657318007061 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657318007062 active site 657318007063 ADP/pyrophosphate binding site [chemical binding]; other site 657318007064 dimerization interface [polypeptide binding]; other site 657318007065 allosteric effector site; other site 657318007066 fructose-1,6-bisphosphate binding site; other site 657318007067 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 657318007068 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 657318007069 FeS/SAM binding site; other site 657318007070 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 657318007071 putative dimer interface [polypeptide binding]; other site 657318007072 catalytic triad [active] 657318007073 Predicted secreted protein [Function unknown]; Region: COG4086 657318007074 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 657318007075 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 657318007076 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 657318007077 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 657318007078 DNA repair protein RadA; Provisional; Region: PRK11823 657318007079 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 657318007080 Walker A motif/ATP binding site; other site 657318007081 ATP binding site [chemical binding]; other site 657318007082 Walker B motif; other site 657318007083 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657318007084 TFIIF-interacting CTD phosphatases, including NLI-interacting factor [Transcription]; Region: FCP1; COG5190 657318007085 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 657318007086 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657318007087 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 657318007088 active site 657318007089 phosphorylation site [posttranslational modification] 657318007090 intermolecular recognition site; other site 657318007091 dimerization interface [polypeptide binding]; other site 657318007092 LytTr DNA-binding domain; Region: LytTR; pfam04397 657318007093 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657318007094 ATP binding site [chemical binding]; other site 657318007095 Mg2+ binding site [ion binding]; other site 657318007096 G-X-G motif; other site 657318007097 Domain of unknown function, E. rectale Gene description (DUF3879); Region: DUF3879; pfam12995 657318007098 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 657318007099 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657318007100 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657318007101 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 657318007102 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 657318007103 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 657318007104 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 657318007105 Isochorismatase family; Region: Isochorismatase; pfam00857 657318007106 catalytic triad [active] 657318007107 conserved cis-peptide bond; other site 657318007108 flavodoxin; Provisional; Region: PRK06242 657318007109 Chromate transporter; Region: Chromate_transp; pfam02417 657318007110 Chromate transporter; Region: Chromate_transp; pfam02417 657318007111 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657318007112 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657318007113 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657318007114 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657318007115 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 657318007116 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657318007117 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 657318007118 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 657318007119 putative substrate binding site [chemical binding]; other site 657318007120 putative ATP binding site [chemical binding]; other site 657318007121 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 657318007122 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 657318007123 active site 657318007124 phosphorylation site [posttranslational modification] 657318007125 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 657318007126 active site 657318007127 P-loop; other site 657318007128 phosphorylation site [posttranslational modification] 657318007129 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 657318007130 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 657318007131 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 657318007132 nucleotide binding site [chemical binding]; other site 657318007133 NEF interaction site [polypeptide binding]; other site 657318007134 SBD interface [polypeptide binding]; other site 657318007135 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318007136 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 657318007137 active site 657318007138 phosphorylation site [posttranslational modification] 657318007139 intermolecular recognition site; other site 657318007140 dimerization interface [polypeptide binding]; other site 657318007141 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 657318007142 DNA binding site [nucleotide binding] 657318007143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318007144 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 657318007145 dimer interface [polypeptide binding]; other site 657318007146 phosphorylation site [posttranslational modification] 657318007147 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 657318007148 ATP binding site [chemical binding]; other site 657318007149 Mg2+ binding site [ion binding]; other site 657318007150 G-X-G motif; other site 657318007151 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 657318007152 Domain of unknown function DUF20; Region: UPF0118; pfam01594 657318007153 glycogen branching enzyme; Provisional; Region: PRK12313 657318007154 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 657318007155 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 657318007156 active site 657318007157 catalytic site [active] 657318007158 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 657318007159 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657318007160 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 657318007161 active site 657318007162 metal binding site [ion binding]; metal-binding site 657318007163 Bacterial SH3 domain homologues; Region: SH3b; smart00287 657318007164 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 657318007165 active site 657318007166 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 657318007167 Catalytic domain of Protein Kinases; Region: PKc; cd00180 657318007168 active site 657318007169 ATP binding site [chemical binding]; other site 657318007170 substrate binding site [chemical binding]; other site 657318007171 activation loop (A-loop); other site 657318007172 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 657318007173 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 657318007174 flagellin; Provisional; Region: PRK12806 657318007175 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 657318007176 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 657318007177 Flagellar protein FliS; Region: FliS; cl00654 657318007178 AAA domain; Region: AAA_31; pfam13614 657318007179 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 657318007180 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 657318007181 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 657318007182 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 657318007183 phosphopeptide binding site; other site 657318007184 SCP-2 sterol transfer family; Region: SCP2; pfam02036 657318007185 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 657318007186 HIT family signature motif; other site 657318007187 catalytic residue [active] 657318007188 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 657318007189 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 657318007190 active site 657318007191 homodimer interface [polypeptide binding]; other site 657318007192 Bacterial SH3 domain; Region: SH3_3; pfam08239 657318007193 Bacterial SH3 domain; Region: SH3_3; cl17532 657318007194 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 657318007195 ornithine carbamoyltransferase; Validated; Region: PRK02102 657318007196 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657318007197 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657318007198 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 657318007199 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657318007200 DNA-binding site [nucleotide binding]; DNA binding site 657318007201 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 657318007202 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 657318007203 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657318007204 nucleotide binding site [chemical binding]; other site 657318007205 Type III pantothenate kinase; Region: Pan_kinase; cl17198 657318007206 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 657318007207 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 657318007208 FMN binding site [chemical binding]; other site 657318007209 active site 657318007210 catalytic residues [active] 657318007211 substrate binding site [chemical binding]; other site 657318007212 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 657318007213 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 657318007214 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 657318007215 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 657318007216 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 657318007217 dimer interface [polypeptide binding]; other site 657318007218 putative anticodon binding site; other site 657318007219 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 657318007220 motif 1; other site 657318007221 active site 657318007222 motif 2; other site 657318007223 motif 3; other site 657318007224 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 657318007225 dimer interface [polypeptide binding]; other site 657318007226 putative tRNA-binding site [nucleotide binding]; other site 657318007227 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657318007228 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 657318007229 active site 657318007230 metal binding site [ion binding]; metal-binding site 657318007231 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 657318007232 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318007233 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318007234 Walker A/P-loop; other site 657318007235 ATP binding site [chemical binding]; other site 657318007236 Q-loop/lid; other site 657318007237 ABC transporter signature motif; other site 657318007238 Walker B; other site 657318007239 D-loop; other site 657318007240 H-loop/switch region; other site 657318007241 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657318007242 FtsX-like permease family; Region: FtsX; pfam02687 657318007243 FtsX-like permease family; Region: FtsX; pfam02687 657318007244 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318007245 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 657318007246 active site 657318007247 phosphorylation site [posttranslational modification] 657318007248 intermolecular recognition site; other site 657318007249 dimerization interface [polypeptide binding]; other site 657318007250 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 657318007251 DNA binding site [nucleotide binding] 657318007252 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657318007253 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 657318007254 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657318007255 Int/Topo IB signature motif; other site 657318007256 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 657318007257 dimer interface [polypeptide binding]; other site 657318007258 putative tRNA-binding site [nucleotide binding]; other site 657318007259 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 657318007260 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 657318007261 DNA binding residues [nucleotide binding] 657318007262 dimer interface [polypeptide binding]; other site 657318007263 hypothetical protein; Validated; Region: PRK07668 657318007264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318007265 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 657318007266 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 657318007267 ATP binding site [chemical binding]; other site 657318007268 putative Mg++ binding site [ion binding]; other site 657318007269 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 657318007270 nucleotide binding region [chemical binding]; other site 657318007271 ATP-binding site [chemical binding]; other site 657318007272 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 657318007273 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 657318007274 DNA binding residues [nucleotide binding] 657318007275 Helix-turn-helix domain; Region: HTH_36; pfam13730 657318007276 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 657318007277 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 657318007278 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 657318007279 Walker A motif; other site 657318007280 ATP binding site [chemical binding]; other site 657318007281 Walker B motif; other site 657318007282 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 657318007283 Helix-turn-helix domain; Region: HTH_17; pfam12728 657318007284 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 657318007285 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318007286 non-specific DNA binding site [nucleotide binding]; other site 657318007287 salt bridge; other site 657318007288 sequence-specific DNA binding site [nucleotide binding]; other site 657318007289 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318007290 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 657318007291 non-specific DNA binding site [nucleotide binding]; other site 657318007292 salt bridge; other site 657318007293 sequence-specific DNA binding site [nucleotide binding]; other site 657318007294 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318007295 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 657318007296 non-specific DNA binding site [nucleotide binding]; other site 657318007297 salt bridge; other site 657318007298 sequence-specific DNA binding site [nucleotide binding]; other site 657318007299 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657318007300 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657318007301 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 657318007302 DNA binding residues [nucleotide binding] 657318007303 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 657318007304 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 657318007305 active site 657318007306 catalytic site [active] 657318007307 substrate binding site [chemical binding]; other site 657318007308 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 657318007309 active site 657318007310 DNA binding site [nucleotide binding] 657318007311 catalytic site [active] 657318007312 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657318007313 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 657318007314 Recombination protein U; Region: RecU; cl01314 657318007315 Stage III sporulation protein D; Region: SpoIIID; cl17560 657318007316 AAA domain; Region: AAA_33; pfam13671 657318007317 L-seryl-tRNA(Sec) kinase, eukaryotic; Region: selen_PSTK_euk; TIGR03575 657318007318 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 657318007319 recombinase A; Provisional; Region: recA; PRK09354 657318007320 Walker A motif; other site 657318007321 ATP binding site [chemical binding]; other site 657318007322 Walker B motif; other site 657318007323 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318007324 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 657318007325 non-specific DNA binding site [nucleotide binding]; other site 657318007326 salt bridge; other site 657318007327 sequence-specific DNA binding site [nucleotide binding]; other site 657318007328 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 657318007329 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u2; cd11539 657318007330 metal binding site [ion binding]; metal-binding site 657318007331 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 657318007332 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 657318007333 N-acetyl-D-glucosamine binding site [chemical binding]; other site 657318007334 catalytic residue [active] 657318007335 Uncharacterized protein containing a Zn-ribbon (DUF2116); Region: DUF2116; cl01683 657318007336 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 657318007337 ParB-like nuclease domain; Region: ParBc; pfam02195 657318007338 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 657318007339 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 657318007340 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 657318007341 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 657318007342 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 657318007343 Dfp1/Him1, central region; Region: Dfp1_Him1_M; pfam08630 657318007344 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 657318007345 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 657318007346 Phage XkdN-like protein; Region: XkdN; pfam08890 657318007347 Phage-related protein [Function unknown]; Region: COG5412 657318007348 membrane protein P6; Region: PHA01399 657318007349 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 657318007350 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 657318007351 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 657318007352 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 657318007353 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 657318007354 putative active site [active] 657318007355 putative NTP binding site [chemical binding]; other site 657318007356 putative nucleic acid binding site [nucleotide binding]; other site 657318007357 Bacteriophage holin; Region: Phage_holin_1; cl02344 657318007358 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 657318007359 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657318007360 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657318007361 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 657318007362 catalytic residues [active] 657318007363 catalytic nucleophile [active] 657318007364 Recombinase; Region: Recombinase; pfam07508 657318007365 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657318007366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318007367 Walker A/P-loop; other site 657318007368 ATP binding site [chemical binding]; other site 657318007369 ABC transporter; Region: ABC_tran; pfam00005 657318007370 Q-loop/lid; other site 657318007371 ABC transporter signature motif; other site 657318007372 Walker B; other site 657318007373 D-loop; other site 657318007374 H-loop/switch region; other site 657318007375 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 657318007376 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657318007377 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 657318007378 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657318007379 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657318007380 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 657318007381 active site 657318007382 phosphorylation site [posttranslational modification] 657318007383 intermolecular recognition site; other site 657318007384 dimerization interface [polypeptide binding]; other site 657318007385 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 657318007386 DNA binding site [nucleotide binding] 657318007387 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657318007388 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 657318007389 dimer interface [polypeptide binding]; other site 657318007390 phosphorylation site [posttranslational modification] 657318007391 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 657318007392 ATP binding site [chemical binding]; other site 657318007393 Mg2+ binding site [ion binding]; other site 657318007394 G-X-G motif; other site 657318007395 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 657318007396 dimer interface [polypeptide binding]; other site 657318007397 putative tRNA-binding site [nucleotide binding]; other site 657318007398 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 657318007399 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657318007400 septum formation inhibitor; Reviewed; Region: minC; PRK00513 657318007401 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 657318007402 septum site-determining protein MinD; Region: minD_bact; TIGR01968 657318007403 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 657318007404 Switch I; other site 657318007405 Switch II; other site 657318007406 Septum formation topological specificity factor MinE; Region: MinE; cl00538 657318007407 hypothetical protein; Provisional; Region: PRK09609 657318007408 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657318007409 acetylornithine aminotransferase; Provisional; Region: PRK02627 657318007410 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 657318007411 inhibitor-cofactor binding pocket; inhibition site 657318007412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318007413 catalytic residue [active] 657318007414 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657318007415 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 657318007416 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 657318007417 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 657318007418 active site 657318007419 NAD binding site [chemical binding]; other site 657318007420 metal binding site [ion binding]; metal-binding site 657318007421 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 657318007422 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 657318007423 non-specific DNA binding site [nucleotide binding]; other site 657318007424 salt bridge; other site 657318007425 sequence-specific DNA binding site [nucleotide binding]; other site 657318007426 Cupin domain; Region: Cupin_2; pfam07883 657318007427 Helix-turn-helix domain; Region: HTH_17; cl17695 657318007428 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318007429 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318007430 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657318007431 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657318007432 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 657318007433 Walker A/P-loop; other site 657318007434 ATP binding site [chemical binding]; other site 657318007435 Q-loop/lid; other site 657318007436 ABC transporter signature motif; other site 657318007437 Walker B; other site 657318007438 D-loop; other site 657318007439 H-loop/switch region; other site 657318007440 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 657318007441 active site 657318007442 motif I; other site 657318007443 motif II; other site 657318007444 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 657318007445 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 657318007446 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 657318007447 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 657318007448 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 657318007449 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 657318007450 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 657318007451 FliW protein; Region: FliW; cl00740 657318007452 Global regulator protein family; Region: CsrA; pfam02599 657318007453 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657318007454 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657318007455 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 657318007456 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 657318007457 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 657318007458 Low molecular weight phosphatase family; Region: LMWPc; cl00105 657318007459 active site 657318007460 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657318007461 active site 657318007462 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 657318007463 catalytic motif [active] 657318007464 Zn binding site [ion binding]; other site 657318007465 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 657318007466 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 657318007467 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 657318007468 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657318007469 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 657318007470 beta subunit interaction interface [polypeptide binding]; other site 657318007471 Walker A motif; other site 657318007472 ATP binding site [chemical binding]; other site 657318007473 Walker B motif; other site 657318007474 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657318007475 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 657318007476 core domain interface [polypeptide binding]; other site 657318007477 delta subunit interface [polypeptide binding]; other site 657318007478 epsilon subunit interface [polypeptide binding]; other site 657318007479 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 657318007480 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657318007481 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 657318007482 alpha subunit interaction interface [polypeptide binding]; other site 657318007483 Walker A motif; other site 657318007484 ATP binding site [chemical binding]; other site 657318007485 Walker B motif; other site 657318007486 inhibitor binding site; inhibition site 657318007487 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657318007488 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 657318007489 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 657318007490 gamma subunit interface [polypeptide binding]; other site 657318007491 epsilon subunit interface [polypeptide binding]; other site 657318007492 LBP interface [polypeptide binding]; other site 657318007493 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318007494 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318007495 Cupin domain; Region: Cupin_2; cl17218 657318007496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318007497 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318007498 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family; Region: bind_CPR_0540; TIGR03850 657318007499 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657318007500 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 657318007501 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657318007502 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318007503 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 657318007504 dimer interface [polypeptide binding]; other site 657318007505 conserved gate region; other site 657318007506 putative PBP binding loops; other site 657318007507 ABC-ATPase subunit interface; other site 657318007508 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 657318007509 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 657318007510 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 657318007511 active site 657318007512 Phosphotransferase enzyme family; Region: APH; pfam01636 657318007513 3H domain; Region: 3H; pfam02829 657318007514 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 657318007515 active site 657318007516 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 657318007517 dimer interface [polypeptide binding]; other site 657318007518 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 657318007519 Ligand Binding Site [chemical binding]; other site 657318007520 Molecular Tunnel; other site 657318007521 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318007522 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318007523 Walker A/P-loop; other site 657318007524 ATP binding site [chemical binding]; other site 657318007525 Q-loop/lid; other site 657318007526 ABC transporter signature motif; other site 657318007527 Walker B; other site 657318007528 D-loop; other site 657318007529 H-loop/switch region; other site 657318007530 FtsX-like permease family; Region: FtsX; pfam02687 657318007531 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 657318007532 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657318007533 FtsX-like permease family; Region: FtsX; pfam02687 657318007534 HAMP domain; Region: HAMP; pfam00672 657318007535 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657318007536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657318007537 dimer interface [polypeptide binding]; other site 657318007538 putative CheW interface [polypeptide binding]; other site 657318007539 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657318007540 Coenzyme A binding pocket [chemical binding]; other site 657318007541 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 657318007542 AAA domain; Region: AAA_12; pfam13087 657318007543 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 657318007544 Toxin ToxN, type III toxin-antitoxin system; Region: ToxN_toxin; pfam13958 657318007545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 657318007546 active site 657318007547 phosphorylation site [posttranslational modification] 657318007548 intermolecular recognition site; other site 657318007549 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 657318007550 putative active site [active] 657318007551 nucleotide binding site [chemical binding]; other site 657318007552 nudix motif; other site 657318007553 putative metal binding site [ion binding]; other site 657318007554 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 657318007555 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 657318007556 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318007557 Walker A/P-loop; other site 657318007558 ATP binding site [chemical binding]; other site 657318007559 Q-loop/lid; other site 657318007560 ABC transporter signature motif; other site 657318007561 Walker B; other site 657318007562 D-loop; other site 657318007563 H-loop/switch region; other site 657318007564 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657318007565 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 657318007566 TM-ABC transporter signature motif; other site 657318007567 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 657318007568 zinc binding site [ion binding]; other site 657318007569 putative ligand binding site [chemical binding]; other site 657318007570 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 657318007571 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 657318007572 active site 657318007573 HIGH motif; other site 657318007574 dimer interface [polypeptide binding]; other site 657318007575 KMSKS motif; other site 657318007576 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 657318007577 RNA binding surface [nucleotide binding]; other site 657318007578 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 657318007579 Sodium Bile acid symporter family; Region: SBF; pfam01758 657318007580 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 657318007581 Carbon starvation protein CstA; Region: CstA; pfam02554 657318007582 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 657318007583 EDD domain protein, DegV family; Region: DegV; TIGR00762 657318007584 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657318007585 endonuclease IV; Provisional; Region: PRK01060 657318007586 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 657318007587 AP (apurinic/apyrimidinic) site pocket; other site 657318007588 DNA interaction; other site 657318007589 Metal-binding active site; metal-binding site 657318007590 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 657318007591 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 657318007592 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 657318007593 putative active site [active] 657318007594 catalytic site [active] 657318007595 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 657318007596 putative active site [active] 657318007597 catalytic site [active] 657318007598 Acylphosphatase; Region: Acylphosphatase; pfam00708 657318007599 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 657318007600 PIN domain; Region: PIN_3; pfam13470 657318007601 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 657318007602 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 657318007603 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 657318007604 active site 657318007605 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657318007606 phosphorylation site [posttranslational modification] 657318007607 intermolecular recognition site; other site 657318007608 dimerization interface [polypeptide binding]; other site 657318007609 LytTr DNA-binding domain; Region: LytTR; smart00850 657318007610 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 657318007611 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318007612 Walker A/P-loop; other site 657318007613 ATP binding site [chemical binding]; other site 657318007614 Q-loop/lid; other site 657318007615 ABC transporter signature motif; other site 657318007616 Walker B; other site 657318007617 D-loop; other site 657318007618 H-loop/switch region; other site 657318007619 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318007620 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 657318007621 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657318007622 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657318007623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657318007624 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 657318007625 zinc binding site [ion binding]; other site 657318007626 putative ligand binding site [chemical binding]; other site 657318007627 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 657318007628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318007629 Walker A/P-loop; other site 657318007630 ATP binding site [chemical binding]; other site 657318007631 Q-loop/lid; other site 657318007632 ABC transporter signature motif; other site 657318007633 Walker B; other site 657318007634 D-loop; other site 657318007635 H-loop/switch region; other site 657318007636 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 657318007637 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 657318007638 non-specific DNA binding site [nucleotide binding]; other site 657318007639 salt bridge; other site 657318007640 sequence-specific DNA binding site [nucleotide binding]; other site 657318007641 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 657318007642 thiamine phosphate binding site [chemical binding]; other site 657318007643 active site 657318007644 pyrophosphate binding site [ion binding]; other site 657318007645 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 657318007646 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 657318007647 FeS/SAM binding site; other site 657318007648 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 657318007649 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 657318007650 ThiS interaction site; other site 657318007651 putative active site [active] 657318007652 tetramer interface [polypeptide binding]; other site 657318007653 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 657318007654 thiS-thiF/thiG interaction site; other site 657318007655 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 657318007656 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 657318007657 active site 657318007658 dimer interface [polypeptide binding]; other site 657318007659 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 657318007660 dimer interface [polypeptide binding]; other site 657318007661 active site 657318007662 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 657318007663 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 657318007664 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 657318007665 FeS/SAM binding site; other site 657318007666 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 657318007667 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 657318007668 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 657318007669 FeS/SAM binding site; other site 657318007670 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 657318007671 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 657318007672 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 657318007673 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 657318007674 G1 box; other site 657318007675 GTP/Mg2+ binding site [chemical binding]; other site 657318007676 Switch I region; other site 657318007677 G2 box; other site 657318007678 Switch II region; other site 657318007679 G3 box; other site 657318007680 G4 box; other site 657318007681 G5 box; other site 657318007682 Domain of unknown function, E. rectale Gene description (DUF3877); Region: DUF3877; pfam12993 657318007683 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 657318007684 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657318007685 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 657318007686 active site 657318007687 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 657318007688 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 657318007689 S-adenosylmethionine binding site [chemical binding]; other site 657318007690 Peptidase family M23; Region: Peptidase_M23; pfam01551 657318007691 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 657318007692 GIY-YIG motif/motif A; other site 657318007693 putative active site [active] 657318007694 putative metal binding site [ion binding]; other site 657318007695 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657318007696 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 657318007697 dimer interface [polypeptide binding]; other site 657318007698 conserved gate region; other site 657318007699 putative PBP binding loops; other site 657318007700 ABC-ATPase subunit interface; other site 657318007701 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318007702 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 657318007703 dimer interface [polypeptide binding]; other site 657318007704 conserved gate region; other site 657318007705 putative PBP binding loops; other site 657318007706 ABC-ATPase subunit interface; other site 657318007707 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318007708 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318007709 DNA binding site [nucleotide binding] 657318007710 domain linker motif; other site 657318007711 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 657318007712 ligand binding site [chemical binding]; other site 657318007713 dimerization interface [polypeptide binding]; other site 657318007714 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 657318007715 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318007716 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657318007717 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318007718 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318007719 DNA binding site [nucleotide binding] 657318007720 domain linker motif; other site 657318007721 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657318007722 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657318007723 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 657318007724 dimer interface [polypeptide binding]; other site 657318007725 conserved gate region; other site 657318007726 putative PBP binding loops; other site 657318007727 ABC-ATPase subunit interface; other site 657318007728 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318007729 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 657318007730 dimer interface [polypeptide binding]; other site 657318007731 conserved gate region; other site 657318007732 putative PBP binding loops; other site 657318007733 ABC-ATPase subunit interface; other site 657318007734 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318007735 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 657318007736 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 657318007737 substrate binding [chemical binding]; other site 657318007738 active site 657318007739 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 657318007740 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657318007741 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 657318007742 putative substrate binding site [chemical binding]; other site 657318007743 putative ATP binding site [chemical binding]; other site 657318007744 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657318007745 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657318007746 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 657318007747 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 657318007748 Sulfate transporter family; Region: Sulfate_transp; pfam00916 657318007749 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 657318007750 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657318007751 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 657318007752 ATP binding site [chemical binding]; other site 657318007753 putative Mg++ binding site [ion binding]; other site 657318007754 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 657318007755 nucleotide binding region [chemical binding]; other site 657318007756 ATP-binding site [chemical binding]; other site 657318007757 HRDC domain; Region: HRDC; pfam00570 657318007758 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 657318007759 Toxin ToxN, type III toxin-antitoxin system; Region: ToxN_toxin; pfam13958 657318007760 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 657318007761 active site 657318007762 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 657318007763 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 657318007764 putative oligomer interface [polypeptide binding]; other site 657318007765 putative active site [active] 657318007766 metal binding site [ion binding]; metal-binding site 657318007767 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 657318007768 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657318007769 putative metal binding site [ion binding]; other site 657318007770 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 657318007771 trimer interface [polypeptide binding]; other site 657318007772 putative Zn binding site [ion binding]; other site 657318007773 Domain of unknown function (DUF1287); Region: DUF1287; cl01519 657318007774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657318007775 WHG domain; Region: WHG; pfam13305 657318007776 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657318007777 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657318007778 Walker A/P-loop; other site 657318007779 ATP binding site [chemical binding]; other site 657318007780 Q-loop/lid; other site 657318007781 ABC transporter signature motif; other site 657318007782 Walker B; other site 657318007783 D-loop; other site 657318007784 H-loop/switch region; other site 657318007785 FtsX-like permease family; Region: FtsX; pfam02687 657318007786 FtsX-like permease family; Region: FtsX; pfam02687 657318007787 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318007788 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318007789 DNA binding site [nucleotide binding] 657318007790 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657318007791 Glycosyl hydrolase family 32; Region: GH32_Aec43_like; cd08995 657318007792 active site 657318007793 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318007794 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657318007795 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657318007796 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 657318007797 putative PBP binding loops; other site 657318007798 dimer interface [polypeptide binding]; other site 657318007799 ABC-ATPase subunit interface; other site 657318007800 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318007801 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 657318007802 dimer interface [polypeptide binding]; other site 657318007803 conserved gate region; other site 657318007804 putative PBP binding loops; other site 657318007805 ABC-ATPase subunit interface; other site 657318007806 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 657318007807 Rubredoxin [Energy production and conversion]; Region: COG1773 657318007808 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 657318007809 iron binding site [ion binding]; other site 657318007810 Rubrerythrin [Energy production and conversion]; Region: COG1592 657318007811 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 657318007812 diiron binding motif [ion binding]; other site 657318007813 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657318007814 metal binding site 2 [ion binding]; metal-binding site 657318007815 putative DNA binding helix; other site 657318007816 metal binding site 1 [ion binding]; metal-binding site 657318007817 dimer interface [polypeptide binding]; other site 657318007818 structural Zn2+ binding site [ion binding]; other site 657318007819 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 657318007820 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 657318007821 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 657318007822 active site 657318007823 catalytic motif [active] 657318007824 Zn binding site [ion binding]; other site 657318007825 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 657318007826 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 657318007827 active site 657318007828 phosphopentomutase; Provisional; Region: PRK05362 657318007829 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 657318007830 purine nucleoside phosphorylase; Provisional; Region: PRK08202 657318007831 AAA domain; Region: AAA_22; pfam13401 657318007832 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 657318007833 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657318007834 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 657318007835 nucleoside/Zn binding site; other site 657318007836 dimer interface [polypeptide binding]; other site 657318007837 catalytic motif [active] 657318007838 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 657318007839 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 657318007840 putative NADH binding site [chemical binding]; other site 657318007841 putative active site [active] 657318007842 nudix motif; other site 657318007843 putative metal binding site [ion binding]; other site 657318007844 Transcriptional regulator; Region: Rrf2; cl17282 657318007845 Rrf2 family protein; Region: rrf2_super; TIGR00738 657318007846 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 657318007847 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 657318007848 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657318007849 catalytic residue [active] 657318007850 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657318007851 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 657318007852 trimerization site [polypeptide binding]; other site 657318007853 active site 657318007854 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 657318007855 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 657318007856 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657318007857 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 657318007858 non-specific DNA binding site [nucleotide binding]; other site 657318007859 salt bridge; other site 657318007860 sequence-specific DNA binding site [nucleotide binding]; other site 657318007861 Protein of unknown function DUF86; Region: DUF86; cl01031 657318007862 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 657318007863 non-specific DNA binding site [nucleotide binding]; other site 657318007864 salt bridge; other site 657318007865 sequence-specific DNA binding site [nucleotide binding]; other site 657318007866 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657318007867 active site 657318007868 NTP binding site [chemical binding]; other site 657318007869 metal binding triad [ion binding]; metal-binding site 657318007870 antibiotic binding site [chemical binding]; other site 657318007871 Archaeal ATPase; Region: Arch_ATPase; pfam01637 657318007872 AAA ATPase domain; Region: AAA_16; pfam13191 657318007873 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 657318007874 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 657318007875 dimer interface [polypeptide binding]; other site 657318007876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657318007877 catalytic residue [active] 657318007878 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 657318007879 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 657318007880 FeS/SAM binding site; other site 657318007881 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 657318007882 dimer interface [polypeptide binding]; other site 657318007883 pyridoxal binding site [chemical binding]; other site 657318007884 ATP binding site [chemical binding]; other site 657318007885 Protein of unknown function, DUF624; Region: DUF624; pfam04854 657318007886 6-phosphofructokinase; Provisional; Region: PRK03202 657318007887 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657318007888 active site 657318007889 ADP/pyrophosphate binding site [chemical binding]; other site 657318007890 dimerization interface [polypeptide binding]; other site 657318007891 allosteric effector site; other site 657318007892 fructose-1,6-bisphosphate binding site; other site 657318007893 hypothetical protein; Validated; Region: PRK00153 657318007894 recombination protein RecR; Reviewed; Region: recR; PRK00076 657318007895 RecR protein; Region: RecR; pfam02132 657318007896 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 657318007897 putative active site [active] 657318007898 putative metal-binding site [ion binding]; other site 657318007899 tetramer interface [polypeptide binding]; other site 657318007900 transketolase; Reviewed; Region: PRK05899 657318007901 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 657318007902 TPP-binding site [chemical binding]; other site 657318007903 dimer interface [polypeptide binding]; other site 657318007904 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 657318007905 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 657318007906 PYR/PP interface [polypeptide binding]; other site 657318007907 dimer interface [polypeptide binding]; other site 657318007908 TPP binding site [chemical binding]; other site 657318007909 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657318007910 Colicin V production protein; Region: Colicin_V; pfam02674 657318007911 Fumarase C-terminus; Region: Fumerase_C; cl00795 657318007912 fumarate hydratase; Provisional; Region: PRK06246 657318007913 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 657318007914 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 657318007915 Mg2+ binding site [ion binding]; other site 657318007916 G-X-G motif; other site 657318007917 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 657318007918 anchoring element; other site 657318007919 dimer interface [polypeptide binding]; other site 657318007920 ATP binding site [chemical binding]; other site 657318007921 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 657318007922 active site 657318007923 putative metal-binding site [ion binding]; other site 657318007924 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657318007925 recombination protein F; Reviewed; Region: recF; PRK00064 657318007926 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 657318007927 Walker A/P-loop; other site 657318007928 ATP binding site [chemical binding]; other site 657318007929 Q-loop/lid; other site 657318007930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657318007931 ABC transporter signature motif; other site 657318007932 Walker B; other site 657318007933 D-loop; other site 657318007934 H-loop/switch region; other site 657318007935 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 657318007936 RNA binding surface [nucleotide binding]; other site 657318007937 DNA polymerase III subunit beta; Validated; Region: PRK05643 657318007938 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 657318007939 putative DNA binding surface [nucleotide binding]; other site 657318007940 dimer interface [polypeptide binding]; other site 657318007941 beta-clamp/clamp loader binding surface; other site 657318007942 beta-clamp/translesion DNA polymerase binding surface; other site 657318007943 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 657318007944 DnaA N-terminal domain; Region: DnaA_N; pfam11638 657318007945 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 657318007946 Walker A motif; other site 657318007947 ATP binding site [chemical binding]; other site 657318007948 Walker B motif; other site 657318007949 arginine finger; other site 657318007950 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 657318007951 DnaA box-binding interface [nucleotide binding]; other site 657318007952 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 657318007953 ribonuclease P; Reviewed; Region: rnpA; PRK00499 657318007954 Haemolytic domain; Region: Haemolytic; pfam01809 657318007955 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 657318007956 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 657318007957 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 657318007958 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 657318007959 trmE is a tRNA modification GTPase; Region: trmE; cd04164 657318007960 G1 box; other site 657318007961 GTP/Mg2+ binding site [chemical binding]; other site 657318007962 Switch I region; other site 657318007963 G2 box; other site 657318007964 Switch II region; other site 657318007965 G3 box; other site 657318007966 G4 box; other site 657318007967 G5 box; other site 657318007968 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 657318007969 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 657318007970 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 657318007971 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 657318007972 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 657318007973 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 657318007974 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 657318007975 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 657318007976 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 657318007977 Histidine kinase; Region: HisKA_3; pfam07730 657318007978 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 657318007979 ATP binding site [chemical binding]; other site 657318007980 Mg2+ binding site [ion binding]; other site 657318007981 G-X-G motif; other site 657318007982 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657318007983 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 657318007984 active site 657318007985 phosphorylation site [posttranslational modification] 657318007986 intermolecular recognition site; other site 657318007987 dimerization interface [polypeptide binding]; other site 657318007988 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 657318007989 DNA binding residues [nucleotide binding] 657318007990 dimerization interface [polypeptide binding]; other site 657318007991 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657318007992 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657318007993 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 657318007994 P-loop; other site 657318007995 Magnesium ion binding site [ion binding]; other site 657318007996 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 657318007997 Magnesium ion binding site [ion binding]; other site 657318007998 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 657318007999 ParB-like nuclease domain; Region: ParB; smart00470 657318008000 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 657318008001 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657318008002 Zn2+ binding site [ion binding]; other site 657318008003 Mg2+ binding site [ion binding]; other site 657318008004 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 657318008005 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657318008006 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 657318008007 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 657318008008 putative active site [active] 657318008009 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 657318008010 active site 657318008011 P-loop; other site 657318008012 phosphorylation site [posttranslational modification] 657318008013 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 657318008014 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 657318008015 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 657318008016 active site 657318008017 methionine cluster; other site 657318008018 phosphorylation site [posttranslational modification] 657318008019 metal binding site [ion binding]; metal-binding site 657318008020 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 657318008021 beta-galactosidase; Region: BGL; TIGR03356 657318008022 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657318008023 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657318008024 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657318008025 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657318008026 DNA binding site [nucleotide binding] 657318008027 domain linker motif; other site 657318008028 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657318008029 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657318008030 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 657318008031 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 657318008032 dimer interface [polypeptide binding]; other site 657318008033 conserved gate region; other site 657318008034 putative PBP binding loops; other site 657318008035 ABC-ATPase subunit interface; other site 657318008036 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657318008037 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 657318008038 dimer interface [polypeptide binding]; other site 657318008039 conserved gate region; other site 657318008040 putative PBP binding loops; other site 657318008041 ABC-ATPase subunit interface; other site 657318008042 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 657318008043 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 657318008044 Ca binding site [ion binding]; other site 657318008045 active site 657318008046 catalytic site [active] 657318008047 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 657318008048 salt bridge; other site 657318008049 non-specific DNA binding site [nucleotide binding]; other site 657318008050 sequence-specific DNA binding site [nucleotide binding]; other site 657318008051 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 657318008052 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