-- dump date 20140619_234946 -- class Genbank::misc_feature -- table misc_feature_note -- id note 991905000001 Domain of unknown function (DUF955); Region: DUF955; pfam06114 991905000002 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 991905000003 Part of AAA domain; Region: AAA_19; pfam13245 991905000004 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 991905000005 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 991905000006 DNA binding residues [nucleotide binding] 991905000007 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 991905000008 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 991905000009 Part of AAA domain; Region: AAA_19; pfam13245 991905000010 Family description; Region: UvrD_C_2; pfam13538 991905000011 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 991905000012 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 991905000013 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 991905000014 PLD-like domain; Region: PLDc_2; pfam13091 991905000015 putative active site [active] 991905000016 catalytic site [active] 991905000017 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 991905000018 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; cd00188 991905000019 active site 991905000020 metal binding site [ion binding]; metal-binding site 991905000021 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 991905000022 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 991905000023 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 991905000024 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 991905000025 S-adenosylmethionine binding site [chemical binding]; other site 991905000026 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 991905000027 DEAD-like helicases superfamily; Region: DEXDc; smart00487 991905000028 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 991905000029 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 991905000030 helicase superfamily c-terminal domain; Region: HELICc; smart00490 991905000031 plasmid partitioning protein; Provisional; Region: PRK13832 991905000032 ParB-like nuclease domain; Region: ParB; smart00470 991905000033 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 991905000034 PhnA protein; Region: PhnA; pfam03831 991905000035 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 991905000036 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 991905000037 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 991905000038 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 991905000039 putative active site [active] 991905000040 Uncharacterized conserved protein [Function unknown]; Region: COG5489 991905000041 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 991905000042 IHF dimer interface [polypeptide binding]; other site 991905000043 IHF - DNA interface [nucleotide binding]; other site 991905000044 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 991905000045 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 991905000046 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 991905000047 Walker A motif; other site 991905000048 ATP binding site [chemical binding]; other site 991905000049 Walker B motif; other site 991905000050 arginine finger; other site 991905000051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905000052 Integrase core domain; Region: rve; pfam00665 991905000053 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 991905000054 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 991905000055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 991905000056 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 991905000057 Transposase; Region: HTH_Tnp_1; pfam01527 991905000058 MarR family; Region: MarR_2; pfam12802 991905000059 AAA domain; Region: AAA_30; pfam13604 991905000060 Family description; Region: UvrD_C_2; pfam13538 991905000061 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 991905000062 Transcriptional regulator [Transcription]; Region: IclR; COG1414 991905000063 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 991905000064 Bacterial transcriptional regulator; Region: IclR; pfam01614 991905000065 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 991905000066 FAD binding domain; Region: FAD_binding_4; pfam01565 991905000067 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905000068 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 991905000069 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 991905000070 DctM-like transporters; Region: DctM; pfam06808 991905000071 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905000072 acetaldehyde dehydrogenase; Validated; Region: PRK08300 991905000073 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 991905000074 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 991905000075 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 991905000076 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 991905000077 active site 991905000078 catalytic residues [active] 991905000079 metal binding site [ion binding]; metal-binding site 991905000080 DmpG-like communication domain; Region: DmpG_comm; pfam07836 991905000081 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 991905000082 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 991905000083 catalytic residues [active] 991905000084 catalytic nucleophile [active] 991905000085 Presynaptic Site I dimer interface [polypeptide binding]; other site 991905000086 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 991905000087 Synaptic Flat tetramer interface [polypeptide binding]; other site 991905000088 Synaptic Site I dimer interface [polypeptide binding]; other site 991905000089 DNA binding site [nucleotide binding] 991905000090 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 991905000091 DNA-binding interface [nucleotide binding]; DNA binding site 991905000092 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 991905000093 conjugal transfer protein TrbI; Provisional; Region: PRK13831 991905000094 conjugal transfer protein TrbH; Provisional; Region: PRK13835 991905000095 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 991905000096 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 991905000097 VirB7 interaction site; other site 991905000098 conjugal transfer protein TrbF; Provisional; Region: PRK13836 991905000099 conjugal transfer protein TrbL; Provisional; Region: PRK13841 991905000100 entry exclusion protein TrbK, Ti-type; Region: TrbK_Ti; TIGR04361 991905000101 conjugal transfer protein TrbJ; Provisional; Region: PRK13842 991905000102 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 991905000103 conjugal transfer protein TrbE; Provisional; Region: PRK13830 991905000104 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 991905000105 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905000106 Walker A/P-loop; other site 991905000107 ATP binding site [chemical binding]; other site 991905000108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905000109 Walker B; other site 991905000110 D-loop; other site 991905000111 H-loop/switch region; other site 991905000112 conjugal transfer protein TrbD; Provisional; Region: PRK13823 991905000113 conjugal transfer protein TrbC; Provisional; Region: PRK13871 991905000114 conjugal transfer protein TrbB; Provisional; Region: PRK13833 991905000115 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 991905000116 ATP binding site [chemical binding]; other site 991905000117 Walker A motif; other site 991905000118 hexamer interface [polypeptide binding]; other site 991905000119 Walker B motif; other site 991905000120 Autoinducer synthetase; Region: Autoind_synth; cl17404 991905000121 plasmid-partitioning protein RepA; Provisional; Region: PRK13869 991905000122 MerR family regulatory protein; Region: MerR; pfam00376 991905000123 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 991905000124 P-loop; other site 991905000125 Magnesium ion binding site [ion binding]; other site 991905000126 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 991905000127 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 991905000128 Magnesium ion binding site [ion binding]; other site 991905000129 plasmid partitioning protein RepB; Provisional; Region: PRK13866 991905000130 ParB-like nuclease domain; Region: ParBc; pfam02195 991905000131 replication initiation protein RepC; Provisional; Region: PRK13824 991905000132 Replication protein C N-terminal domain; Region: RP-C; pfam03428 991905000133 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 991905000134 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 991905000135 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 991905000136 catalytic residues [active] 991905000137 catalytic nucleophile [active] 991905000138 Presynaptic Site I dimer interface [polypeptide binding]; other site 991905000139 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 991905000140 Synaptic Flat tetramer interface [polypeptide binding]; other site 991905000141 Synaptic Site I dimer interface [polypeptide binding]; other site 991905000142 DNA binding site [nucleotide binding] 991905000143 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 991905000144 HTH DNA binding domain; Region: HTH_13; pfam11972 991905000145 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 991905000146 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 991905000147 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 991905000148 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 991905000149 Walker A motif; other site 991905000150 ATP binding site [chemical binding]; other site 991905000151 Walker B motif; other site 991905000152 arginine finger; other site 991905000153 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905000154 Integrase core domain; Region: rve; pfam00665 991905000155 DnaA N-terminal domain; Region: DnaA_N; pfam11638 991905000156 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 991905000157 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 991905000158 Walker A motif; other site 991905000159 ATP binding site [chemical binding]; other site 991905000160 Walker B motif; other site 991905000161 arginine finger; other site 991905000162 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 991905000163 DnaA box-binding interface [nucleotide binding]; other site 991905000164 DNA polymerase III subunit beta; Validated; Region: PRK05643 991905000165 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 991905000166 putative DNA binding surface [nucleotide binding]; other site 991905000167 dimer interface [polypeptide binding]; other site 991905000168 beta-clamp/clamp loader binding surface; other site 991905000169 beta-clamp/translesion DNA polymerase binding surface; other site 991905000170 recombination protein F; Reviewed; Region: recF; PRK00064 991905000171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905000172 Walker A/P-loop; other site 991905000173 ATP binding site [chemical binding]; other site 991905000174 Q-loop/lid; other site 991905000175 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905000176 ABC transporter signature motif; other site 991905000177 Walker B; other site 991905000178 D-loop; other site 991905000179 H-loop/switch region; other site 991905000180 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 991905000181 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 991905000182 Mg2+ binding site [ion binding]; other site 991905000183 G-X-G motif; other site 991905000184 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 991905000185 anchoring element; other site 991905000186 dimer interface [polypeptide binding]; other site 991905000187 ATP binding site [chemical binding]; other site 991905000188 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 991905000189 active site 991905000190 putative metal-binding site [ion binding]; other site 991905000191 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 991905000192 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905000193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905000194 metal binding site [ion binding]; metal-binding site 991905000195 active site 991905000196 I-site; other site 991905000197 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 991905000198 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 991905000199 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 991905000200 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 991905000201 active site 991905000202 dimer interface [polypeptide binding]; other site 991905000203 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 991905000204 putative active site pocket [active] 991905000205 4-fold oligomerization interface [polypeptide binding]; other site 991905000206 metal binding residues [ion binding]; metal-binding site 991905000207 3-fold/trimer interface [polypeptide binding]; other site 991905000208 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 991905000209 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 991905000210 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 991905000211 putative active site [active] 991905000212 oxyanion strand; other site 991905000213 catalytic triad [active] 991905000214 Uncharacterized conserved protein [Function unknown]; Region: COG5470 991905000215 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 991905000216 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 991905000217 catalytic residues [active] 991905000218 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 991905000219 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 991905000220 substrate binding site [chemical binding]; other site 991905000221 glutamase interaction surface [polypeptide binding]; other site 991905000222 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 991905000223 metal binding site [ion binding]; metal-binding site 991905000224 pantothenate kinase; Provisional; Region: PRK05439 991905000225 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 991905000226 ATP-binding site [chemical binding]; other site 991905000227 CoA-binding site [chemical binding]; other site 991905000228 Mg2+-binding site [ion binding]; other site 991905000229 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 991905000230 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 991905000231 dimerization interface [polypeptide binding]; other site 991905000232 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905000233 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905000234 dimer interface [polypeptide binding]; other site 991905000235 putative CheW interface [polypeptide binding]; other site 991905000236 von Hippel-Landau (pVHL) tumor suppressor protein; Region: pVHL; cl03381 991905000237 pVHL-HIF-1alpha interaction [polypeptide binding]; other site 991905000238 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 991905000239 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 991905000240 active site 991905000241 phosphorylation site [posttranslational modification] 991905000242 intermolecular recognition site; other site 991905000243 dimerization interface [polypeptide binding]; other site 991905000244 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 991905000245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905000246 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 991905000247 dimer interface [polypeptide binding]; other site 991905000248 phosphorylation site [posttranslational modification] 991905000249 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 991905000250 ATP binding site [chemical binding]; other site 991905000251 Mg2+ binding site [ion binding]; other site 991905000252 G-X-G motif; other site 991905000253 preprotein translocase subunit SecB; Validated; Region: PRK05751 991905000254 SecA binding site; other site 991905000255 Preprotein binding site; other site 991905000256 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 991905000257 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 991905000258 ATP binding site [chemical binding]; other site 991905000259 substrate interface [chemical binding]; other site 991905000260 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 991905000261 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 991905000262 ribonuclease PH; Reviewed; Region: rph; PRK00173 991905000263 Ribonuclease PH; Region: RNase_PH_bact; cd11362 991905000264 hexamer interface [polypeptide binding]; other site 991905000265 active site 991905000266 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 991905000267 active site 991905000268 dimerization interface [polypeptide binding]; other site 991905000269 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 991905000270 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 991905000271 FeS/SAM binding site; other site 991905000272 HemN C-terminal domain; Region: HemN_C; pfam06969 991905000273 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 991905000274 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 991905000275 Uncharacterized conserved protein [Function unknown]; Region: COG3743 991905000276 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 991905000277 Protein of unknown function DUF45; Region: DUF45; pfam01863 991905000278 Transglycosylase; Region: Transgly; pfam00912 991905000279 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 991905000280 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 991905000281 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 991905000282 Putative hemolysin [General function prediction only]; Region: COG3176 991905000283 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 991905000284 PAS domain; Region: PAS; smart00091 991905000285 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 991905000286 dimer interface [polypeptide binding]; other site 991905000287 phosphorylation site [posttranslational modification] 991905000288 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 991905000289 ATP binding site [chemical binding]; other site 991905000290 Mg2+ binding site [ion binding]; other site 991905000291 G-X-G motif; other site 991905000292 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 991905000293 Response regulator receiver domain; Region: Response_reg; pfam00072 991905000294 active site 991905000295 phosphorylation site [posttranslational modification] 991905000296 intermolecular recognition site; other site 991905000297 dimerization interface [polypeptide binding]; other site 991905000298 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 991905000299 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 991905000300 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 991905000301 Walker A motif; other site 991905000302 ATP binding site [chemical binding]; other site 991905000303 Walker B motif; other site 991905000304 arginine finger; other site 991905000305 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 991905000306 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 991905000307 glutathione synthetase; Provisional; Region: PRK05246 991905000308 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 991905000309 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 991905000310 hypothetical protein; Reviewed; Region: PRK12497 991905000311 Predicted methyltransferases [General function prediction only]; Region: COG0313 991905000312 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 991905000313 putative SAM binding site [chemical binding]; other site 991905000314 putative homodimer interface [polypeptide binding]; other site 991905000315 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 991905000316 putative ligand binding site [chemical binding]; other site 991905000317 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905000318 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 991905000319 Flavoprotein; Region: Flavoprotein; pfam02441 991905000320 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 991905000321 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 991905000322 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 991905000323 putative active site [active] 991905000324 metal binding site [ion binding]; metal-binding site 991905000325 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 991905000326 trimer interface [polypeptide binding]; other site 991905000327 active site 991905000328 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 991905000329 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 991905000330 dimer interface [polypeptide binding]; other site 991905000331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905000332 catalytic residue [active] 991905000333 Helix-turn-helix domain; Region: HTH_18; pfam12833 991905000334 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 991905000335 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 991905000336 DNA binding site [nucleotide binding] 991905000337 active site 991905000338 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 991905000339 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 991905000340 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 991905000341 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 991905000342 substrate binding site [chemical binding]; other site 991905000343 active site 991905000344 catalytic residues [active] 991905000345 heterodimer interface [polypeptide binding]; other site 991905000346 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 991905000347 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 991905000348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905000349 catalytic residue [active] 991905000350 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 991905000351 active site 991905000352 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 991905000353 Malic enzyme, N-terminal domain; Region: malic; pfam00390 991905000354 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 991905000355 putative NAD(P) binding site [chemical binding]; other site 991905000356 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 991905000357 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 991905000358 MutS domain I; Region: MutS_I; pfam01624 991905000359 MutS domain II; Region: MutS_II; pfam05188 991905000360 MutS domain III; Region: MutS_III; pfam05192 991905000361 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 991905000362 Walker A/P-loop; other site 991905000363 ATP binding site [chemical binding]; other site 991905000364 Q-loop/lid; other site 991905000365 ABC transporter signature motif; other site 991905000366 Walker B; other site 991905000367 D-loop; other site 991905000368 H-loop/switch region; other site 991905000369 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 991905000370 Integral membrane protein [Function unknown]; Region: COG5488 991905000371 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 991905000372 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 991905000373 minor groove reading motif; other site 991905000374 helix-hairpin-helix signature motif; other site 991905000375 substrate binding pocket [chemical binding]; other site 991905000376 active site 991905000377 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 991905000378 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 991905000379 metal binding site 2 [ion binding]; metal-binding site 991905000380 putative DNA binding helix; other site 991905000381 metal binding site 1 [ion binding]; metal-binding site 991905000382 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 991905000383 active site 1 [active] 991905000384 dimer interface [polypeptide binding]; other site 991905000385 active site 2 [active] 991905000386 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 991905000387 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 991905000388 dimer interface [polypeptide binding]; other site 991905000389 active site 991905000390 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 991905000391 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 991905000392 NAD binding site [chemical binding]; other site 991905000393 homotetramer interface [polypeptide binding]; other site 991905000394 homodimer interface [polypeptide binding]; other site 991905000395 substrate binding site [chemical binding]; other site 991905000396 active site 991905000397 Bacterial SH3 domain; Region: SH3_4; pfam06347 991905000398 Bacterial SH3 domain; Region: SH3_4; pfam06347 991905000399 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 991905000400 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 991905000401 dimerization interface [polypeptide binding]; other site 991905000402 ligand binding site [chemical binding]; other site 991905000403 NADP binding site [chemical binding]; other site 991905000404 catalytic site [active] 991905000405 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 991905000406 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 991905000407 active site 991905000408 catalytic site [active] 991905000409 substrate binding site [chemical binding]; other site 991905000410 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 991905000411 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 991905000412 CoA-binding site [chemical binding]; other site 991905000413 ATP-binding [chemical binding]; other site 991905000414 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 991905000415 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 991905000416 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 991905000417 shikimate binding site; other site 991905000418 NAD(P) binding site [chemical binding]; other site 991905000419 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 991905000420 active site 991905000421 dimer interface [polypeptide binding]; other site 991905000422 PEP synthetase regulatory protein; Provisional; Region: PRK05339 991905000423 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 991905000424 substrate binding site [chemical binding]; other site 991905000425 active site 991905000426 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 991905000427 transcription termination factor Rho; Provisional; Region: rho; PRK09376 991905000428 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 991905000429 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 991905000430 RNA binding site [nucleotide binding]; other site 991905000431 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 991905000432 multimer interface [polypeptide binding]; other site 991905000433 Walker A motif; other site 991905000434 ATP binding site [chemical binding]; other site 991905000435 Walker B motif; other site 991905000436 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 991905000437 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 991905000438 catalytic residues [active] 991905000439 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 991905000440 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 991905000441 trmE is a tRNA modification GTPase; Region: trmE; cd04164 991905000442 G1 box; other site 991905000443 GTP/Mg2+ binding site [chemical binding]; other site 991905000444 Switch I region; other site 991905000445 G2 box; other site 991905000446 Switch II region; other site 991905000447 G3 box; other site 991905000448 G4 box; other site 991905000449 G5 box; other site 991905000450 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 991905000451 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 991905000452 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 991905000453 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 991905000454 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 991905000455 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 991905000456 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 991905000457 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 991905000458 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 991905000459 P-loop; other site 991905000460 Magnesium ion binding site [ion binding]; other site 991905000461 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 991905000462 Magnesium ion binding site [ion binding]; other site 991905000463 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 991905000464 ParB-like nuclease domain; Region: ParB; smart00470 991905000465 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 991905000466 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 991905000467 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 991905000468 Lipopolysaccharide-assembly; Region: LptE; cl01125 991905000469 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 991905000470 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 991905000471 HIGH motif; other site 991905000472 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 991905000473 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 991905000474 active site 991905000475 KMSKS motif; other site 991905000476 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 991905000477 tRNA binding surface [nucleotide binding]; other site 991905000478 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 991905000479 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 991905000480 catalytic residue [active] 991905000481 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905000482 Coenzyme A binding pocket [chemical binding]; other site 991905000483 acetyl-CoA synthetase; Provisional; Region: PRK00174 991905000484 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 991905000485 active site 991905000486 CoA binding site [chemical binding]; other site 991905000487 acyl-activating enzyme (AAE) consensus motif; other site 991905000488 AMP binding site [chemical binding]; other site 991905000489 acetate binding site [chemical binding]; other site 991905000490 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 991905000491 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 991905000492 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 991905000493 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 991905000494 active site 991905000495 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 991905000496 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 991905000497 substrate binding site [chemical binding]; other site 991905000498 ligand binding site [chemical binding]; other site 991905000499 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 991905000500 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 991905000501 RimM N-terminal domain; Region: RimM; pfam01782 991905000502 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 991905000503 PRC-barrel domain; Region: PRC; pfam05239 991905000504 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 991905000505 chorismate mutase; Provisional; Region: PRK09239 991905000506 signal recognition particle protein; Provisional; Region: PRK10867 991905000507 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 991905000508 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 991905000509 P loop; other site 991905000510 GTP binding site [chemical binding]; other site 991905000511 Signal peptide binding domain; Region: SRP_SPB; pfam02978 991905000512 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 991905000513 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 991905000514 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 991905000515 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 991905000516 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 991905000517 UreF; Region: UreF; pfam01730 991905000518 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 991905000519 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 991905000520 dimer interface [polypeptide binding]; other site 991905000521 catalytic residues [active] 991905000522 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 991905000523 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 991905000524 putative C-terminal domain interface [polypeptide binding]; other site 991905000525 putative GSH binding site (G-site) [chemical binding]; other site 991905000526 putative dimer interface [polypeptide binding]; other site 991905000527 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 991905000528 N-terminal domain interface [polypeptide binding]; other site 991905000529 dimer interface [polypeptide binding]; other site 991905000530 substrate binding pocket (H-site) [chemical binding]; other site 991905000531 urease subunit alpha; Reviewed; Region: ureC; PRK13207 991905000532 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 991905000533 subunit interactions [polypeptide binding]; other site 991905000534 active site 991905000535 flap region; other site 991905000536 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 991905000537 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 991905000538 gamma-beta subunit interface [polypeptide binding]; other site 991905000539 alpha-beta subunit interface [polypeptide binding]; other site 991905000540 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 991905000541 alpha-gamma subunit interface [polypeptide binding]; other site 991905000542 beta-gamma subunit interface [polypeptide binding]; other site 991905000543 UreD urease accessory protein; Region: UreD; cl00530 991905000544 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 991905000545 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 991905000546 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 991905000547 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 991905000548 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 991905000549 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 991905000550 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 991905000551 active site 991905000552 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 991905000553 catalytic triad [active] 991905000554 dimer interface [polypeptide binding]; other site 991905000555 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 991905000556 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 991905000557 short chain dehydrogenase; Provisional; Region: PRK05993 991905000558 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 991905000559 NADP binding site [chemical binding]; other site 991905000560 active site 991905000561 steroid binding site; other site 991905000562 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 991905000563 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 991905000564 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 991905000565 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 991905000566 Ligand binding site [chemical binding]; other site 991905000567 Electron transfer flavoprotein domain; Region: ETF; pfam01012 991905000568 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 991905000569 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 991905000570 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 991905000571 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 991905000572 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 991905000573 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 991905000574 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905000575 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 991905000576 acyl-activating enzyme (AAE) consensus motif; other site 991905000577 AMP binding site [chemical binding]; other site 991905000578 active site 991905000579 CoA binding site [chemical binding]; other site 991905000580 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 991905000581 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 991905000582 catalytic residues [active] 991905000583 argininosuccinate lyase; Provisional; Region: PRK00855 991905000584 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 991905000585 active sites [active] 991905000586 tetramer interface [polypeptide binding]; other site 991905000587 diaminopimelate decarboxylase; Region: lysA; TIGR01048 991905000588 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 991905000589 active site 991905000590 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 991905000591 substrate binding site [chemical binding]; other site 991905000592 catalytic residues [active] 991905000593 dimer interface [polypeptide binding]; other site 991905000594 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 991905000595 Response regulator receiver domain; Region: Response_reg; pfam00072 991905000596 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 991905000597 active site 991905000598 phosphorylation site [posttranslational modification] 991905000599 intermolecular recognition site; other site 991905000600 dimerization interface [polypeptide binding]; other site 991905000601 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905000602 active site 991905000603 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 991905000604 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 991905000605 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 991905000606 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 991905000607 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 991905000608 Walker A/P-loop; other site 991905000609 ATP binding site [chemical binding]; other site 991905000610 Q-loop/lid; other site 991905000611 ABC transporter signature motif; other site 991905000612 Walker B; other site 991905000613 D-loop; other site 991905000614 H-loop/switch region; other site 991905000615 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 991905000616 Uncharacterized conserved protein [Function unknown]; Region: COG1434 991905000617 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 991905000618 putative active site [active] 991905000619 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 991905000620 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 991905000621 putative acyl-acceptor binding pocket; other site 991905000622 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 991905000623 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 991905000624 putative active site pocket [active] 991905000625 dimerization interface [polypeptide binding]; other site 991905000626 putative catalytic residue [active] 991905000627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 991905000628 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 991905000629 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905000630 Coenzyme A binding pocket [chemical binding]; other site 991905000631 aromatic amino acid exporter; Provisional; Region: PRK11689 991905000632 EamA-like transporter family; Region: EamA; pfam00892 991905000633 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 991905000634 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 991905000635 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905000636 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905000637 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 991905000638 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 991905000639 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 991905000640 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 991905000641 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 991905000642 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 991905000643 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 991905000644 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 991905000645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905000646 homodimer interface [polypeptide binding]; other site 991905000647 catalytic residue [active] 991905000648 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 991905000649 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 991905000650 heat shock protein HtpX; Provisional; Region: PRK01345 991905000651 16S rRNA methyltransferase B; Provisional; Region: PRK10901 991905000652 NusB family; Region: NusB; pfam01029 991905000653 putative RNA binding site [nucleotide binding]; other site 991905000654 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 991905000655 S-adenosylmethionine binding site [chemical binding]; other site 991905000656 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 991905000657 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 991905000658 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 991905000659 purine monophosphate binding site [chemical binding]; other site 991905000660 dimer interface [polypeptide binding]; other site 991905000661 putative catalytic residues [active] 991905000662 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 991905000663 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 991905000664 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 991905000665 PA26 p53-induced protein (sestrin); Region: PA26; pfam04636 991905000666 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 991905000667 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 991905000668 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 991905000669 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 991905000670 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 991905000671 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 991905000672 substrate binding site [chemical binding]; other site 991905000673 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 991905000674 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 991905000675 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 991905000676 ligand binding site [chemical binding]; other site 991905000677 flexible hinge region; other site 991905000678 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905000679 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 991905000680 active site 991905000681 phosphorylation site [posttranslational modification] 991905000682 intermolecular recognition site; other site 991905000683 dimerization interface [polypeptide binding]; other site 991905000684 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 991905000685 DNA binding site [nucleotide binding] 991905000686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 991905000687 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 991905000688 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 991905000689 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 991905000690 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 991905000691 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 991905000692 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 991905000693 FeS/SAM binding site; other site 991905000694 TRAM domain; Region: TRAM; cl01282 991905000695 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 991905000696 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 991905000697 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 991905000698 P loop; other site 991905000699 GTP binding site [chemical binding]; other site 991905000700 hypothetical protein; Provisional; Region: PRK04233 991905000701 SEC-C motif; Region: SEC-C; pfam02810 991905000702 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 991905000703 putative catalytic site [active] 991905000704 putative metal binding site [ion binding]; other site 991905000705 putative phosphate binding site [ion binding]; other site 991905000706 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 991905000707 putative catalytic site [active] 991905000708 putative phosphate binding site [ion binding]; other site 991905000709 putative metal binding site [ion binding]; other site 991905000710 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 991905000711 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 991905000712 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 991905000713 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 991905000714 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 991905000715 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 991905000716 active site 991905000717 acyl-activating enzyme (AAE) consensus motif; other site 991905000718 putative CoA binding site [chemical binding]; other site 991905000719 AMP binding site [chemical binding]; other site 991905000720 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 991905000721 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 991905000722 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905000723 catalytic residue [active] 991905000724 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 991905000725 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 991905000726 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 991905000727 active site 991905000728 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 991905000729 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 991905000730 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 991905000731 putative catalytic site [active] 991905000732 putative phosphate binding site [ion binding]; other site 991905000733 active site 991905000734 metal binding site A [ion binding]; metal-binding site 991905000735 DNA binding site [nucleotide binding] 991905000736 putative AP binding site [nucleotide binding]; other site 991905000737 putative metal binding site B [ion binding]; other site 991905000738 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 991905000739 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 991905000740 NAD(P) binding site [chemical binding]; other site 991905000741 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 991905000742 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 991905000743 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 991905000744 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 991905000745 DNA binding residues [nucleotide binding] 991905000746 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 991905000747 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 991905000748 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 991905000749 FeS/SAM binding site; other site 991905000750 Nitrate and nitrite sensing; Region: NIT; pfam08376 991905000751 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 991905000752 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905000753 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905000754 dimer interface [polypeptide binding]; other site 991905000755 putative CheW interface [polypeptide binding]; other site 991905000756 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 991905000757 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 991905000758 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 991905000759 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 991905000760 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 991905000761 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 991905000762 catalytic loop [active] 991905000763 iron binding site [ion binding]; other site 991905000764 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 991905000765 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905000766 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905000767 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 991905000768 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 991905000769 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 991905000770 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 991905000771 L-aspartate oxidase; Provisional; Region: PRK06175 991905000772 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 991905000773 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 991905000774 putative SdhC subunit interface [polypeptide binding]; other site 991905000775 putative proximal heme binding site [chemical binding]; other site 991905000776 putative Iron-sulfur protein interface [polypeptide binding]; other site 991905000777 putative proximal quinone binding site; other site 991905000778 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 991905000779 Iron-sulfur protein interface; other site 991905000780 proximal quinone binding site [chemical binding]; other site 991905000781 SdhD (CybS) interface [polypeptide binding]; other site 991905000782 proximal heme binding site [chemical binding]; other site 991905000783 CysZ-like protein; Reviewed; Region: PRK12768 991905000784 recombination protein RecR; Reviewed; Region: recR; PRK00076 991905000785 RecR protein; Region: RecR; pfam02132 991905000786 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 991905000787 tetramer interface [polypeptide binding]; other site 991905000788 putative active site [active] 991905000789 putative metal-binding site [ion binding]; other site 991905000790 hypothetical protein; Validated; Region: PRK00153 991905000791 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 991905000792 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 991905000793 Walker A motif; other site 991905000794 ATP binding site [chemical binding]; other site 991905000795 Walker B motif; other site 991905000796 arginine finger; other site 991905000797 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 991905000798 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 991905000799 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905000800 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 991905000801 catalytic site [active] 991905000802 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905000803 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 991905000804 putative ADP-binding pocket [chemical binding]; other site 991905000805 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 991905000806 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 991905000807 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 991905000808 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 991905000809 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 991905000810 23S rRNA binding site [nucleotide binding]; other site 991905000811 L21 binding site [polypeptide binding]; other site 991905000812 L13 binding site [polypeptide binding]; other site 991905000813 hypothetical protein; Provisional; Region: PRK07877 991905000814 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 991905000815 FMN binding site [chemical binding]; other site 991905000816 dimer interface [polypeptide binding]; other site 991905000817 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 991905000818 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 991905000819 Domain of unknown function (DUF336); Region: DUF336; cl01249 991905000820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 991905000821 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 991905000822 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 991905000823 putative acyltransferase; Provisional; Region: PRK05790 991905000824 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 991905000825 dimer interface [polypeptide binding]; other site 991905000826 active site 991905000827 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 991905000828 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 991905000829 NAD(P) binding site [chemical binding]; other site 991905000830 homotetramer interface [polypeptide binding]; other site 991905000831 homodimer interface [polypeptide binding]; other site 991905000832 active site 991905000833 Intracellular septation protein A; Region: IspA; pfam04279 991905000834 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 991905000835 Transglycosylase; Region: Transgly; pfam00912 991905000836 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 991905000837 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 991905000838 S-adenosylmethionine binding site [chemical binding]; other site 991905000839 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 991905000840 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 991905000841 substrate binding pocket [chemical binding]; other site 991905000842 chain length determination region; other site 991905000843 substrate-Mg2+ binding site; other site 991905000844 catalytic residues [active] 991905000845 aspartate-rich region 1; other site 991905000846 active site lid residues [active] 991905000847 aspartate-rich region 2; other site 991905000848 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905000849 metal binding site [ion binding]; metal-binding site 991905000850 active site 991905000851 I-site; other site 991905000852 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 991905000853 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 991905000854 prephenate dehydrogenase; Validated; Region: PRK08507 991905000855 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 991905000856 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 991905000857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905000858 homodimer interface [polypeptide binding]; other site 991905000859 catalytic residue [active] 991905000860 hypothetical protein; Provisional; Region: PRK06034 991905000861 Chorismate mutase type II; Region: CM_2; cl00693 991905000862 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 991905000863 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 991905000864 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 991905000865 Methyltransferase domain; Region: Methyltransf_23; pfam13489 991905000866 S-adenosylmethionine binding site [chemical binding]; other site 991905000867 Methyltransferase domain; Region: Methyltransf_11; pfam08241 991905000868 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 991905000869 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 991905000870 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 991905000871 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 991905000872 G1 box; other site 991905000873 putative GEF interaction site [polypeptide binding]; other site 991905000874 GTP/Mg2+ binding site [chemical binding]; other site 991905000875 Switch I region; other site 991905000876 G2 box; other site 991905000877 G3 box; other site 991905000878 Switch II region; other site 991905000879 G4 box; other site 991905000880 G5 box; other site 991905000881 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 991905000882 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 991905000883 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905000884 MarR family; Region: MarR_2; pfam12802 991905000885 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 991905000886 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 991905000887 putative substrate translocation pore; other site 991905000888 dihydropteroate synthase; Region: DHPS; TIGR01496 991905000889 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 991905000890 substrate binding pocket [chemical binding]; other site 991905000891 dimer interface [polypeptide binding]; other site 991905000892 inhibitor binding site; inhibition site 991905000893 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 991905000894 catalytic center binding site [active] 991905000895 ATP binding site [chemical binding]; other site 991905000896 TspO/MBR family; Region: TspO_MBR; pfam03073 991905000897 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 991905000898 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 991905000899 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 991905000900 argininosuccinate synthase; Provisional; Region: PRK13820 991905000901 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 991905000902 ANP binding site [chemical binding]; other site 991905000903 Substrate Binding Site II [chemical binding]; other site 991905000904 Substrate Binding Site I [chemical binding]; other site 991905000905 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 991905000906 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 991905000907 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 991905000908 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 991905000909 helix-hairpin-helix signature motif; other site 991905000910 substrate binding pocket [chemical binding]; other site 991905000911 active site 991905000912 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 991905000913 active site 991905000914 HIGH motif; other site 991905000915 nucleotide binding site [chemical binding]; other site 991905000916 active site 991905000917 KMSKS motif; other site 991905000918 Predicted permeases [General function prediction only]; Region: COG0679 991905000919 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905000920 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 991905000921 dimer interface [polypeptide binding]; other site 991905000922 phosphorylation site [posttranslational modification] 991905000923 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 991905000924 ATP binding site [chemical binding]; other site 991905000925 Mg2+ binding site [ion binding]; other site 991905000926 G-X-G motif; other site 991905000927 Response regulator receiver domain; Region: Response_reg; pfam00072 991905000928 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 991905000929 active site 991905000930 phosphorylation site [posttranslational modification] 991905000931 intermolecular recognition site; other site 991905000932 dimerization interface [polypeptide binding]; other site 991905000933 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 991905000934 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 991905000935 putative catalytic residue [active] 991905000936 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 991905000937 active site 991905000938 Protein required for attachment to host cells; Region: Host_attach; pfam10116 991905000939 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 991905000940 Low molecular weight phosphatase family; Region: LMWPc; cd00115 991905000941 active site 991905000942 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 991905000943 aromatic arch; other site 991905000944 DCoH dimer interaction site [polypeptide binding]; other site 991905000945 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 991905000946 DCoH tetramer interaction site [polypeptide binding]; other site 991905000947 substrate binding site [chemical binding]; other site 991905000948 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 991905000949 CPxP motif; other site 991905000950 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 991905000951 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 991905000952 Nitrogen regulatory protein P-II; Region: P-II; smart00938 991905000953 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 991905000954 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 991905000955 active site 991905000956 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 991905000957 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 991905000958 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 991905000959 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 991905000960 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 991905000961 catalytic residues [active] 991905000962 central insert; other site 991905000963 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 991905000964 heme exporter protein CcmC; Region: ccmC; TIGR01191 991905000965 heme exporter protein CcmB; Region: ccmB; TIGR01190 991905000966 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 991905000967 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905000968 Walker A/P-loop; other site 991905000969 ATP binding site [chemical binding]; other site 991905000970 Q-loop/lid; other site 991905000971 ABC transporter signature motif; other site 991905000972 Walker B; other site 991905000973 D-loop; other site 991905000974 H-loop/switch region; other site 991905000975 Cupin domain; Region: Cupin_2; pfam07883 991905000976 aconitate hydratase; Validated; Region: PRK09277 991905000977 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 991905000978 substrate binding site [chemical binding]; other site 991905000979 ligand binding site [chemical binding]; other site 991905000980 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 991905000981 substrate binding site [chemical binding]; other site 991905000982 YGGT family; Region: YGGT; pfam02325 991905000983 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 991905000984 Uncharacterized conserved protein [Function unknown]; Region: COG2835 991905000985 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 991905000986 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 991905000987 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 991905000988 catalytic residues [active] 991905000989 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 991905000990 TPR motif; other site 991905000991 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 991905000992 putative deacylase active site [active] 991905000993 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905000994 Integrase core domain; Region: rve; pfam00665 991905000995 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 991905000996 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 991905000997 Walker A motif; other site 991905000998 ATP binding site [chemical binding]; other site 991905000999 Walker B motif; other site 991905001000 arginine finger; other site 991905001001 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 991905001002 Protein export membrane protein; Region: SecD_SecF; cl14618 991905001003 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 991905001004 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 991905001005 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905001006 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905001007 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905001008 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 991905001009 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 991905001010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905001011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905001012 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 991905001013 dimerization interface [polypeptide binding]; other site 991905001014 substrate binding pocket [chemical binding]; other site 991905001015 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 991905001016 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 991905001017 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 991905001018 VirB7 interaction site; other site 991905001019 conjugal transfer protein TrbF; Provisional; Region: PRK13872 991905001020 conjugal transfer protein TrbL; Provisional; Region: PRK13875 991905001021 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 991905001022 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 991905001023 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 991905001024 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 991905001025 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 991905001026 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 991905001027 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905001028 Walker A/P-loop; other site 991905001029 ATP binding site [chemical binding]; other site 991905001030 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 991905001031 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 991905001032 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 991905001033 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 991905001034 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 991905001035 Walker A motif; other site 991905001036 ATP binding site [chemical binding]; other site 991905001037 Walker B motif; other site 991905001038 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 991905001039 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 991905001040 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 991905001041 Walker A motif; other site 991905001042 ATP binding site [chemical binding]; other site 991905001043 Walker B motif; other site 991905001044 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 991905001045 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 991905001046 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 991905001047 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 991905001048 N-acetyl-D-glucosamine binding site [chemical binding]; other site 991905001049 catalytic residue [active] 991905001050 Protein of unknown function (DUF736); Region: DUF736; pfam05284 991905001051 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 991905001052 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 991905001053 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 991905001054 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 991905001055 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 991905001056 DNA methylase; Region: N6_N4_Mtase; pfam01555 991905001057 ParA-like protein; Provisional; Region: PHA02518 991905001058 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 991905001059 P-loop; other site 991905001060 Magnesium ion binding site [ion binding]; other site 991905001061 Replication initiator protein A; Region: RPA; pfam10134 991905001062 Helix-turn-helix domain; Region: HTH_17; pfam12728 991905001063 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 991905001064 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 991905001065 non-specific DNA binding site [nucleotide binding]; other site 991905001066 salt bridge; other site 991905001067 sequence-specific DNA binding site [nucleotide binding]; other site 991905001068 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 991905001069 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 991905001070 dimer interface [polypeptide binding]; other site 991905001071 ssDNA binding site [nucleotide binding]; other site 991905001072 tetramer (dimer of dimers) interface [polypeptide binding]; other site 991905001073 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 991905001074 Toprim domain; Region: Toprim_3; pfam13362 991905001075 Methyltransferase domain; Region: Methyltransf_26; pfam13659 991905001076 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 991905001077 Helicase_C-like; Region: Helicase_C_4; pfam13871 991905001078 Antirestriction protein; Region: Antirestrict; pfam03230 991905001079 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 991905001080 ParB-like nuclease domain; Region: ParBc; cl02129 991905001081 hypothetical protein; Region: PHA00684 991905001082 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 991905001083 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 991905001084 AAA domain; Region: AAA_23; pfam13476 991905001085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905001086 Walker A/P-loop; other site 991905001087 ATP binding site [chemical binding]; other site 991905001088 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905001089 Walker B; other site 991905001090 D-loop; other site 991905001091 Predicted transcriptional regulator [Transcription]; Region: COG2944 991905001092 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 991905001093 non-specific DNA binding site [nucleotide binding]; other site 991905001094 salt bridge; other site 991905001095 sequence-specific DNA binding site [nucleotide binding]; other site 991905001096 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 991905001097 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 991905001098 active site 991905001099 DNA binding site [nucleotide binding] 991905001100 Int/Topo IB signature motif; other site 991905001101 Cytochrome c; Region: Cytochrom_C; pfam00034 991905001102 Predicted transcriptional regulator [Transcription]; Region: COG1959 991905001103 Transcriptional regulator; Region: Rrf2; cl17282 991905001104 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 991905001105 heme-binding site [chemical binding]; other site 991905001106 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 991905001107 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 991905001108 dimerization interface [polypeptide binding]; other site 991905001109 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905001110 dimer interface [polypeptide binding]; other site 991905001111 putative CheW interface [polypeptide binding]; other site 991905001112 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 991905001113 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 991905001114 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 991905001115 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 991905001116 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 991905001117 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 991905001118 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905001119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 991905001120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905001121 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 991905001122 NAD(P) binding site [chemical binding]; other site 991905001123 active site 991905001124 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 991905001125 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 991905001126 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 991905001127 pyridoxamine kinase; Validated; Region: PRK05756 991905001128 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 991905001129 pyridoxal binding site [chemical binding]; other site 991905001130 dimer interface [polypeptide binding]; other site 991905001131 ATP binding site [chemical binding]; other site 991905001132 Protein of unknown function (DUF429); Region: DUF429; cl12046 991905001133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 991905001134 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 991905001135 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 991905001136 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 991905001137 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 991905001138 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 991905001139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 991905001140 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 991905001141 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 991905001142 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 991905001143 metal ion-dependent adhesion site (MIDAS); other site 991905001144 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 991905001145 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 991905001146 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 991905001147 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 991905001148 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 991905001149 HSP70 interaction site [polypeptide binding]; other site 991905001150 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 991905001151 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 991905001152 Domain of unknown function DUF21; Region: DUF21; pfam01595 991905001153 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 991905001154 Transporter associated domain; Region: CorC_HlyC; smart01091 991905001155 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 991905001156 active site 991905001157 dimer interface [polypeptide binding]; other site 991905001158 metal binding site [ion binding]; metal-binding site 991905001159 shikimate kinase; Provisional; Region: PRK13946 991905001160 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 991905001161 ADP binding site [chemical binding]; other site 991905001162 magnesium binding site [ion binding]; other site 991905001163 putative shikimate binding site; other site 991905001164 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 991905001165 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 991905001166 active site 991905001167 DNA binding site [nucleotide binding] 991905001168 Int/Topo IB signature motif; other site 991905001169 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 991905001170 putative active site [active] 991905001171 putative catalytic site [active] 991905001172 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 991905001173 putative active site [active] 991905001174 putative catalytic site [active] 991905001175 Domain of unknown function (DUF897); Region: DUF897; cl01312 991905001176 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 991905001177 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 991905001178 active site clefts [active] 991905001179 zinc binding site [ion binding]; other site 991905001180 dimer interface [polypeptide binding]; other site 991905001181 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 991905001182 Response regulator receiver domain; Region: Response_reg; pfam00072 991905001183 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 991905001184 active site 991905001185 phosphorylation site [posttranslational modification] 991905001186 intermolecular recognition site; other site 991905001187 dimerization interface [polypeptide binding]; other site 991905001188 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 991905001189 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 991905001190 active site 991905001191 phosphorylation site [posttranslational modification] 991905001192 intermolecular recognition site; other site 991905001193 dimerization interface [polypeptide binding]; other site 991905001194 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 991905001195 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 991905001196 NAD(P) binding site [chemical binding]; other site 991905001197 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 991905001198 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 991905001199 B12 binding site [chemical binding]; other site 991905001200 cobalt ligand [ion binding]; other site 991905001201 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 991905001202 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 991905001203 FeS/SAM binding site; other site 991905001204 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 991905001205 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 991905001206 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 991905001207 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 991905001208 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 991905001209 EamA-like transporter family; Region: EamA; pfam00892 991905001210 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 991905001211 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 991905001212 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 991905001213 tartrate dehydrogenase; Region: TTC; TIGR02089 991905001214 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 991905001215 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 991905001216 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 991905001217 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 991905001218 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905001219 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905001220 metal binding site [ion binding]; metal-binding site 991905001221 active site 991905001222 I-site; other site 991905001223 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 991905001224 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 991905001225 metal binding site [ion binding]; metal-binding site 991905001226 putative dimer interface [polypeptide binding]; other site 991905001227 Predicted methyltransferase [General function prediction only]; Region: COG3897 991905001228 EVE domain; Region: EVE; cl00728 991905001229 YciI-like protein; Reviewed; Region: PRK12863 991905001230 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 991905001231 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 991905001232 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 991905001233 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 991905001234 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 991905001235 nudix motif; other site 991905001236 nudix motif; other site 991905001237 UGMP family protein; Validated; Region: PRK09604 991905001238 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 991905001239 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 991905001240 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 991905001241 domain interfaces; other site 991905001242 active site 991905001243 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 991905001244 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 991905001245 active site 991905001246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 991905001247 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 991905001248 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 991905001249 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 991905001250 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 991905001251 TrkA-C domain; Region: TrkA_C; pfam02080 991905001252 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 991905001253 enoyl-CoA hydratase; Provisional; Region: PRK07468 991905001254 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 991905001255 substrate binding site [chemical binding]; other site 991905001256 oxyanion hole (OAH) forming residues; other site 991905001257 trimer interface [polypeptide binding]; other site 991905001258 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 991905001259 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 991905001260 active site 991905001261 catalytic residues [active] 991905001262 metal binding site [ion binding]; metal-binding site 991905001263 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 991905001264 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 991905001265 active site 991905001266 acyl-activating enzyme (AAE) consensus motif; other site 991905001267 putative CoA binding site [chemical binding]; other site 991905001268 AMP binding site [chemical binding]; other site 991905001269 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 991905001270 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 991905001271 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905001272 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 991905001273 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 991905001274 carboxyltransferase (CT) interaction site; other site 991905001275 biotinylation site [posttranslational modification]; other site 991905001276 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 991905001277 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 991905001278 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905001279 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905001280 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 991905001281 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 991905001282 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 991905001283 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 991905001284 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 991905001285 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 991905001286 NADP binding site [chemical binding]; other site 991905001287 dimer interface [polypeptide binding]; other site 991905001288 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 991905001289 Homeodomain-like domain; Region: HTH_32; pfam13565 991905001290 DDE superfamily endonuclease; Region: DDE_3; pfam13358 991905001291 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 991905001292 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 991905001293 Peptidase family M48; Region: Peptidase_M48; pfam01435 991905001294 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 991905001295 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 991905001296 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 991905001297 DNA binding residues [nucleotide binding] 991905001298 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 991905001299 Ferredoxin [Energy production and conversion]; Region: COG1146 991905001300 4Fe-4S binding domain; Region: Fer4; cl02805 991905001301 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 991905001302 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 991905001303 RNA binding surface [nucleotide binding]; other site 991905001304 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 991905001305 DEAD/DEAH box helicase; Region: DEAD; pfam00270 991905001306 ATP binding site [chemical binding]; other site 991905001307 putative Mg++ binding site [ion binding]; other site 991905001308 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 991905001309 nucleotide binding region [chemical binding]; other site 991905001310 ATP-binding site [chemical binding]; other site 991905001311 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 991905001312 Autoinducer binding domain; Region: Autoind_bind; pfam03472 991905001313 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 991905001314 DNA binding residues [nucleotide binding] 991905001315 dimerization interface [polypeptide binding]; other site 991905001316 pyruvate carboxylase; Reviewed; Region: PRK12999 991905001317 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 991905001318 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905001319 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 991905001320 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 991905001321 active site 991905001322 catalytic residues [active] 991905001323 metal binding site [ion binding]; metal-binding site 991905001324 homodimer binding site [polypeptide binding]; other site 991905001325 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 991905001326 carboxyltransferase (CT) interaction site; other site 991905001327 biotinylation site [posttranslational modification]; other site 991905001328 Fic family protein [Function unknown]; Region: COG3177 991905001329 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 991905001330 Fic/DOC family; Region: Fic; pfam02661 991905001331 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 991905001332 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 991905001333 catalytic triad [active] 991905001334 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 991905001335 putative metal binding site [ion binding]; other site 991905001336 Imelysin; Region: Peptidase_M75; cl09159 991905001337 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 991905001338 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 991905001339 Imelysin; Region: Peptidase_M75; cl09159 991905001340 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 991905001341 Response regulator receiver domain; Region: Response_reg; pfam00072 991905001342 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 991905001343 active site 991905001344 phosphorylation site [posttranslational modification] 991905001345 intermolecular recognition site; other site 991905001346 dimerization interface [polypeptide binding]; other site 991905001347 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 991905001348 DNA binding residues [nucleotide binding] 991905001349 dimerization interface [polypeptide binding]; other site 991905001350 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 991905001351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905001352 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 991905001353 dimer interface [polypeptide binding]; other site 991905001354 phosphorylation site [posttranslational modification] 991905001355 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 991905001356 ATP binding site [chemical binding]; other site 991905001357 Mg2+ binding site [ion binding]; other site 991905001358 G-X-G motif; other site 991905001359 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 991905001360 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 991905001361 active site 991905001362 phosphorylation site [posttranslational modification] 991905001363 intermolecular recognition site; other site 991905001364 dimerization interface [polypeptide binding]; other site 991905001365 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905001366 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 991905001367 putative ligand binding site [chemical binding]; other site 991905001368 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905001369 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905001370 TM-ABC transporter signature motif; other site 991905001371 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905001372 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905001373 TM-ABC transporter signature motif; other site 991905001374 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 991905001375 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905001376 Walker A/P-loop; other site 991905001377 ATP binding site [chemical binding]; other site 991905001378 Q-loop/lid; other site 991905001379 ABC transporter signature motif; other site 991905001380 Walker B; other site 991905001381 D-loop; other site 991905001382 H-loop/switch region; other site 991905001383 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 991905001384 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905001385 Walker A/P-loop; other site 991905001386 ATP binding site [chemical binding]; other site 991905001387 Q-loop/lid; other site 991905001388 ABC transporter signature motif; other site 991905001389 Walker B; other site 991905001390 D-loop; other site 991905001391 H-loop/switch region; other site 991905001392 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 991905001393 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 991905001394 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 991905001395 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 991905001396 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 991905001397 active site 991905001398 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 991905001399 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 991905001400 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905001401 Walker A/P-loop; other site 991905001402 ATP binding site [chemical binding]; other site 991905001403 Q-loop/lid; other site 991905001404 ABC transporter signature motif; other site 991905001405 Walker B; other site 991905001406 D-loop; other site 991905001407 H-loop/switch region; other site 991905001408 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 991905001409 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905001410 Walker A/P-loop; other site 991905001411 ATP binding site [chemical binding]; other site 991905001412 Q-loop/lid; other site 991905001413 ABC transporter signature motif; other site 991905001414 Walker B; other site 991905001415 D-loop; other site 991905001416 H-loop/switch region; other site 991905001417 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905001418 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 991905001419 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 991905001420 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 991905001421 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 991905001422 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 991905001423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905001424 DNA-binding site [nucleotide binding]; DNA binding site 991905001425 UTRA domain; Region: UTRA; pfam07702 991905001426 Uncharacterized conserved protein [Function unknown]; Region: COG3025 991905001427 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 991905001428 putative active site [active] 991905001429 putative metal binding residues [ion binding]; other site 991905001430 signature motif; other site 991905001431 putative triphosphate binding site [ion binding]; other site 991905001432 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 991905001433 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 991905001434 Predicted membrane protein [Function unknown]; Region: COG1238 991905001435 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 991905001436 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 991905001437 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 991905001438 dimer interface [polypeptide binding]; other site 991905001439 substrate binding site [chemical binding]; other site 991905001440 metal binding sites [ion binding]; metal-binding site 991905001441 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 991905001442 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 991905001443 Coenzyme A binding pocket [chemical binding]; other site 991905001444 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 991905001445 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 991905001446 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 991905001447 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 991905001448 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 991905001449 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 991905001450 Walker A/P-loop; other site 991905001451 ATP binding site [chemical binding]; other site 991905001452 Q-loop/lid; other site 991905001453 ABC transporter signature motif; other site 991905001454 Walker B; other site 991905001455 D-loop; other site 991905001456 H-loop/switch region; other site 991905001457 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 991905001458 active site 991905001459 catalytic triad [active] 991905001460 oxyanion hole [active] 991905001461 switch loop; other site 991905001462 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 991905001463 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 991905001464 active site 991905001465 catalytic tetrad [active] 991905001466 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 991905001467 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 991905001468 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 991905001469 Uncharacterized conserved protein [Function unknown]; Region: COG3339 991905001470 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905001471 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905001472 active site 991905001473 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 991905001474 EamA-like transporter family; Region: EamA; pfam00892 991905001475 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 991905001476 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905001477 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905001478 dimer interface [polypeptide binding]; other site 991905001479 putative CheW interface [polypeptide binding]; other site 991905001480 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 991905001481 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905001482 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905001483 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 991905001484 nucleophilic elbow; other site 991905001485 catalytic triad; other site 991905001486 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 991905001487 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 991905001488 substrate binding site [chemical binding]; other site 991905001489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 991905001490 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905001491 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 991905001492 cyclase homology domain; Region: CHD; cd07302 991905001493 nucleotidyl binding site; other site 991905001494 metal binding site [ion binding]; metal-binding site 991905001495 dimer interface [polypeptide binding]; other site 991905001496 GtrA-like protein; Region: GtrA; pfam04138 991905001497 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 991905001498 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 991905001499 Ligand binding site; other site 991905001500 Putative Catalytic site; other site 991905001501 DXD motif; other site 991905001502 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 991905001503 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 991905001504 SEC-C motif; Region: SEC-C; pfam02810 991905001505 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 991905001506 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 991905001507 heterotetramer interface [polypeptide binding]; other site 991905001508 active site pocket [active] 991905001509 cleavage site 991905001510 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 991905001511 active site 991905001512 8-oxo-dGMP binding site [chemical binding]; other site 991905001513 nudix motif; other site 991905001514 metal binding site [ion binding]; metal-binding site 991905001515 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 991905001516 Methyltransferase domain; Region: Methyltransf_23; pfam13489 991905001517 Methyltransferase domain; Region: Methyltransf_11; pfam08241 991905001518 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 991905001519 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905001520 active site 991905001521 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 991905001522 GSH binding site [chemical binding]; other site 991905001523 catalytic residues [active] 991905001524 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 991905001525 putative active site [active] 991905001526 catalytic triad [active] 991905001527 dimer interface [polypeptide binding]; other site 991905001528 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 991905001529 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 991905001530 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 991905001531 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 991905001532 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 991905001533 TAP-like protein; Region: Abhydrolase_4; pfam08386 991905001534 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 991905001535 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 991905001536 S-adenosylmethionine binding site [chemical binding]; other site 991905001537 aspartate kinase; Reviewed; Region: PRK06635 991905001538 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 991905001539 putative nucleotide binding site [chemical binding]; other site 991905001540 putative catalytic residues [active] 991905001541 putative Mg ion binding site [ion binding]; other site 991905001542 putative aspartate binding site [chemical binding]; other site 991905001543 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 991905001544 putative allosteric regulatory site; other site 991905001545 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 991905001546 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 991905001547 GAF domain; Region: GAF; pfam01590 991905001548 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 991905001549 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 991905001550 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 991905001551 peptide chain release factor 1; Validated; Region: prfA; PRK00591 991905001552 This domain is found in peptide chain release factors; Region: PCRF; smart00937 991905001553 RF-1 domain; Region: RF-1; pfam00472 991905001554 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 991905001555 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 991905001556 S-adenosylmethionine binding site [chemical binding]; other site 991905001557 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 991905001558 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 991905001559 Clp amino terminal domain; Region: Clp_N; pfam02861 991905001560 Clp amino terminal domain; Region: Clp_N; pfam02861 991905001561 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 991905001562 Walker A motif; other site 991905001563 ATP binding site [chemical binding]; other site 991905001564 Walker B motif; other site 991905001565 arginine finger; other site 991905001566 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 991905001567 Walker A motif; other site 991905001568 ATP binding site [chemical binding]; other site 991905001569 Walker B motif; other site 991905001570 arginine finger; other site 991905001571 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 991905001572 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 991905001573 Peptidase family M23; Region: Peptidase_M23; pfam01551 991905001574 Replication initiator protein A; Region: RPA; pfam10134 991905001575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 991905001576 DDE superfamily endonuclease; Region: DDE_3; pfam13358 991905001577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 991905001578 MASE1; Region: MASE1; cl17823 991905001579 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 991905001580 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 991905001581 Walker A motif; other site 991905001582 ATP binding site [chemical binding]; other site 991905001583 Walker B motif; other site 991905001584 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 991905001585 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 991905001586 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 991905001587 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 991905001588 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 991905001589 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 991905001590 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 991905001591 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 991905001592 Transposase domain (DUF772); Region: DUF772; pfam05598 991905001593 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 991905001594 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 991905001595 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 991905001596 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 991905001597 ParB-like nuclease domain; Region: ParB; smart00470 991905001598 Protein of unknown function (DUF736); Region: DUF736; pfam05284 991905001599 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 991905001600 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 991905001601 PemK-like protein; Region: PemK; pfam02452 991905001602 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 991905001603 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 991905001604 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 991905001605 Walker A motif; other site 991905001606 ATP binding site [chemical binding]; other site 991905001607 Walker B motif; other site 991905001608 Autoinducer binding domain; Region: Autoind_bind; pfam03472 991905001609 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 991905001610 DNA binding residues [nucleotide binding] 991905001611 dimerization interface [polypeptide binding]; other site 991905001612 DEAD-like helicases superfamily; Region: DEXDc; smart00487 991905001613 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 991905001614 ATP binding site [chemical binding]; other site 991905001615 putative Mg++ binding site [ion binding]; other site 991905001616 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 991905001617 nucleotide binding region [chemical binding]; other site 991905001618 ATP-binding site [chemical binding]; other site 991905001619 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 991905001620 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 991905001621 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 991905001622 Predicted transcriptional regulator [Transcription]; Region: COG2378 991905001623 WYL domain; Region: WYL; pfam13280 991905001624 Helix-turn-helix domain; Region: HTH_17; pfam12728 991905001625 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 991905001626 active site 991905001627 DNA binding site [nucleotide binding] 991905001628 Int/Topo IB signature motif; other site 991905001629 Helix-turn-helix domain; Region: HTH_18; pfam12833 991905001630 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905001631 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 991905001632 putative transposase OrfB; Reviewed; Region: PHA02517 991905001633 HTH-like domain; Region: HTH_21; pfam13276 991905001634 Integrase core domain; Region: rve; pfam00665 991905001635 Integrase core domain; Region: rve_3; cl15866 991905001636 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 991905001637 Transposase; Region: HTH_Tnp_1; pfam01527 991905001638 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 991905001639 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 991905001640 CoA-transferase family III; Region: CoA_transf_3; pfam02515 991905001641 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905001642 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905001643 active site 991905001644 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 991905001645 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 991905001646 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 991905001647 active site 2 [active] 991905001648 active site 1 [active] 991905001649 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 991905001650 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905001651 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905001652 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905001653 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905001654 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905001655 DctM-like transporters; Region: DctM; pfam06808 991905001656 Beta-lactamase; Region: Beta-lactamase; pfam00144 991905001657 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 991905001658 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 991905001659 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 991905001660 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 991905001661 acyl-CoA synthetase; Validated; Region: PRK08162 991905001662 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 991905001663 acyl-activating enzyme (AAE) consensus motif; other site 991905001664 putative active site [active] 991905001665 AMP binding site [chemical binding]; other site 991905001666 putative CoA binding site [chemical binding]; other site 991905001667 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 991905001668 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905001669 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 991905001670 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 991905001671 ATP binding site [chemical binding]; other site 991905001672 G-X-G motif; other site 991905001673 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905001674 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 991905001675 active site 991905001676 phosphorylation site [posttranslational modification] 991905001677 intermolecular recognition site; other site 991905001678 dimerization interface [polypeptide binding]; other site 991905001679 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 991905001680 DNA binding site [nucleotide binding] 991905001681 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 991905001682 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 991905001683 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 991905001684 tartrate dehydrogenase; Region: TTC; TIGR02089 991905001685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 991905001686 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 991905001687 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 991905001688 PYR/PP interface [polypeptide binding]; other site 991905001689 dimer interface [polypeptide binding]; other site 991905001690 TPP binding site [chemical binding]; other site 991905001691 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 991905001692 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 991905001693 TPP-binding site [chemical binding]; other site 991905001694 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 991905001695 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 991905001696 NAD binding site [chemical binding]; other site 991905001697 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 991905001698 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 991905001699 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 991905001700 Protein of unknown function (DUF3830); Region: DUF3830; pfam12903 991905001701 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 991905001702 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 991905001703 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 991905001704 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 991905001705 dimer interface [polypeptide binding]; other site 991905001706 conserved gate region; other site 991905001707 putative PBP binding loops; other site 991905001708 ABC-ATPase subunit interface; other site 991905001709 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 991905001710 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 991905001711 dimer interface [polypeptide binding]; other site 991905001712 conserved gate region; other site 991905001713 putative PBP binding loops; other site 991905001714 ABC-ATPase subunit interface; other site 991905001715 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 991905001716 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905001717 Walker A/P-loop; other site 991905001718 ATP binding site [chemical binding]; other site 991905001719 Q-loop/lid; other site 991905001720 ABC transporter signature motif; other site 991905001721 Walker B; other site 991905001722 D-loop; other site 991905001723 H-loop/switch region; other site 991905001724 TOBE domain; Region: TOBE_2; pfam08402 991905001725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905001726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905001727 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 991905001728 dimerization interface [polypeptide binding]; other site 991905001729 putative protease; Provisional; Region: PRK15447 991905001730 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 991905001731 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 991905001732 Peptidase family U32; Region: Peptidase_U32; pfam01136 991905001733 SCP-2 sterol transfer family; Region: SCP2; cl01225 991905001734 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 991905001735 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 991905001736 Flavoprotein; Region: Flavoprotein; pfam02441 991905001737 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 991905001738 ApbE family; Region: ApbE; pfam02424 991905001739 NosL; Region: NosL; pfam05573 991905001740 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 991905001741 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 991905001742 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 991905001743 Walker A/P-loop; other site 991905001744 ATP binding site [chemical binding]; other site 991905001745 Q-loop/lid; other site 991905001746 ABC transporter signature motif; other site 991905001747 Walker B; other site 991905001748 D-loop; other site 991905001749 H-loop/switch region; other site 991905001750 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 991905001751 nitrous-oxide reductase, TAT-dependent; Region: nitrous_NosZ_RR; TIGR04244 991905001752 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 991905001753 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 991905001754 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 991905001755 4Fe-4S binding domain; Region: Fer4_5; pfam12801 991905001756 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 991905001757 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 991905001758 putative active site [active] 991905001759 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 991905001760 putative active site [active] 991905001761 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 991905001762 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 991905001763 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 991905001764 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 991905001765 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 991905001766 FeS/SAM binding site; other site 991905001767 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 991905001768 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905001769 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 991905001770 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905001771 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 991905001772 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905001773 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905001774 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 991905001775 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 991905001776 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 991905001777 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 991905001778 active site 991905001779 SAM binding site [chemical binding]; other site 991905001780 homodimer interface [polypeptide binding]; other site 991905001781 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 991905001782 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 991905001783 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 991905001784 FMN-binding domain; Region: FMN_bind; cl01081 991905001785 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 991905001786 4Fe-4S binding domain; Region: Fer4_5; pfam12801 991905001787 NnrS protein; Region: NnrS; pfam05940 991905001788 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 991905001789 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 991905001790 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 991905001791 Binuclear center (active site) [active] 991905001792 K-pathway; other site 991905001793 Putative proton exit pathway; other site 991905001794 MoxR-like ATPases [General function prediction only]; Region: COG0714 991905001795 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 991905001796 Walker A motif; other site 991905001797 ATP binding site [chemical binding]; other site 991905001798 Walker B motif; other site 991905001799 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 991905001800 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 991905001801 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 991905001802 metal ion-dependent adhesion site (MIDAS); other site 991905001803 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 991905001804 Subunit I/III interface [polypeptide binding]; other site 991905001805 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 991905001806 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 991905001807 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 991905001808 ligand binding site [chemical binding]; other site 991905001809 flexible hinge region; other site 991905001810 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 991905001811 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 991905001812 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 991905001813 homodimer interface [polypeptide binding]; other site 991905001814 ligand binding site [chemical binding]; other site 991905001815 NAD(P) binding site [chemical binding]; other site 991905001816 trimer interface B [polypeptide binding]; other site 991905001817 trimer interface A [polypeptide binding]; other site 991905001818 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 991905001819 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 991905001820 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 991905001821 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 991905001822 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 991905001823 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 991905001824 putative active site [active] 991905001825 putative substrate binding site [chemical binding]; other site 991905001826 putative cosubstrate binding site; other site 991905001827 catalytic site [active] 991905001828 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 991905001829 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905001830 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 991905001831 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 991905001832 DctM-like transporters; Region: DctM; pfam06808 991905001833 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 991905001834 Amidase; Region: Amidase; cl11426 991905001835 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 991905001836 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 991905001837 Walker A/P-loop; other site 991905001838 ATP binding site [chemical binding]; other site 991905001839 Q-loop/lid; other site 991905001840 ABC transporter signature motif; other site 991905001841 Walker B; other site 991905001842 D-loop; other site 991905001843 H-loop/switch region; other site 991905001844 Cobalt transport protein; Region: CbiQ; cl00463 991905001845 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 991905001846 BioY family; Region: BioY; pfam02632 991905001847 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 991905001848 AAA-like domain; Region: AAA_10; pfam12846 991905001849 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 991905001850 Walker A motif; other site 991905001851 ATP binding site [chemical binding]; other site 991905001852 Walker B motif; other site 991905001853 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 991905001854 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 991905001855 Gram-negative porin; Region: Porin_4; pfam13609 991905001856 AAA domain; Region: AAA_11; pfam13086 991905001857 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 991905001858 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905001859 AAA domain; Region: AAA_21; pfam13304 991905001860 Walker A/P-loop; other site 991905001861 ATP binding site [chemical binding]; other site 991905001862 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 991905001863 active site 991905001864 catalytic residues [active] 991905001865 DNA binding site [nucleotide binding] 991905001866 Int/Topo IB signature motif; other site 991905001867 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905001868 Ligand Binding Site [chemical binding]; other site 991905001869 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905001870 MarR family; Region: MarR_2; pfam12802 991905001871 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 991905001872 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 991905001873 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905001874 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 991905001875 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 991905001876 putative substrate translocation pore; other site 991905001877 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 991905001878 Predicted transcriptional regulators [Transcription]; Region: COG1733 991905001879 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 991905001880 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 991905001881 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 991905001882 NADP binding site [chemical binding]; other site 991905001883 Family description; Region: UvrD_C_2; pfam13538 991905001884 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 991905001885 ParB-like nuclease domain; Region: ParB; smart00470 991905001886 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 991905001887 acetate kinase; Provisional; Region: PRK07058 991905001888 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 991905001889 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 991905001890 dimer interaction site [polypeptide binding]; other site 991905001891 substrate-binding tunnel; other site 991905001892 active site 991905001893 catalytic site [active] 991905001894 substrate binding site [chemical binding]; other site 991905001895 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 991905001896 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 991905001897 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 991905001898 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 991905001899 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 991905001900 Protein of unknown function (DUF736); Region: DUF736; pfam05284 991905001901 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 991905001902 DNA-binding interface [nucleotide binding]; DNA binding site 991905001903 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 991905001904 HTH-like domain; Region: HTH_21; pfam13276 991905001905 Integrase core domain; Region: rve; pfam00665 991905001906 Integrase core domain; Region: rve_3; pfam13683 991905001907 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 991905001908 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 991905001909 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 991905001910 Walker A motif; other site 991905001911 ATP binding site [chemical binding]; other site 991905001912 Walker B motif; other site 991905001913 HicB family; Region: HicB; pfam05534 991905001914 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 991905001915 Autoinducer binding domain; Region: Autoind_bind; pfam03472 991905001916 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 991905001917 DNA binding residues [nucleotide binding] 991905001918 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 991905001919 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 991905001920 Walker A motif; other site 991905001921 ATP binding site [chemical binding]; other site 991905001922 Walker B motif; other site 991905001923 arginine finger; other site 991905001924 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905001925 Integrase core domain; Region: rve; pfam00665 991905001926 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 991905001927 DNA binding residues [nucleotide binding] 991905001928 dimerization interface [polypeptide binding]; other site 991905001929 Autoinducer synthetase; Region: Autoind_synth; cl17404 991905001930 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 991905001931 active site 991905001932 catalytic residues [active] 991905001933 DNA binding site [nucleotide binding] 991905001934 Int/Topo IB signature motif; other site 991905001935 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 991905001936 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 991905001937 catalytic residues [active] 991905001938 catalytic nucleophile [active] 991905001939 Presynaptic Site I dimer interface [polypeptide binding]; other site 991905001940 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 991905001941 Synaptic Flat tetramer interface [polypeptide binding]; other site 991905001942 Synaptic Site I dimer interface [polypeptide binding]; other site 991905001943 DNA binding site [nucleotide binding] 991905001944 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 991905001945 DNA-binding interface [nucleotide binding]; DNA binding site 991905001946 Peptidase family M48; Region: Peptidase_M48; cl12018 991905001947 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 991905001948 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 991905001949 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 991905001950 protein binding site [polypeptide binding]; other site 991905001951 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 991905001952 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 991905001953 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 991905001954 putative dimer interface [polypeptide binding]; other site 991905001955 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 991905001956 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 991905001957 putative dimer interface [polypeptide binding]; other site 991905001958 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 991905001959 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 991905001960 putative dimer interface [polypeptide binding]; other site 991905001961 MarR family; Region: MarR_2; pfam12802 991905001962 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905001963 MarR family; Region: MarR_2; cl17246 991905001964 FtsH Extracellular; Region: FtsH_ext; pfam06480 991905001965 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 991905001966 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 991905001967 Walker A motif; other site 991905001968 ATP binding site [chemical binding]; other site 991905001969 Walker B motif; other site 991905001970 arginine finger; other site 991905001971 Peptidase family M41; Region: Peptidase_M41; pfam01434 991905001972 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 991905001973 Clp amino terminal domain; Region: Clp_N; pfam02861 991905001974 Clp amino terminal domain; Region: Clp_N; pfam02861 991905001975 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 991905001976 Walker A motif; other site 991905001977 ATP binding site [chemical binding]; other site 991905001978 Walker B motif; other site 991905001979 arginine finger; other site 991905001980 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 991905001981 Walker A motif; other site 991905001982 ATP binding site [chemical binding]; other site 991905001983 Walker B motif; other site 991905001984 arginine finger; other site 991905001985 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 991905001986 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 991905001987 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 991905001988 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 991905001989 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 991905001990 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 991905001991 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 991905001992 active site 991905001993 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 991905001994 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 991905001995 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 991905001996 Helix-turn-helix domain; Region: HTH_17; pfam12728 991905001997 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 991905001998 active site 991905001999 DNA binding site [nucleotide binding] 991905002000 Int/Topo IB signature motif; other site 991905002001 Replication initiator protein A; Region: RPA; pfam10134 991905002002 MASE1; Region: MASE1; cl17823 991905002003 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 991905002004 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 991905002005 Walker A motif; other site 991905002006 ATP binding site [chemical binding]; other site 991905002007 Walker B motif; other site 991905002008 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 991905002009 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 991905002010 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 991905002011 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 991905002012 Walker A motif; other site 991905002013 ATP binding site [chemical binding]; other site 991905002014 Walker B motif; other site 991905002015 arginine finger; other site 991905002016 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 991905002017 active site 991905002018 catalytic triad [active] 991905002019 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 991905002020 active site 991905002021 catalytic residues [active] 991905002022 DNA binding site [nucleotide binding] 991905002023 Int/Topo IB signature motif; other site 991905002024 Helix-turn-helix domain; Region: HTH_28; pfam13518 991905002025 Winged helix-turn helix; Region: HTH_29; pfam13551 991905002026 Homeodomain-like domain; Region: HTH_32; pfam13565 991905002027 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 991905002028 Integrase core domain; Region: rve; pfam00665 991905002029 Integrase core domain; Region: rve_3; pfam13683 991905002030 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 991905002031 FecR protein; Region: FecR; pfam04773 991905002032 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 991905002033 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 991905002034 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 991905002035 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 991905002036 ParB-like nuclease domain; Region: ParB; smart00470 991905002037 Protein of unknown function (DUF736); Region: DUF736; pfam05284 991905002038 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 991905002039 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 991905002040 Homeodomain-like domain; Region: HTH_32; pfam13565 991905002041 DDE superfamily endonuclease; Region: DDE_3; pfam13358 991905002042 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 991905002043 Transposase; Region: DEDD_Tnp_IS110; pfam01548 991905002044 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 991905002045 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 991905002046 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 991905002047 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 991905002048 PemK-like protein; Region: PemK; pfam02452 991905002049 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 991905002050 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 991905002051 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 991905002052 Walker A motif; other site 991905002053 ATP binding site [chemical binding]; other site 991905002054 Walker B motif; other site 991905002055 HicB family; Region: HicB; pfam05534 991905002056 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 991905002057 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 991905002058 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 991905002059 Homeodomain-like domain; Region: HTH_32; pfam13565 991905002060 DDE superfamily endonuclease; Region: DDE_3; pfam13358 991905002061 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 991905002062 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 991905002063 P-loop; other site 991905002064 Magnesium ion binding site [ion binding]; other site 991905002065 Autoinducer binding domain; Region: Autoind_bind; pfam03472 991905002066 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 991905002067 DNA binding residues [nucleotide binding] 991905002068 dimerization interface [polypeptide binding]; other site 991905002069 Autoinducer synthetase; Region: Autoind_synth; cl17404 991905002070 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 991905002071 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 991905002072 catalytic residues [active] 991905002073 catalytic nucleophile [active] 991905002074 Presynaptic Site I dimer interface [polypeptide binding]; other site 991905002075 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 991905002076 Synaptic Flat tetramer interface [polypeptide binding]; other site 991905002077 Synaptic Site I dimer interface [polypeptide binding]; other site 991905002078 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 991905002079 DNA-binding interface [nucleotide binding]; DNA binding site 991905002080 Helix-turn-helix domain; Region: HTH_28; pfam13518 991905002081 Winged helix-turn helix; Region: HTH_29; pfam13551 991905002082 Homeodomain-like domain; Region: HTH_32; pfam13565 991905002083 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 991905002084 Integrase core domain; Region: rve; pfam00665 991905002085 Integrase core domain; Region: rve_3; pfam13683 991905002086 AAA ATPase domain; Region: AAA_15; pfam13175 991905002087 Winged helix-turn helix; Region: HTH_29; pfam13551 991905002088 Helix-turn-helix domain; Region: HTH_28; pfam13518 991905002089 Integrase core domain; Region: rve; pfam00665 991905002090 Integrase core domain; Region: rve_3; pfam13683 991905002091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905002092 Walker A/P-loop; other site 991905002093 ATP binding site [chemical binding]; other site 991905002094 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 991905002095 Predicted transcriptional regulator [Transcription]; Region: COG2378 991905002096 WYL domain; Region: WYL; pfam13280 991905002097 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 991905002098 HsdM N-terminal domain; Region: HsdM_N; pfam12161 991905002099 Methyltransferase domain; Region: Methyltransf_26; pfam13659 991905002100 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 991905002101 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 991905002102 Transposase domain (DUF772); Region: DUF772; pfam05598 991905002103 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 991905002104 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 991905002105 Abortive infection C-terminus; Region: Abi_C; pfam14355 991905002106 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 991905002107 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 991905002108 Walker A motif; other site 991905002109 ATP binding site [chemical binding]; other site 991905002110 Walker B motif; other site 991905002111 arginine finger; other site 991905002112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905002113 Integrase core domain; Region: rve; pfam00665 991905002114 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 991905002115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905002116 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 991905002117 dimerization interface [polypeptide binding]; other site 991905002118 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 991905002119 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 991905002120 inhibitor-cofactor binding pocket; inhibition site 991905002121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905002122 catalytic residue [active] 991905002123 succinic semialdehyde dehydrogenase; Region: PLN02278 991905002124 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 991905002125 tetramerization interface [polypeptide binding]; other site 991905002126 NAD(P) binding site [chemical binding]; other site 991905002127 catalytic residues [active] 991905002128 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905002129 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905002130 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 991905002131 putative substrate binding pocket [chemical binding]; other site 991905002132 dimerization interface [polypeptide binding]; other site 991905002133 Aspergillus nidulans lactam utilization protein LamB and similar proteins; Region: LamB_like; cd11665 991905002134 putative active site [active] 991905002135 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 991905002136 carboxyltransferase (CT) interaction site; other site 991905002137 biotinylation site [posttranslational modification]; other site 991905002138 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 991905002139 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 991905002140 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905002141 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 991905002142 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 991905002143 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 991905002144 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 991905002145 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 991905002146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905002147 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 991905002148 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 991905002149 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 991905002150 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 991905002151 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 991905002152 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905002153 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905002154 Walker A/P-loop; other site 991905002155 ATP binding site [chemical binding]; other site 991905002156 Q-loop/lid; other site 991905002157 ABC transporter signature motif; other site 991905002158 Walker B; other site 991905002159 D-loop; other site 991905002160 H-loop/switch region; other site 991905002161 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905002162 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905002163 Walker A/P-loop; other site 991905002164 ATP binding site [chemical binding]; other site 991905002165 Q-loop/lid; other site 991905002166 ABC transporter signature motif; other site 991905002167 Walker B; other site 991905002168 D-loop; other site 991905002169 H-loop/switch region; other site 991905002170 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905002171 TM-ABC transporter signature motif; other site 991905002172 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905002173 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905002174 TM-ABC transporter signature motif; other site 991905002175 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905002176 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 991905002177 ligand binding site [chemical binding]; other site 991905002178 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 991905002179 Cupin domain; Region: Cupin_2; cl17218 991905002180 SnoaL-like domain; Region: SnoaL_2; pfam12680 991905002181 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 991905002182 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 991905002183 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 991905002184 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 991905002185 dimer interface [polypeptide binding]; other site 991905002186 putative PBP binding loops; other site 991905002187 ABC-ATPase subunit interface; other site 991905002188 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 991905002189 dimer interface [polypeptide binding]; other site 991905002190 conserved gate region; other site 991905002191 putative PBP binding loops; other site 991905002192 ABC-ATPase subunit interface; other site 991905002193 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 991905002194 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 991905002195 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 991905002196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905002197 Walker A/P-loop; other site 991905002198 ATP binding site [chemical binding]; other site 991905002199 Q-loop/lid; other site 991905002200 ABC transporter signature motif; other site 991905002201 Walker B; other site 991905002202 D-loop; other site 991905002203 H-loop/switch region; other site 991905002204 TOBE domain; Region: TOBE_2; pfam08402 991905002205 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 991905002206 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 991905002207 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 991905002208 NMT1/THI5 like; Region: NMT1; pfam09084 991905002209 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 991905002210 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 991905002211 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 991905002212 homodimer interface [polypeptide binding]; other site 991905002213 active site 991905002214 FMN binding site [chemical binding]; other site 991905002215 substrate binding site [chemical binding]; other site 991905002216 4Fe-4S binding domain; Region: Fer4; cl02805 991905002217 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 991905002218 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 991905002219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 991905002220 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 991905002221 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 991905002222 putative NAD(P) binding site [chemical binding]; other site 991905002223 active site 991905002224 putative substrate binding site [chemical binding]; other site 991905002225 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 991905002226 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 991905002227 Substrate binding site; other site 991905002228 Cupin domain; Region: Cupin_2; cl17218 991905002229 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 991905002230 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 991905002231 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 991905002232 nucleotide binding site [chemical binding]; other site 991905002233 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 991905002234 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 991905002235 putative ligand binding site [chemical binding]; other site 991905002236 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 991905002237 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 991905002238 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905002239 TM-ABC transporter signature motif; other site 991905002240 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 991905002241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905002242 Walker A/P-loop; other site 991905002243 ATP binding site [chemical binding]; other site 991905002244 Q-loop/lid; other site 991905002245 ABC transporter signature motif; other site 991905002246 Walker B; other site 991905002247 D-loop; other site 991905002248 H-loop/switch region; other site 991905002249 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 991905002250 N- and C-terminal domain interface [polypeptide binding]; other site 991905002251 D-xylulose kinase; Region: XylB; TIGR01312 991905002252 active site 991905002253 MgATP binding site [chemical binding]; other site 991905002254 catalytic site [active] 991905002255 metal binding site [ion binding]; metal-binding site 991905002256 xylulose binding site [chemical binding]; other site 991905002257 homodimer interface [polypeptide binding]; other site 991905002258 xylose isomerase; Provisional; Region: PRK05474 991905002259 xylose isomerase; Region: xylose_isom_A; TIGR02630 991905002260 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 991905002261 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 991905002262 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 991905002263 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 991905002264 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 991905002265 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 991905002266 active site 991905002267 homotetramer interface [polypeptide binding]; other site 991905002268 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 991905002269 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 991905002270 dimer interface [polypeptide binding]; other site 991905002271 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 991905002272 active site 991905002273 Fe binding site [ion binding]; other site 991905002274 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905002275 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 991905002276 putative DNA binding site [nucleotide binding]; other site 991905002277 putative Zn2+ binding site [ion binding]; other site 991905002278 AsnC family; Region: AsnC_trans_reg; pfam01037 991905002279 Protein of unknown function (DUF533); Region: DUF533; pfam04391 991905002280 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 991905002281 putative metal binding site [ion binding]; other site 991905002282 choline dehydrogenase; Validated; Region: PRK02106 991905002283 lycopene cyclase; Region: lycopene_cycl; TIGR01789 991905002284 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 991905002285 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 991905002286 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 991905002287 dimer interface [polypeptide binding]; other site 991905002288 phosphorylation site [posttranslational modification] 991905002289 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 991905002290 ATP binding site [chemical binding]; other site 991905002291 Mg2+ binding site [ion binding]; other site 991905002292 G-X-G motif; other site 991905002293 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 991905002294 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 991905002295 active site 991905002296 phosphorylation site [posttranslational modification] 991905002297 intermolecular recognition site; other site 991905002298 dimerization interface [polypeptide binding]; other site 991905002299 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 991905002300 Walker A motif; other site 991905002301 ATP binding site [chemical binding]; other site 991905002302 Walker B motif; other site 991905002303 arginine finger; other site 991905002304 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 991905002305 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905002306 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 991905002307 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 991905002308 DctM-like transporters; Region: DctM; pfam06808 991905002309 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905002310 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 991905002311 SCP-2 sterol transfer family; Region: SCP2; pfam02036 991905002312 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 991905002313 hypothetical protein; Provisional; Region: PRK06126 991905002314 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 991905002315 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 991905002316 metal-binding site [ion binding] 991905002317 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 991905002318 metal-binding site [ion binding] 991905002319 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 991905002320 metal-binding site [ion binding] 991905002321 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 991905002322 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 991905002323 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 991905002324 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905002325 Walker A/P-loop; other site 991905002326 ATP binding site [chemical binding]; other site 991905002327 Q-loop/lid; other site 991905002328 ABC transporter signature motif; other site 991905002329 Walker B; other site 991905002330 D-loop; other site 991905002331 H-loop/switch region; other site 991905002332 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905002333 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905002334 Walker A/P-loop; other site 991905002335 ATP binding site [chemical binding]; other site 991905002336 Q-loop/lid; other site 991905002337 ABC transporter signature motif; other site 991905002338 Walker B; other site 991905002339 D-loop; other site 991905002340 H-loop/switch region; other site 991905002341 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905002342 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 991905002343 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 991905002344 dimer interface [polypeptide binding]; other site 991905002345 conserved gate region; other site 991905002346 putative PBP binding loops; other site 991905002347 ABC-ATPase subunit interface; other site 991905002348 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 991905002349 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 991905002350 dimer interface [polypeptide binding]; other site 991905002351 putative PBP binding loops; other site 991905002352 ABC-ATPase subunit interface; other site 991905002353 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 991905002354 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 991905002355 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 991905002356 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 991905002357 catalytic loop [active] 991905002358 iron binding site [ion binding]; other site 991905002359 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 991905002360 cyclase homology domain; Region: CHD; cd07302 991905002361 nucleotidyl binding site; other site 991905002362 metal binding site [ion binding]; metal-binding site 991905002363 dimer interface [polypeptide binding]; other site 991905002364 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 991905002365 FAD binding domain; Region: FAD_binding_4; pfam01565 991905002366 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 991905002367 ArsC family; Region: ArsC; pfam03960 991905002368 putative catalytic residues [active] 991905002369 Peptidase M15; Region: Peptidase_M15_3; cl01194 991905002370 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 991905002371 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 991905002372 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 991905002373 active site residue [active] 991905002374 PilZ domain; Region: PilZ; pfam07238 991905002375 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 991905002376 putative ligand binding site [chemical binding]; other site 991905002377 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 991905002378 NAD binding site [chemical binding]; other site 991905002379 catalytic site [active] 991905002380 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905002381 DctM-like transporters; Region: DctM; pfam06808 991905002382 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905002383 Creatinine amidohydrolase; Region: Creatininase; pfam02633 991905002384 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 991905002385 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 991905002386 active site 991905002387 putative substrate binding pocket [chemical binding]; other site 991905002388 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 991905002389 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 991905002390 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 991905002391 homotrimer interaction site [polypeptide binding]; other site 991905002392 putative active site [active] 991905002393 NMT1/THI5 like; Region: NMT1; pfam09084 991905002394 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 991905002395 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 991905002396 Walker A/P-loop; other site 991905002397 ATP binding site [chemical binding]; other site 991905002398 Q-loop/lid; other site 991905002399 ABC transporter signature motif; other site 991905002400 Walker B; other site 991905002401 D-loop; other site 991905002402 H-loop/switch region; other site 991905002403 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905002404 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 991905002405 cytosine deaminase-like protein; Validated; Region: PRK07583 991905002406 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 991905002407 active site 991905002408 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 991905002409 FAD binding domain; Region: FAD_binding_4; pfam01565 991905002410 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 991905002411 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 991905002412 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 991905002413 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 991905002414 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905002415 MarR family; Region: MarR_2; pfam12802 991905002416 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905002417 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905002418 dimer interface [polypeptide binding]; other site 991905002419 putative CheW interface [polypeptide binding]; other site 991905002420 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 991905002421 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 991905002422 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 991905002423 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 991905002424 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 991905002425 DNA binding site [nucleotide binding] 991905002426 active site 991905002427 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 991905002428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 991905002429 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905002430 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 991905002431 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 991905002432 ligand binding site [chemical binding]; other site 991905002433 Transcriptional regulators [Transcription]; Region: PurR; COG1609 991905002434 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 991905002435 DNA binding site [nucleotide binding] 991905002436 domain linker motif; other site 991905002437 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 991905002438 putative dimerization interface [polypeptide binding]; other site 991905002439 putative ligand binding site [chemical binding]; other site 991905002440 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 991905002441 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 991905002442 transmembrane helices; other site 991905002443 aspartate aminotransferase; Provisional; Region: PRK05764 991905002444 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 991905002445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905002446 homodimer interface [polypeptide binding]; other site 991905002447 catalytic residue [active] 991905002448 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 991905002449 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 991905002450 P-loop, Walker A motif; other site 991905002451 Base recognition motif; other site 991905002452 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 991905002453 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 991905002454 structural tetrad; other site 991905002455 FOG: WD40 repeat [General function prediction only]; Region: COG2319 991905002456 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 991905002457 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 991905002458 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 991905002459 Helix-turn-helix domain; Region: HTH_28; pfam13518 991905002460 Winged helix-turn helix; Region: HTH_29; pfam13551 991905002461 Homeodomain-like domain; Region: HTH_32; pfam13565 991905002462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 991905002463 Integrase core domain; Region: rve; pfam00665 991905002464 Integrase core domain; Region: rve_3; pfam13683 991905002465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905002466 LysR family transcriptional regulator; Provisional; Region: PRK14997 991905002467 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 991905002468 putative effector binding pocket; other site 991905002469 dimerization interface [polypeptide binding]; other site 991905002470 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 991905002471 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 991905002472 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 991905002473 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 991905002474 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 991905002475 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 991905002476 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 991905002477 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 991905002478 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 991905002479 catalytic triad [active] 991905002480 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 991905002481 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 991905002482 active site 991905002483 phosphorylation site [posttranslational modification] 991905002484 intermolecular recognition site; other site 991905002485 dimerization interface [polypeptide binding]; other site 991905002486 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 991905002487 DNA binding residues [nucleotide binding] 991905002488 dimerization interface [polypeptide binding]; other site 991905002489 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 991905002490 Cache domain; Region: Cache_2; pfam08269 991905002491 Histidine kinase; Region: HisKA_3; pfam07730 991905002492 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 991905002493 ATP binding site [chemical binding]; other site 991905002494 Mg2+ binding site [ion binding]; other site 991905002495 G-X-G motif; other site 991905002496 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 991905002497 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905002498 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 991905002499 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905002500 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905002501 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 991905002502 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905002503 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905002504 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 991905002505 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 991905002506 dimer interface [polypeptide binding]; other site 991905002507 PYR/PP interface [polypeptide binding]; other site 991905002508 TPP binding site [chemical binding]; other site 991905002509 substrate binding site [chemical binding]; other site 991905002510 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 991905002511 TPP-binding site [chemical binding]; other site 991905002512 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 991905002513 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905002514 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 991905002515 active site 991905002516 phosphorylation site [posttranslational modification] 991905002517 intermolecular recognition site; other site 991905002518 dimerization interface [polypeptide binding]; other site 991905002519 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 991905002520 DNA binding site [nucleotide binding] 991905002521 PAS fold; Region: PAS_7; pfam12860 991905002522 PAS fold; Region: PAS_4; pfam08448 991905002523 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905002524 putative active site [active] 991905002525 heme pocket [chemical binding]; other site 991905002526 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905002527 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 991905002528 dimer interface [polypeptide binding]; other site 991905002529 phosphorylation site [posttranslational modification] 991905002530 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 991905002531 ATP binding site [chemical binding]; other site 991905002532 Mg2+ binding site [ion binding]; other site 991905002533 G-X-G motif; other site 991905002534 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 991905002535 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 991905002536 active site 991905002537 phosphorylation site [posttranslational modification] 991905002538 intermolecular recognition site; other site 991905002539 dimerization interface [polypeptide binding]; other site 991905002540 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 991905002541 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905002542 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 991905002543 acyl-activating enzyme (AAE) consensus motif; other site 991905002544 putative AMP binding site [chemical binding]; other site 991905002545 putative active site [active] 991905002546 putative CoA binding site [chemical binding]; other site 991905002547 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905002548 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905002549 Walker A/P-loop; other site 991905002550 ATP binding site [chemical binding]; other site 991905002551 Q-loop/lid; other site 991905002552 ABC transporter signature motif; other site 991905002553 Walker B; other site 991905002554 D-loop; other site 991905002555 H-loop/switch region; other site 991905002556 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905002557 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905002558 TM-ABC transporter signature motif; other site 991905002559 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905002560 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905002561 TM-ABC transporter signature motif; other site 991905002562 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905002563 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 991905002564 putative ligand binding site [chemical binding]; other site 991905002565 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905002566 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905002567 Walker A/P-loop; other site 991905002568 ATP binding site [chemical binding]; other site 991905002569 Q-loop/lid; other site 991905002570 ABC transporter signature motif; other site 991905002571 Walker B; other site 991905002572 D-loop; other site 991905002573 H-loop/switch region; other site 991905002574 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905002575 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 991905002576 acyl-activating enzyme (AAE) consensus motif; other site 991905002577 AMP binding site [chemical binding]; other site 991905002578 active site 991905002579 CoA binding site [chemical binding]; other site 991905002580 ferrochelatase; Reviewed; Region: hemH; PRK00035 991905002581 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 991905002582 C-terminal domain interface [polypeptide binding]; other site 991905002583 active site 991905002584 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 991905002585 active site 991905002586 N-terminal domain interface [polypeptide binding]; other site 991905002587 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 991905002588 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 991905002589 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 991905002590 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 991905002591 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 991905002592 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 991905002593 ligand binding site [chemical binding]; other site 991905002594 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 991905002595 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 991905002596 KpsF/GutQ family protein; Region: kpsF; TIGR00393 991905002597 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 991905002598 putative active site [active] 991905002599 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 991905002600 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 991905002601 Transglycosylase SLT domain; Region: SLT_2; pfam13406 991905002602 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 991905002603 N-acetyl-D-glucosamine binding site [chemical binding]; other site 991905002604 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905002605 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 991905002606 active site 991905002607 catalytic triad [active] 991905002608 oxyanion hole [active] 991905002609 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 991905002610 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 991905002611 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 991905002612 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 991905002613 active site 991905002614 dimer interface [polypeptide binding]; other site 991905002615 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 991905002616 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 991905002617 active site 991905002618 FMN binding site [chemical binding]; other site 991905002619 substrate binding site [chemical binding]; other site 991905002620 3Fe-4S cluster binding site [ion binding]; other site 991905002621 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 991905002622 domain interface; other site 991905002623 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 991905002624 hypothetical protein; Provisional; Region: PRK05409 991905002625 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 991905002626 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 991905002627 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 991905002628 tetramer interface [polypeptide binding]; other site 991905002629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905002630 catalytic residue [active] 991905002631 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 991905002632 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 991905002633 putative dimer interface [polypeptide binding]; other site 991905002634 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 991905002635 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 991905002636 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 991905002637 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 991905002638 active site 991905002639 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 991905002640 Response regulator receiver domain; Region: Response_reg; pfam00072 991905002641 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 991905002642 active site 991905002643 phosphorylation site [posttranslational modification] 991905002644 intermolecular recognition site; other site 991905002645 dimerization interface [polypeptide binding]; other site 991905002646 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 991905002647 TPR repeat; Region: TPR_11; pfam13414 991905002648 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 991905002649 binding surface 991905002650 TPR motif; other site 991905002651 TPR repeat; Region: TPR_11; pfam13414 991905002652 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 991905002653 pyruvate kinase; Provisional; Region: PRK06247 991905002654 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 991905002655 domain interfaces; other site 991905002656 active site 991905002657 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 991905002658 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 991905002659 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 991905002660 MOFRL family; Region: MOFRL; pfam05161 991905002661 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 991905002662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 991905002663 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 991905002664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 991905002665 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 991905002666 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 991905002667 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 991905002668 active site 991905002669 phosphorylation site [posttranslational modification] 991905002670 intermolecular recognition site; other site 991905002671 dimerization interface [polypeptide binding]; other site 991905002672 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 991905002673 Walker A motif; other site 991905002674 ATP binding site [chemical binding]; other site 991905002675 Walker B motif; other site 991905002676 arginine finger; other site 991905002677 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 991905002678 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 991905002679 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 991905002680 active site 991905002681 Zn binding site [ion binding]; other site 991905002682 Predicted transcriptional regulator [Transcription]; Region: COG3905 991905002683 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 991905002684 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 991905002685 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 991905002686 ABC1 family; Region: ABC1; cl17513 991905002687 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 991905002688 active site 991905002689 ATP binding site [chemical binding]; other site 991905002690 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 991905002691 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 991905002692 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 991905002693 active site 991905002694 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 991905002695 TPR motif; other site 991905002696 TPR repeat; Region: TPR_11; pfam13414 991905002697 binding surface 991905002698 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 991905002699 binding surface 991905002700 TPR motif; other site 991905002701 TPR repeat; Region: TPR_11; pfam13414 991905002702 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 991905002703 binding surface 991905002704 TPR motif; other site 991905002705 TPR repeat; Region: TPR_11; pfam13414 991905002706 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 991905002707 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 991905002708 putative efflux protein, MATE family; Region: matE; TIGR00797 991905002709 cation binding site [ion binding]; other site 991905002710 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 991905002711 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 991905002712 ATP-grasp domain; Region: ATP-grasp; pfam02222 991905002713 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 991905002714 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 991905002715 Uncharacterized small protein [Function unknown]; Region: COG5570 991905002716 acyl-CoA synthetase; Validated; Region: PRK08162 991905002717 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 991905002718 acyl-activating enzyme (AAE) consensus motif; other site 991905002719 putative active site [active] 991905002720 AMP binding site [chemical binding]; other site 991905002721 putative CoA binding site [chemical binding]; other site 991905002722 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 991905002723 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 991905002724 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 991905002725 acyl-activating enzyme (AAE) consensus motif; other site 991905002726 putative AMP binding site [chemical binding]; other site 991905002727 putative active site [active] 991905002728 putative CoA binding site [chemical binding]; other site 991905002729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905002730 NAD(P) binding site [chemical binding]; other site 991905002731 active site 991905002732 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 991905002733 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 991905002734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905002735 Walker A/P-loop; other site 991905002736 ATP binding site [chemical binding]; other site 991905002737 Q-loop/lid; other site 991905002738 ABC transporter signature motif; other site 991905002739 Walker B; other site 991905002740 D-loop; other site 991905002741 H-loop/switch region; other site 991905002742 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 991905002743 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 991905002744 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 991905002745 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 991905002746 NAD(P) binding site [chemical binding]; other site 991905002747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 991905002748 potassium/proton antiporter; Reviewed; Region: PRK05326 991905002749 Transporter associated domain; Region: CorC_HlyC; smart01091 991905002750 hypothetical protein; Validated; Region: PRK09039 991905002751 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 991905002752 ligand binding site [chemical binding]; other site 991905002753 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 991905002754 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 991905002755 active site 991905002756 dimerization interface [polypeptide binding]; other site 991905002757 elongation factor P; Validated; Region: PRK00529 991905002758 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 991905002759 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 991905002760 RNA binding site [nucleotide binding]; other site 991905002761 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 991905002762 RNA binding site [nucleotide binding]; other site 991905002763 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 991905002764 Sel1-like repeats; Region: SEL1; smart00671 991905002765 Sel1-like repeats; Region: SEL1; smart00671 991905002766 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 991905002767 thiamine phosphate binding site [chemical binding]; other site 991905002768 active site 991905002769 pyrophosphate binding site [ion binding]; other site 991905002770 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 991905002771 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 991905002772 intersubunit interface [polypeptide binding]; other site 991905002773 active site 991905002774 zinc binding site [ion binding]; other site 991905002775 Na+ binding site [ion binding]; other site 991905002776 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 991905002777 Phosphoglycerate kinase; Region: PGK; pfam00162 991905002778 substrate binding site [chemical binding]; other site 991905002779 hinge regions; other site 991905002780 ADP binding site [chemical binding]; other site 991905002781 catalytic site [active] 991905002782 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 991905002783 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 991905002784 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 991905002785 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 991905002786 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 991905002787 TPP-binding site [chemical binding]; other site 991905002788 dimer interface [polypeptide binding]; other site 991905002789 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 991905002790 PYR/PP interface [polypeptide binding]; other site 991905002791 dimer interface [polypeptide binding]; other site 991905002792 TPP binding site [chemical binding]; other site 991905002793 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 991905002794 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 991905002795 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 991905002796 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 991905002797 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 991905002798 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 991905002799 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 991905002800 putative active site [active] 991905002801 metal binding site [ion binding]; metal-binding site 991905002802 homodimer binding site [polypeptide binding]; other site 991905002803 hypothetical protein; Validated; Region: PRK00110 991905002804 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 991905002805 active site 991905002806 putative DNA-binding cleft [nucleotide binding]; other site 991905002807 dimer interface [polypeptide binding]; other site 991905002808 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 991905002809 RuvA N terminal domain; Region: RuvA_N; pfam01330 991905002810 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 991905002811 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 991905002812 Walker A motif; other site 991905002813 ATP binding site [chemical binding]; other site 991905002814 Walker B motif; other site 991905002815 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 991905002816 HAMP domain; Region: HAMP; pfam00672 991905002817 dimerization interface [polypeptide binding]; other site 991905002818 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905002819 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 991905002820 dimer interface [polypeptide binding]; other site 991905002821 putative CheW interface [polypeptide binding]; other site 991905002822 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 991905002823 active site 991905002824 TolQ protein; Region: tolQ; TIGR02796 991905002825 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 991905002826 TolR protein; Region: tolR; TIGR02801 991905002827 TolA protein; Region: tolA_full; TIGR02794 991905002828 translocation protein TolB; Provisional; Region: tolB; PRK05137 991905002829 TolB amino-terminal domain; Region: TolB_N; pfam04052 991905002830 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 991905002831 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 991905002832 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 991905002833 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 991905002834 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 991905002835 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 991905002836 ligand binding site [chemical binding]; other site 991905002837 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 991905002838 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 991905002839 TPR motif; other site 991905002840 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 991905002841 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 991905002842 Ligand Binding Site [chemical binding]; other site 991905002843 FtsH Extracellular; Region: FtsH_ext; pfam06480 991905002844 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 991905002845 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 991905002846 Walker A motif; other site 991905002847 ATP binding site [chemical binding]; other site 991905002848 Walker B motif; other site 991905002849 arginine finger; other site 991905002850 Peptidase family M41; Region: Peptidase_M41; pfam01434 991905002851 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 991905002852 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 991905002853 active site 991905002854 substrate binding site [chemical binding]; other site 991905002855 metal binding site [ion binding]; metal-binding site 991905002856 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 991905002857 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; cd01494 991905002858 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905002859 catalytic residue [active] 991905002860 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 991905002861 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 991905002862 ligand binding site [chemical binding]; other site 991905002863 NAD binding site [chemical binding]; other site 991905002864 dimerization interface [polypeptide binding]; other site 991905002865 catalytic site [active] 991905002866 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 991905002867 putative L-serine binding site [chemical binding]; other site 991905002868 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 991905002869 EamA-like transporter family; Region: EamA; pfam00892 991905002870 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 991905002871 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 991905002872 GDP-binding site [chemical binding]; other site 991905002873 ACT binding site; other site 991905002874 IMP binding site; other site 991905002875 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905002876 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 991905002877 NMT1/THI5 like; Region: NMT1; pfam09084 991905002878 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 991905002879 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 991905002880 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 991905002881 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 991905002882 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 991905002883 DNA binding residues [nucleotide binding] 991905002884 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 991905002885 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 991905002886 RNA binding surface [nucleotide binding]; other site 991905002887 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 991905002888 active site 991905002889 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 991905002890 dimerization interface [polypeptide binding]; other site 991905002891 putative DNA binding site [nucleotide binding]; other site 991905002892 putative Zn2+ binding site [ion binding]; other site 991905002893 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 991905002894 Low molecular weight phosphatase family; Region: LMWPc; cd00115 991905002895 active site 991905002896 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 991905002897 arsenical-resistance protein; Region: acr3; TIGR00832 991905002898 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 991905002899 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 991905002900 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 991905002901 putative binding surface; other site 991905002902 active site 991905002903 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 991905002904 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 991905002905 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 991905002906 ATP binding site [chemical binding]; other site 991905002907 Mg2+ binding site [ion binding]; other site 991905002908 G-X-G motif; other site 991905002909 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 991905002910 CheW-like domain; Region: CheW; pfam01584 991905002911 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 991905002912 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 991905002913 active site 991905002914 phosphorylation site [posttranslational modification] 991905002915 intermolecular recognition site; other site 991905002916 dimerization interface [polypeptide binding]; other site 991905002917 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 991905002918 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 991905002919 Response regulator receiver domain; Region: Response_reg; pfam00072 991905002920 active site 991905002921 phosphorylation site [posttranslational modification] 991905002922 intermolecular recognition site; other site 991905002923 dimerization interface [polypeptide binding]; other site 991905002924 Response regulator receiver domain; Region: Response_reg; pfam00072 991905002925 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 991905002926 active site 991905002927 phosphorylation site [posttranslational modification] 991905002928 intermolecular recognition site; other site 991905002929 dimerization interface [polypeptide binding]; other site 991905002930 CheB methylesterase; Region: CheB_methylest; pfam01339 991905002931 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 991905002932 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 991905002933 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 991905002934 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 991905002935 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905002936 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 991905002937 active site 991905002938 phosphorylation site [posttranslational modification] 991905002939 intermolecular recognition site; other site 991905002940 dimerization interface [polypeptide binding]; other site 991905002941 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 991905002942 DNA binding site [nucleotide binding] 991905002943 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 991905002944 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 991905002945 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 991905002946 Walker A motif/ATP binding site; other site 991905002947 Walker B motif; other site 991905002948 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 991905002949 Paraquat-inducible protein A; Region: PqiA; pfam04403 991905002950 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 991905002951 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 991905002952 Mechanosensitive ion channel; Region: MS_channel; pfam00924 991905002953 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 991905002954 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 991905002955 peptide binding site [polypeptide binding]; other site 991905002956 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 991905002957 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 991905002958 dimer interface [polypeptide binding]; other site 991905002959 conserved gate region; other site 991905002960 putative PBP binding loops; other site 991905002961 ABC-ATPase subunit interface; other site 991905002962 dipeptide transporter; Provisional; Region: PRK10913 991905002963 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 991905002964 dimer interface [polypeptide binding]; other site 991905002965 conserved gate region; other site 991905002966 putative PBP binding loops; other site 991905002967 ABC-ATPase subunit interface; other site 991905002968 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 991905002969 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905002970 Walker A/P-loop; other site 991905002971 ATP binding site [chemical binding]; other site 991905002972 Q-loop/lid; other site 991905002973 ABC transporter signature motif; other site 991905002974 Walker B; other site 991905002975 D-loop; other site 991905002976 H-loop/switch region; other site 991905002977 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 991905002978 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 991905002979 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905002980 Walker A/P-loop; other site 991905002981 ATP binding site [chemical binding]; other site 991905002982 Q-loop/lid; other site 991905002983 ABC transporter signature motif; other site 991905002984 Walker B; other site 991905002985 D-loop; other site 991905002986 H-loop/switch region; other site 991905002987 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905002988 AAA domain; Region: AAA_30; pfam13604 991905002989 AAA domain; Region: AAA_22; pfam13401 991905002990 Family description; Region: UvrD_C_2; pfam13538 991905002991 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 991905002992 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 991905002993 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 991905002994 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 991905002995 RNA binding site [nucleotide binding]; other site 991905002996 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 991905002997 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 991905002998 Walker A/P-loop; other site 991905002999 ATP binding site [chemical binding]; other site 991905003000 Q-loop/lid; other site 991905003001 ABC transporter signature motif; other site 991905003002 Walker B; other site 991905003003 D-loop; other site 991905003004 H-loop/switch region; other site 991905003005 TOBE domain; Region: TOBE_2; pfam08402 991905003006 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 991905003007 salt bridge; other site 991905003008 non-specific DNA binding site [nucleotide binding]; other site 991905003009 sequence-specific DNA binding site [nucleotide binding]; other site 991905003010 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 991905003011 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 991905003012 dimer interface [polypeptide binding]; other site 991905003013 conserved gate region; other site 991905003014 ABC-ATPase subunit interface; other site 991905003015 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 991905003016 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 991905003017 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 991905003018 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 991905003019 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 991905003020 Metal-binding active site; metal-binding site 991905003021 AP (apurinic/apyrimidinic) site pocket; other site 991905003022 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 991905003023 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 991905003024 putative ligand binding site [chemical binding]; other site 991905003025 NAD binding site [chemical binding]; other site 991905003026 dimerization interface [polypeptide binding]; other site 991905003027 catalytic site [active] 991905003028 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 991905003029 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 991905003030 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 991905003031 dimer interface [polypeptide binding]; other site 991905003032 conserved gate region; other site 991905003033 putative PBP binding loops; other site 991905003034 ABC-ATPase subunit interface; other site 991905003035 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905003036 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 991905003037 Walker A/P-loop; other site 991905003038 ATP binding site [chemical binding]; other site 991905003039 Q-loop/lid; other site 991905003040 ABC transporter signature motif; other site 991905003041 Walker B; other site 991905003042 D-loop; other site 991905003043 H-loop/switch region; other site 991905003044 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 991905003045 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 991905003046 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 991905003047 ABC-ATPase subunit interface; other site 991905003048 dimer interface [polypeptide binding]; other site 991905003049 putative PBP binding regions; other site 991905003050 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 991905003051 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 991905003052 ABC-ATPase subunit interface; other site 991905003053 dimer interface [polypeptide binding]; other site 991905003054 putative PBP binding regions; other site 991905003055 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 991905003056 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 991905003057 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 991905003058 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 991905003059 intersubunit interface [polypeptide binding]; other site 991905003060 fumarate hydratase; Reviewed; Region: fumC; PRK00485 991905003061 Class II fumarases; Region: Fumarase_classII; cd01362 991905003062 active site 991905003063 tetramer interface [polypeptide binding]; other site 991905003064 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 991905003065 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 991905003066 phosphoglycolate phosphatase; Provisional; Region: PRK13222 991905003067 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 991905003068 motif II; other site 991905003069 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 991905003070 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 991905003071 substrate binding site [chemical binding]; other site 991905003072 hexamer interface [polypeptide binding]; other site 991905003073 metal binding site [ion binding]; metal-binding site 991905003074 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 991905003075 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 991905003076 Walker A motif; other site 991905003077 ATP binding site [chemical binding]; other site 991905003078 Walker B motif; other site 991905003079 arginine finger; other site 991905003080 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 991905003081 multimerization interface [polypeptide binding]; other site 991905003082 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 991905003083 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 991905003084 homodimer interface [polypeptide binding]; other site 991905003085 active site 991905003086 heterodimer interface [polypeptide binding]; other site 991905003087 catalytic residue [active] 991905003088 metal binding site [ion binding]; metal-binding site 991905003089 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 991905003090 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 991905003091 intersubunit interface [polypeptide binding]; other site 991905003092 active site 991905003093 zinc binding site [ion binding]; other site 991905003094 Na+ binding site [ion binding]; other site 991905003095 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 991905003096 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 991905003097 TPP-binding site [chemical binding]; other site 991905003098 dimer interface [polypeptide binding]; other site 991905003099 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 991905003100 PYR/PP interface [polypeptide binding]; other site 991905003101 dimer interface [polypeptide binding]; other site 991905003102 TPP binding site [chemical binding]; other site 991905003103 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 991905003104 phosphoribulokinase; Provisional; Region: PRK15453 991905003105 active site 991905003106 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 991905003107 metal binding site [ion binding]; metal-binding site 991905003108 active site 991905003109 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905003110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905003111 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 991905003112 putative dimerization interface [polypeptide binding]; other site 991905003113 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 991905003114 S-adenosylmethionine synthetase; Validated; Region: PRK05250 991905003115 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 991905003116 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 991905003117 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 991905003118 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 991905003119 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 991905003120 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 991905003121 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 991905003122 Soluble P-type ATPase [General function prediction only]; Region: COG4087 991905003123 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 991905003124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905003125 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 991905003126 Walker A/P-loop; other site 991905003127 ATP binding site [chemical binding]; other site 991905003128 Q-loop/lid; other site 991905003129 ABC transporter signature motif; other site 991905003130 Walker B; other site 991905003131 D-loop; other site 991905003132 H-loop/switch region; other site 991905003133 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905003134 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 991905003135 dimer interface [polypeptide binding]; other site 991905003136 conserved gate region; other site 991905003137 putative PBP binding loops; other site 991905003138 ABC-ATPase subunit interface; other site 991905003139 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 991905003140 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 991905003141 substrate binding pocket [chemical binding]; other site 991905003142 membrane-bound complex binding site; other site 991905003143 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 991905003144 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 991905003145 active site 991905003146 phosphorylation site [posttranslational modification] 991905003147 intermolecular recognition site; other site 991905003148 dimerization interface [polypeptide binding]; other site 991905003149 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 991905003150 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 991905003151 DNA binding residues [nucleotide binding] 991905003152 dimerization interface [polypeptide binding]; other site 991905003153 Uncharacterized conserved protein [Function unknown]; Region: COG3287 991905003154 FIST N domain; Region: FIST; pfam08495 991905003155 FIST C domain; Region: FIST_C; pfam10442 991905003156 PAS fold; Region: PAS_7; pfam12860 991905003157 PAS fold; Region: PAS_7; pfam12860 991905003158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905003159 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 991905003160 dimer interface [polypeptide binding]; other site 991905003161 phosphorylation site [posttranslational modification] 991905003162 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 991905003163 ATP binding site [chemical binding]; other site 991905003164 Mg2+ binding site [ion binding]; other site 991905003165 G-X-G motif; other site 991905003166 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 991905003167 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 991905003168 active site 991905003169 phosphorylation site [posttranslational modification] 991905003170 intermolecular recognition site; other site 991905003171 dimerization interface [polypeptide binding]; other site 991905003172 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905003173 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 991905003174 dimer interface [polypeptide binding]; other site 991905003175 phosphorylation site [posttranslational modification] 991905003176 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 991905003177 ATP binding site [chemical binding]; other site 991905003178 Mg2+ binding site [ion binding]; other site 991905003179 G-X-G motif; other site 991905003180 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905003181 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 991905003182 active site 991905003183 phosphorylation site [posttranslational modification] 991905003184 intermolecular recognition site; other site 991905003185 dimerization interface [polypeptide binding]; other site 991905003186 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 991905003187 DNA binding site [nucleotide binding] 991905003188 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 991905003189 Predicted secreted protein [Function unknown]; Region: COG5501 991905003190 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 991905003191 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 991905003192 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 991905003193 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 991905003194 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 991905003195 substrate binding site [chemical binding]; other site 991905003196 catalytic Zn binding site [ion binding]; other site 991905003197 NAD binding site [chemical binding]; other site 991905003198 structural Zn binding site [ion binding]; other site 991905003199 dimer interface [polypeptide binding]; other site 991905003200 Domain of unknown function (DUF305); Region: DUF305; cl17794 991905003201 S-formylglutathione hydrolase; Region: PLN02442 991905003202 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 991905003203 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 991905003204 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 991905003205 Trp docking motif [polypeptide binding]; other site 991905003206 dimer interface [polypeptide binding]; other site 991905003207 active site 991905003208 small subunit binding site [polypeptide binding]; other site 991905003209 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 991905003210 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 991905003211 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 991905003212 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 991905003213 substrate binding pocket [chemical binding]; other site 991905003214 membrane-bound complex binding site; other site 991905003215 hinge residues; other site 991905003216 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 991905003217 active site residue [active] 991905003218 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 991905003219 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 991905003220 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 991905003221 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 991905003222 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 991905003223 putative hydrophobic ligand binding site [chemical binding]; other site 991905003224 protein interface [polypeptide binding]; other site 991905003225 gate; other site 991905003226 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 991905003227 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 991905003228 ligand binding site [chemical binding]; other site 991905003229 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 991905003230 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 991905003231 structural tetrad; other site 991905003232 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 991905003233 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 991905003234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905003235 Walker A/P-loop; other site 991905003236 ATP binding site [chemical binding]; other site 991905003237 Q-loop/lid; other site 991905003238 ABC transporter signature motif; other site 991905003239 Walker B; other site 991905003240 D-loop; other site 991905003241 H-loop/switch region; other site 991905003242 ABC-2 type transporter; Region: ABC2_membrane; cl17235 991905003243 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 991905003244 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 991905003245 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 991905003246 Walker A/P-loop; other site 991905003247 ATP binding site [chemical binding]; other site 991905003248 Q-loop/lid; other site 991905003249 ABC transporter signature motif; other site 991905003250 Walker B; other site 991905003251 D-loop; other site 991905003252 H-loop/switch region; other site 991905003253 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 991905003254 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 991905003255 FtsX-like permease family; Region: FtsX; pfam02687 991905003256 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 991905003257 FtsX-like permease family; Region: FtsX; pfam02687 991905003258 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 991905003259 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905003260 Transcriptional regulators [Transcription]; Region: PurR; COG1609 991905003261 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 991905003262 DNA binding site [nucleotide binding] 991905003263 domain linker motif; other site 991905003264 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 991905003265 dimerization interface [polypeptide binding]; other site 991905003266 ligand binding site [chemical binding]; other site 991905003267 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 991905003268 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 991905003269 active site 991905003270 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 991905003271 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 991905003272 tetramer interface [polypeptide binding]; other site 991905003273 TPP-binding site [chemical binding]; other site 991905003274 heterodimer interface [polypeptide binding]; other site 991905003275 phosphorylation loop region [posttranslational modification] 991905003276 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 991905003277 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 991905003278 alpha subunit interface [polypeptide binding]; other site 991905003279 TPP binding site [chemical binding]; other site 991905003280 heterodimer interface [polypeptide binding]; other site 991905003281 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 991905003282 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905003283 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 991905003284 tetramerization interface [polypeptide binding]; other site 991905003285 NAD(P) binding site [chemical binding]; other site 991905003286 catalytic residues [active] 991905003287 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 991905003288 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 991905003289 E3 interaction surface; other site 991905003290 lipoyl attachment site [posttranslational modification]; other site 991905003291 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 991905003292 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 991905003293 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 991905003294 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 991905003295 N-terminal domain interface [polypeptide binding]; other site 991905003296 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905003297 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905003298 TM-ABC transporter signature motif; other site 991905003299 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905003300 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905003301 TM-ABC transporter signature motif; other site 991905003302 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905003303 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905003304 Walker A/P-loop; other site 991905003305 ATP binding site [chemical binding]; other site 991905003306 Q-loop/lid; other site 991905003307 ABC transporter signature motif; other site 991905003308 Walker B; other site 991905003309 D-loop; other site 991905003310 H-loop/switch region; other site 991905003311 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905003312 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905003313 Walker A/P-loop; other site 991905003314 ATP binding site [chemical binding]; other site 991905003315 Q-loop/lid; other site 991905003316 ABC transporter signature motif; other site 991905003317 Walker B; other site 991905003318 D-loop; other site 991905003319 H-loop/switch region; other site 991905003320 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 991905003321 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 991905003322 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 991905003323 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 991905003324 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905003325 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 991905003326 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 991905003327 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 991905003328 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 991905003329 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 991905003330 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 991905003331 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 991905003332 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 991905003333 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 991905003334 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 991905003335 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 991905003336 PYR/PP interface [polypeptide binding]; other site 991905003337 dimer interface [polypeptide binding]; other site 991905003338 TPP binding site [chemical binding]; other site 991905003339 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 991905003340 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 991905003341 TPP-binding site [chemical binding]; other site 991905003342 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 991905003343 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 991905003344 substrate binding pocket [chemical binding]; other site 991905003345 membrane-bound complex binding site; other site 991905003346 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905003347 DctM-like transporters; Region: DctM; pfam06808 991905003348 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 991905003349 Transcriptional regulator [Transcription]; Region: IclR; COG1414 991905003350 Bacterial transcriptional regulator; Region: IclR; pfam01614 991905003351 Amidohydrolase; Region: Amidohydro_2; pfam04909 991905003352 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 991905003353 FAD binding domain; Region: FAD_binding_3; pfam01494 991905003354 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905003355 Integrase core domain; Region: rve; pfam00665 991905003356 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 991905003357 RNA polymerase sigma factor; Provisional; Region: PRK12547 991905003358 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 991905003359 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 991905003360 DNA binding residues [nucleotide binding] 991905003361 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 991905003362 PRC-barrel domain; Region: PRC; pfam05239 991905003363 PRC-barrel domain; Region: PRC; pfam05239 991905003364 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 991905003365 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 991905003366 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 991905003367 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 991905003368 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 991905003369 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 991905003370 N- and C-terminal domain interface [polypeptide binding]; other site 991905003371 active site 991905003372 MgATP binding site [chemical binding]; other site 991905003373 catalytic site [active] 991905003374 metal binding site [ion binding]; metal-binding site 991905003375 glycerol binding site [chemical binding]; other site 991905003376 homotetramer interface [polypeptide binding]; other site 991905003377 homodimer interface [polypeptide binding]; other site 991905003378 FBP binding site [chemical binding]; other site 991905003379 protein IIAGlc interface [polypeptide binding]; other site 991905003380 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 991905003381 classical (c) SDRs; Region: SDR_c; cd05233 991905003382 NAD(P) binding site [chemical binding]; other site 991905003383 active site 991905003384 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 991905003385 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 991905003386 putative active site [active] 991905003387 putative catalytic site [active] 991905003388 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 991905003389 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 991905003390 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905003391 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 991905003392 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 991905003393 carboxyltransferase (CT) interaction site; other site 991905003394 biotinylation site [posttranslational modification]; other site 991905003395 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 991905003396 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 991905003397 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905003398 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 991905003399 CoA-transferase family III; Region: CoA_transf_3; pfam02515 991905003400 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 991905003401 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905003402 active site 991905003403 CoA binding site [chemical binding]; other site 991905003404 AMP binding site [chemical binding]; other site 991905003405 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905003406 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905003407 Walker A/P-loop; other site 991905003408 ATP binding site [chemical binding]; other site 991905003409 Q-loop/lid; other site 991905003410 ABC transporter signature motif; other site 991905003411 Walker B; other site 991905003412 D-loop; other site 991905003413 H-loop/switch region; other site 991905003414 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905003415 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 991905003416 ligand binding site [chemical binding]; other site 991905003417 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905003418 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905003419 TM-ABC transporter signature motif; other site 991905003420 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905003421 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905003422 TM-ABC transporter signature motif; other site 991905003423 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 991905003424 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 991905003425 acyl-activating enzyme (AAE) consensus motif; other site 991905003426 putative AMP binding site [chemical binding]; other site 991905003427 putative active site [active] 991905003428 putative CoA binding site [chemical binding]; other site 991905003429 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905003430 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905003431 Walker A/P-loop; other site 991905003432 ATP binding site [chemical binding]; other site 991905003433 Q-loop/lid; other site 991905003434 ABC transporter signature motif; other site 991905003435 Walker B; other site 991905003436 D-loop; other site 991905003437 H-loop/switch region; other site 991905003438 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905003439 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905003440 active site 991905003441 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905003442 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905003443 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 991905003444 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 991905003445 tetramer interface [polypeptide binding]; other site 991905003446 TPP-binding site [chemical binding]; other site 991905003447 heterodimer interface [polypeptide binding]; other site 991905003448 phosphorylation loop region [posttranslational modification] 991905003449 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 991905003450 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 991905003451 alpha subunit interface [polypeptide binding]; other site 991905003452 TPP binding site [chemical binding]; other site 991905003453 heterodimer interface [polypeptide binding]; other site 991905003454 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 991905003455 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 991905003456 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 991905003457 E3 interaction surface; other site 991905003458 lipoyl attachment site [posttranslational modification]; other site 991905003459 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 991905003460 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 991905003461 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 991905003462 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 991905003463 NAD(P) binding site [chemical binding]; other site 991905003464 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 991905003465 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 991905003466 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 991905003467 DctM-like transporters; Region: DctM; pfam06808 991905003468 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 991905003469 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 991905003470 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 991905003471 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 991905003472 putative active site [active] 991905003473 putative metal binding site [ion binding]; other site 991905003474 acetyl-CoA synthetase; Provisional; Region: PRK04319 991905003475 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 991905003476 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905003477 acyl-activating enzyme (AAE) consensus motif; other site 991905003478 AMP binding site [chemical binding]; other site 991905003479 active site 991905003480 CoA binding site [chemical binding]; other site 991905003481 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 991905003482 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 991905003483 tetramer interface [polypeptide binding]; other site 991905003484 TPP-binding site [chemical binding]; other site 991905003485 heterodimer interface [polypeptide binding]; other site 991905003486 phosphorylation loop region [posttranslational modification] 991905003487 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 991905003488 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 991905003489 alpha subunit interface [polypeptide binding]; other site 991905003490 TPP binding site [chemical binding]; other site 991905003491 heterodimer interface [polypeptide binding]; other site 991905003492 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 991905003493 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 991905003494 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 991905003495 E3 interaction surface; other site 991905003496 lipoyl attachment site [posttranslational modification]; other site 991905003497 e3 binding domain; Region: E3_binding; pfam02817 991905003498 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 991905003499 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 991905003500 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 991905003501 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 991905003502 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905003503 active site 991905003504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 991905003505 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 991905003506 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 991905003507 hypothetical protein; Provisional; Region: PRK07483 991905003508 inhibitor-cofactor binding pocket; inhibition site 991905003509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905003510 catalytic residue [active] 991905003511 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905003512 Ligand Binding Site [chemical binding]; other site 991905003513 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 991905003514 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905003515 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 991905003516 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 991905003517 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 991905003518 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 991905003519 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 991905003520 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 991905003521 putative active site [active] 991905003522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905003523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905003524 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 991905003525 dimerization interface [polypeptide binding]; other site 991905003526 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 991905003527 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 991905003528 active site 991905003529 dimer interface [polypeptide binding]; other site 991905003530 metal binding site [ion binding]; metal-binding site 991905003531 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 991905003532 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 991905003533 dimer interface [polypeptide binding]; other site 991905003534 active site 991905003535 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 991905003536 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 991905003537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905003538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905003539 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 991905003540 putative dimerization interface [polypeptide binding]; other site 991905003541 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 991905003542 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 991905003543 dimer interface [polypeptide binding]; other site 991905003544 tetramer interface [polypeptide binding]; other site 991905003545 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 991905003546 active site 991905003547 metal binding site [ion binding]; metal-binding site 991905003548 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 991905003549 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 991905003550 Walker A/P-loop; other site 991905003551 ATP binding site [chemical binding]; other site 991905003552 Q-loop/lid; other site 991905003553 ABC transporter signature motif; other site 991905003554 Walker B; other site 991905003555 D-loop; other site 991905003556 H-loop/switch region; other site 991905003557 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905003558 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 991905003559 dimer interface [polypeptide binding]; other site 991905003560 conserved gate region; other site 991905003561 putative PBP binding loops; other site 991905003562 ABC-ATPase subunit interface; other site 991905003563 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905003564 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 991905003565 dimer interface [polypeptide binding]; other site 991905003566 conserved gate region; other site 991905003567 ABC-ATPase subunit interface; other site 991905003568 NMT1/THI5 like; Region: NMT1; pfam09084 991905003569 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 991905003570 substrate binding pocket [chemical binding]; other site 991905003571 membrane-bound complex binding site; other site 991905003572 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 991905003573 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 991905003574 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 991905003575 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905003576 Nocardioides 2-carboxybenzaldehyde dehydrogenase, PhdK-like; Region: ALDH_PhdK-like; cd07107 991905003577 NAD(P) binding site [chemical binding]; other site 991905003578 catalytic residues [active] 991905003579 catalytic residues [active] 991905003580 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 991905003581 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 991905003582 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 991905003583 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 991905003584 PYR/PP interface [polypeptide binding]; other site 991905003585 dimer interface [polypeptide binding]; other site 991905003586 TPP binding site [chemical binding]; other site 991905003587 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 991905003588 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 991905003589 TPP-binding site [chemical binding]; other site 991905003590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905003591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905003592 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905003593 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 991905003594 dimerization interface [polypeptide binding]; other site 991905003595 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 991905003596 active site 991905003597 intersubunit interface [polypeptide binding]; other site 991905003598 Zn2+ binding site [ion binding]; other site 991905003599 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 991905003600 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 991905003601 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 991905003602 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 991905003603 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905003604 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 991905003605 Protein export membrane protein; Region: SecD_SecF; cl14618 991905003606 Transcriptional regulators [Transcription]; Region: FadR; COG2186 991905003607 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905003608 DNA-binding site [nucleotide binding]; DNA binding site 991905003609 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 991905003610 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905003611 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 991905003612 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 991905003613 DctM-like transporters; Region: DctM; pfam06808 991905003614 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905003615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905003616 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 991905003617 NAD(P) binding site [chemical binding]; other site 991905003618 active site 991905003619 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 991905003620 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 991905003621 putative NAD(P) binding site [chemical binding]; other site 991905003622 active site 991905003623 putative substrate binding site [chemical binding]; other site 991905003624 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 991905003625 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 991905003626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 991905003627 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 991905003628 Integrase core domain; Region: rve_3; pfam13683 991905003629 Fic/DOC family; Region: Fic; pfam02661 991905003630 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 991905003631 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 991905003632 Ligand Binding Site [chemical binding]; other site 991905003633 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 991905003634 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12634 991905003635 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 991905003636 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 991905003637 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 991905003638 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 991905003639 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 991905003640 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 991905003641 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 991905003642 FliG C-terminal domain; Region: FliG_C; pfam01706 991905003643 flagellar assembly protein H; Validated; Region: fliH; PRK06032 991905003644 Flagellar assembly protein FliH; Region: FliH; pfam02108 991905003645 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 991905003646 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 991905003647 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 991905003648 active site 991905003649 phosphorylation site [posttranslational modification] 991905003650 intermolecular recognition site; other site 991905003651 dimerization interface [polypeptide binding]; other site 991905003652 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 991905003653 Walker A motif; other site 991905003654 ATP binding site [chemical binding]; other site 991905003655 Walker B motif; other site 991905003656 arginine finger; other site 991905003657 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 991905003658 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 991905003659 FHIPEP family; Region: FHIPEP; pfam00771 991905003660 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 991905003661 Coenzyme A binding pocket [chemical binding]; other site 991905003662 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 991905003663 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 991905003664 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 991905003665 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 991905003666 putative active site [active] 991905003667 putative metal binding site [ion binding]; other site 991905003668 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 991905003669 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_21; cd04680 991905003670 nudix motif; other site 991905003671 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 991905003672 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 991905003673 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 991905003674 putative dimer interface [polypeptide binding]; other site 991905003675 N-terminal domain interface [polypeptide binding]; other site 991905003676 putative substrate binding pocket (H-site) [chemical binding]; other site 991905003677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905003678 Coenzyme A binding pocket [chemical binding]; other site 991905003679 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 991905003680 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 991905003681 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 991905003682 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 991905003683 Protein of unknown function DUF58; Region: DUF58; pfam01882 991905003684 MoxR-like ATPases [General function prediction only]; Region: COG0714 991905003685 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 991905003686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 991905003687 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 991905003688 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 991905003689 putative active site [active] 991905003690 putative CoA binding site [chemical binding]; other site 991905003691 nudix motif; other site 991905003692 metal binding site [ion binding]; metal-binding site 991905003693 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 991905003694 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 991905003695 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 991905003696 active site 991905003697 NTP binding site [chemical binding]; other site 991905003698 metal binding triad [ion binding]; metal-binding site 991905003699 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 991905003700 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 991905003701 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 991905003702 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 991905003703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905003704 Walker A/P-loop; other site 991905003705 ATP binding site [chemical binding]; other site 991905003706 Q-loop/lid; other site 991905003707 ABC transporter signature motif; other site 991905003708 Walker B; other site 991905003709 D-loop; other site 991905003710 H-loop/switch region; other site 991905003711 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 991905003712 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 991905003713 dimerization interface [polypeptide binding]; other site 991905003714 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905003715 dimer interface [polypeptide binding]; other site 991905003716 putative CheW interface [polypeptide binding]; other site 991905003717 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 991905003718 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 991905003719 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905003720 Walker A/P-loop; other site 991905003721 ATP binding site [chemical binding]; other site 991905003722 Q-loop/lid; other site 991905003723 ABC transporter signature motif; other site 991905003724 Walker B; other site 991905003725 D-loop; other site 991905003726 H-loop/switch region; other site 991905003727 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 991905003728 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 991905003729 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 991905003730 [2Fe-2S] cluster binding site [ion binding]; other site 991905003731 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 991905003732 cytochrome b; Provisional; Region: CYTB; MTH00156 991905003733 Qi binding site; other site 991905003734 intrachain domain interface; other site 991905003735 interchain domain interface [polypeptide binding]; other site 991905003736 heme bH binding site [chemical binding]; other site 991905003737 heme bL binding site [chemical binding]; other site 991905003738 Qo binding site; other site 991905003739 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 991905003740 interchain domain interface [polypeptide binding]; other site 991905003741 intrachain domain interface; other site 991905003742 Qi binding site; other site 991905003743 Qo binding site; other site 991905003744 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 991905003745 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 991905003746 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 991905003747 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905003748 active site 991905003749 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 991905003750 FMN binding site [chemical binding]; other site 991905003751 dimer interface [polypeptide binding]; other site 991905003752 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 991905003753 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905003754 Coenzyme A binding pocket [chemical binding]; other site 991905003755 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 991905003756 putative active site [active] 991905003757 putative catalytic site [active] 991905003758 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 991905003759 putative active site [active] 991905003760 putative catalytic site [active] 991905003761 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 991905003762 cytochrome c-550; Provisional; Region: psbV; cl17239 991905003763 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 991905003764 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 991905003765 diiron binding motif [ion binding]; other site 991905003766 Uncharacterized conserved protein [Function unknown]; Region: COG1633 991905003767 CCC1-related protein family; Region: CCC1_like_1; cd02437 991905003768 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 991905003769 transmembrane helices; other site 991905003770 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 991905003771 TrkA-C domain; Region: TrkA_C; pfam02080 991905003772 TrkA-C domain; Region: TrkA_C; pfam02080 991905003773 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 991905003774 GTP-binding protein YchF; Reviewed; Region: PRK09601 991905003775 YchF GTPase; Region: YchF; cd01900 991905003776 G1 box; other site 991905003777 GTP/Mg2+ binding site [chemical binding]; other site 991905003778 Switch I region; other site 991905003779 G2 box; other site 991905003780 Switch II region; other site 991905003781 G3 box; other site 991905003782 G4 box; other site 991905003783 G5 box; other site 991905003784 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 991905003785 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 991905003786 putative active site [active] 991905003787 catalytic residue [active] 991905003788 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 991905003789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905003790 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 991905003791 dimerization interface [polypeptide binding]; other site 991905003792 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 991905003793 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 991905003794 5S rRNA interface [nucleotide binding]; other site 991905003795 CTC domain interface [polypeptide binding]; other site 991905003796 L16 interface [polypeptide binding]; other site 991905003797 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 991905003798 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 991905003799 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 991905003800 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905003801 active site 991905003802 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 991905003803 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 991905003804 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 991905003805 active site 991905003806 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 991905003807 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 991905003808 Uncharacterized conserved protein [Function unknown]; Region: COG1565 991905003809 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 991905003810 Membrane fusogenic activity; Region: BMFP; pfam04380 991905003811 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 991905003812 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 991905003813 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 991905003814 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905003815 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 991905003816 dimer interface [polypeptide binding]; other site 991905003817 putative tRNA-binding site [nucleotide binding]; other site 991905003818 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905003819 HAMP domain; Region: HAMP; pfam00672 991905003820 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 991905003821 dimer interface [polypeptide binding]; other site 991905003822 phosphorylation site [posttranslational modification] 991905003823 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 991905003824 ATP binding site [chemical binding]; other site 991905003825 Mg2+ binding site [ion binding]; other site 991905003826 G-X-G motif; other site 991905003827 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905003828 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 991905003829 active site 991905003830 phosphorylation site [posttranslational modification] 991905003831 intermolecular recognition site; other site 991905003832 dimerization interface [polypeptide binding]; other site 991905003833 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 991905003834 DNA binding site [nucleotide binding] 991905003835 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905003836 MarR family; Region: MarR_2; pfam12802 991905003837 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 991905003838 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 991905003839 homodimer interface [polypeptide binding]; other site 991905003840 substrate-cofactor binding pocket; other site 991905003841 catalytic residue [active] 991905003842 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 991905003843 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 991905003844 putative substrate translocation pore; other site 991905003845 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 991905003846 MoaE homodimer interface [polypeptide binding]; other site 991905003847 MoaD interaction [polypeptide binding]; other site 991905003848 active site residues [active] 991905003849 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 991905003850 MoaE interaction surface [polypeptide binding]; other site 991905003851 MoeB interaction surface [polypeptide binding]; other site 991905003852 thiocarboxylated glycine; other site 991905003853 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 991905003854 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 991905003855 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 991905003856 Transcriptional activator HlyU; Region: HlyU; pfam10115 991905003857 thymidine kinase; Provisional; Region: PRK04296 991905003858 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 991905003859 putative catalytic site [active] 991905003860 putative metal binding site [ion binding]; other site 991905003861 putative phosphate binding site [ion binding]; other site 991905003862 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 991905003863 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 991905003864 GIY-YIG motif/motif A; other site 991905003865 active site 991905003866 catalytic site [active] 991905003867 putative DNA binding site [nucleotide binding]; other site 991905003868 metal binding site [ion binding]; metal-binding site 991905003869 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 991905003870 short chain dehydrogenase; Provisional; Region: PRK09134 991905003871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905003872 NAD(P) binding site [chemical binding]; other site 991905003873 active site 991905003874 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 991905003875 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 991905003876 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 991905003877 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 991905003878 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 991905003879 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905003880 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 991905003881 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 991905003882 putative glutathione S-transferase; Provisional; Region: PRK10357 991905003883 putative C-terminal domain interface [polypeptide binding]; other site 991905003884 putative GSH binding site (G-site) [chemical binding]; other site 991905003885 putative dimer interface [polypeptide binding]; other site 991905003886 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 991905003887 dimer interface [polypeptide binding]; other site 991905003888 N-terminal domain interface [polypeptide binding]; other site 991905003889 putative substrate binding pocket (H-site) [chemical binding]; other site 991905003890 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 991905003891 B1 nucleotide binding pocket [chemical binding]; other site 991905003892 B2 nucleotide binding pocket [chemical binding]; other site 991905003893 CAS motifs; other site 991905003894 active site 991905003895 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 991905003896 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 991905003897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905003898 Coenzyme A binding pocket [chemical binding]; other site 991905003899 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 991905003900 DNA-binding site [nucleotide binding]; DNA binding site 991905003901 RNA-binding motif; other site 991905003902 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 991905003903 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 991905003904 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 991905003905 MFS/sugar transport protein; Region: MFS_2; pfam13347 991905003906 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 991905003907 excinuclease ABC subunit B; Provisional; Region: PRK05298 991905003908 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 991905003909 ATP binding site [chemical binding]; other site 991905003910 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 991905003911 nucleotide binding region [chemical binding]; other site 991905003912 ATP-binding site [chemical binding]; other site 991905003913 Ultra-violet resistance protein B; Region: UvrB; pfam12344 991905003914 UvrB/uvrC motif; Region: UVR; pfam02151 991905003915 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 991905003916 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 991905003917 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 991905003918 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905003919 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 991905003920 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905003921 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905003922 metal binding site [ion binding]; metal-binding site 991905003923 active site 991905003924 I-site; other site 991905003925 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 991905003926 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 991905003927 dimerization interface [polypeptide binding]; other site 991905003928 Rdx family; Region: Rdx; cl01407 991905003929 Phosphotransferase enzyme family; Region: APH; pfam01636 991905003930 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 991905003931 active site 991905003932 ATP binding site [chemical binding]; other site 991905003933 substrate binding site [chemical binding]; other site 991905003934 dimer interface [polypeptide binding]; other site 991905003935 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 991905003936 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 991905003937 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 991905003938 aspartate aminotransferase; Provisional; Region: PRK05764 991905003939 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 991905003940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905003941 homodimer interface [polypeptide binding]; other site 991905003942 catalytic residue [active] 991905003943 Protein of unknown function (DUF992); Region: DUF992; pfam06186 991905003944 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 991905003945 elongation factor G; Reviewed; Region: PRK12740 991905003946 G1 box; other site 991905003947 putative GEF interaction site [polypeptide binding]; other site 991905003948 GTP/Mg2+ binding site [chemical binding]; other site 991905003949 Switch I region; other site 991905003950 G2 box; other site 991905003951 G3 box; other site 991905003952 Switch II region; other site 991905003953 G4 box; other site 991905003954 G5 box; other site 991905003955 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 991905003956 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 991905003957 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 991905003958 TMAO/DMSO reductase; Reviewed; Region: PRK05363 991905003959 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 991905003960 Moco binding site; other site 991905003961 metal coordination site [ion binding]; other site 991905003962 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905003963 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905003964 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 991905003965 putative effector binding pocket; other site 991905003966 dimerization interface [polypeptide binding]; other site 991905003967 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 991905003968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 991905003969 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905003970 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 991905003971 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 991905003972 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905003973 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 991905003974 putative DNA binding site [nucleotide binding]; other site 991905003975 putative Zn2+ binding site [ion binding]; other site 991905003976 AsnC family; Region: AsnC_trans_reg; pfam01037 991905003977 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 991905003978 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 991905003979 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 991905003980 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 991905003981 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 991905003982 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 991905003983 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 991905003984 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 991905003985 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905003986 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 991905003987 IMP binding site; other site 991905003988 dimer interface [polypeptide binding]; other site 991905003989 partial ornithine binding site; other site 991905003990 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 991905003991 non-specific DNA binding site [nucleotide binding]; other site 991905003992 salt bridge; other site 991905003993 sequence-specific DNA binding site [nucleotide binding]; other site 991905003994 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 991905003995 SurA N-terminal domain; Region: SurA_N; pfam09312 991905003996 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 991905003997 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905003998 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 991905003999 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 991905004000 DNA binding residues [nucleotide binding] 991905004001 putative dimer interface [polypeptide binding]; other site 991905004002 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 991905004003 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 991905004004 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 991905004005 catalytic site [active] 991905004006 subunit interface [polypeptide binding]; other site 991905004007 Yqey-like protein; Region: YqeY; pfam09424 991905004008 DNA primase; Validated; Region: dnaG; PRK05667 991905004009 CHC2 zinc finger; Region: zf-CHC2; cl17510 991905004010 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 991905004011 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 991905004012 active site 991905004013 metal binding site [ion binding]; metal-binding site 991905004014 interdomain interaction site; other site 991905004015 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 991905004016 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 991905004017 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 991905004018 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 991905004019 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 991905004020 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 991905004021 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 991905004022 DNA binding residues [nucleotide binding] 991905004023 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 991905004024 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 991905004025 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 991905004026 spermidine synthase; Provisional; Region: PRK00811 991905004027 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 991905004028 S-adenosylmethionine binding site [chemical binding]; other site 991905004029 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 991905004030 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905004031 Coenzyme A binding pocket [chemical binding]; other site 991905004032 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 991905004033 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 991905004034 Domain of unknown function DUF20; Region: UPF0118; pfam01594 991905004035 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 991905004036 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 991905004037 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905004038 Walker A/P-loop; other site 991905004039 ATP binding site [chemical binding]; other site 991905004040 Q-loop/lid; other site 991905004041 ABC transporter signature motif; other site 991905004042 Walker B; other site 991905004043 D-loop; other site 991905004044 H-loop/switch region; other site 991905004045 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 991905004046 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 991905004047 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 991905004048 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 991905004049 molybdopterin cofactor binding site; other site 991905004050 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 991905004051 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 991905004052 molybdopterin cofactor binding site; other site 991905004053 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 991905004054 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 991905004055 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 991905004056 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 991905004057 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 991905004058 selenocysteine synthase; Provisional; Region: PRK04311 991905004059 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 991905004060 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 991905004061 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 991905004062 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 991905004063 dimerization interface [polypeptide binding]; other site 991905004064 putative ATP binding site [chemical binding]; other site 991905004065 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 991905004066 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 991905004067 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 991905004068 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 991905004069 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 991905004070 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905004071 Coenzyme A binding pocket [chemical binding]; other site 991905004072 Transcriptional regulators [Transcription]; Region: MarR; COG1846 991905004073 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 991905004074 putative DNA binding site [nucleotide binding]; other site 991905004075 putative Zn2+ binding site [ion binding]; other site 991905004076 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 991905004077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905004078 Walker A/P-loop; other site 991905004079 ATP binding site [chemical binding]; other site 991905004080 Q-loop/lid; other site 991905004081 ABC transporter signature motif; other site 991905004082 Walker B; other site 991905004083 D-loop; other site 991905004084 H-loop/switch region; other site 991905004085 ABC transporter; Region: ABC_tran_2; pfam12848 991905004086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 991905004087 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 991905004088 MOSC domain; Region: MOSC; pfam03473 991905004089 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 991905004090 homotrimer interaction site [polypeptide binding]; other site 991905004091 putative active site [active] 991905004092 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 991905004093 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 991905004094 active site 991905004095 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 991905004096 DUF35 OB-fold domain; Region: DUF35; pfam01796 991905004097 Uncharacterized conserved protein [Function unknown]; Region: COG5586 991905004098 Predicted transcriptional regulator [Transcription]; Region: COG2345 991905004099 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 991905004100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905004101 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 991905004102 dimerization interface [polypeptide binding]; other site 991905004103 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 991905004104 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 991905004105 heme binding site [chemical binding]; other site 991905004106 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 991905004107 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 991905004108 homodimer interaction site [polypeptide binding]; other site 991905004109 cofactor binding site; other site 991905004110 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 991905004111 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 991905004112 dimerization interface [polypeptide binding]; other site 991905004113 putative DNA binding site [nucleotide binding]; other site 991905004114 putative Zn2+ binding site [ion binding]; other site 991905004115 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 991905004116 Methyltransferase domain; Region: Methyltransf_31; pfam13847 991905004117 S-adenosylmethionine binding site [chemical binding]; other site 991905004118 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 991905004119 FAD binding site [chemical binding]; other site 991905004120 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 991905004121 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 991905004122 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 991905004123 substrate binding pocket [chemical binding]; other site 991905004124 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 991905004125 B12 binding site [chemical binding]; other site 991905004126 cobalt ligand [ion binding]; other site 991905004127 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 991905004128 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 991905004129 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 991905004130 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 991905004131 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 991905004132 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 991905004133 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 991905004134 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 991905004135 catalytic residue [active] 991905004136 BA14K-like protein; Region: BA14K; pfam07886 991905004137 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 991905004138 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 991905004139 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 991905004140 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 991905004141 dimerization interface [polypeptide binding]; other site 991905004142 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905004143 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905004144 dimer interface [polypeptide binding]; other site 991905004145 putative CheW interface [polypeptide binding]; other site 991905004146 diguanylate cyclase; Provisional; Region: PRK09894 991905004147 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 991905004148 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905004149 metal binding site [ion binding]; metal-binding site 991905004150 active site 991905004151 I-site; other site 991905004152 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 991905004153 putative catalytic site [active] 991905004154 putative phosphate binding site [ion binding]; other site 991905004155 putative metal binding site [ion binding]; other site 991905004156 5-oxoprolinase; Region: PLN02666 991905004157 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 991905004158 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 991905004159 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 991905004160 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 991905004161 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905004162 DctM-like transporters; Region: DctM; pfam06808 991905004163 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905004164 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905004165 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905004166 Predicted secreted protein [Function unknown]; Region: COG5501 991905004167 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 991905004168 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 991905004169 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 991905004170 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 991905004171 putative FMN binding site [chemical binding]; other site 991905004172 MarR family; Region: MarR_2; cl17246 991905004173 Transcriptional regulators [Transcription]; Region: MarR; COG1846 991905004174 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 991905004175 putative Zn2+ binding site [ion binding]; other site 991905004176 putative DNA binding site [nucleotide binding]; other site 991905004177 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 991905004178 ArsC family; Region: ArsC; pfam03960 991905004179 catalytic residues [active] 991905004180 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 991905004181 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 991905004182 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905004183 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905004184 metal binding site [ion binding]; metal-binding site 991905004185 active site 991905004186 I-site; other site 991905004187 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 991905004188 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 991905004189 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 991905004190 putative metal binding site [ion binding]; other site 991905004191 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 991905004192 HSP70 interaction site [polypeptide binding]; other site 991905004193 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 991905004194 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 991905004195 amidase catalytic site [active] 991905004196 Zn binding residues [ion binding]; other site 991905004197 substrate binding site [chemical binding]; other site 991905004198 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905004199 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 991905004200 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 991905004201 N-acetyl-D-glucosamine binding site [chemical binding]; other site 991905004202 catalytic residue [active] 991905004203 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 991905004204 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 991905004205 cell division protein MraZ; Reviewed; Region: PRK00326 991905004206 MraZ protein; Region: MraZ; pfam02381 991905004207 MraW methylase family; Region: Methyltransf_5; cl17771 991905004208 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 991905004209 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 991905004210 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 991905004211 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 991905004212 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 991905004213 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 991905004214 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 991905004215 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 991905004216 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 991905004217 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 991905004218 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 991905004219 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 991905004220 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 991905004221 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 991905004222 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 991905004223 Mg++ binding site [ion binding]; other site 991905004224 putative catalytic motif [active] 991905004225 putative substrate binding site [chemical binding]; other site 991905004226 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 991905004227 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 991905004228 cell division protein FtsW; Region: ftsW; TIGR02614 991905004229 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 991905004230 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 991905004231 homodimer interface [polypeptide binding]; other site 991905004232 active site 991905004233 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 991905004234 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 991905004235 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 991905004236 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 991905004237 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 991905004238 FAD binding domain; Region: FAD_binding_4; pfam01565 991905004239 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 991905004240 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 991905004241 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 991905004242 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905004243 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 991905004244 Cell division protein FtsQ; Region: FtsQ; pfam03799 991905004245 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 991905004246 Cell division protein FtsA; Region: FtsA; smart00842 991905004247 Cell division protein FtsA; Region: FtsA; pfam14450 991905004248 cell division protein FtsZ; Validated; Region: PRK09330 991905004249 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 991905004250 nucleotide binding site [chemical binding]; other site 991905004251 SulA interaction site; other site 991905004252 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 991905004253 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 991905004254 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 991905004255 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 991905004256 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 991905004257 binding surface 991905004258 TPR motif; other site 991905004259 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 991905004260 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 991905004261 Walker A/P-loop; other site 991905004262 ATP binding site [chemical binding]; other site 991905004263 Q-loop/lid; other site 991905004264 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 991905004265 ABC transporter signature motif; other site 991905004266 Walker B; other site 991905004267 D-loop; other site 991905004268 H-loop/switch region; other site 991905004269 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 991905004270 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 991905004271 nucleotide binding pocket [chemical binding]; other site 991905004272 K-X-D-G motif; other site 991905004273 catalytic site [active] 991905004274 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 991905004275 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 991905004276 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 991905004277 Dimer interface [polypeptide binding]; other site 991905004278 BRCT sequence motif; other site 991905004279 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 991905004280 Part of AAA domain; Region: AAA_19; pfam13245 991905004281 Family description; Region: UvrD_C_2; pfam13538 991905004282 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 991905004283 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 991905004284 S-adenosylmethionine binding site [chemical binding]; other site 991905004285 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 991905004286 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 991905004287 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 991905004288 active site 991905004289 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 991905004290 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 991905004291 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 991905004292 Cl- selectivity filter; other site 991905004293 Cl- binding residues [ion binding]; other site 991905004294 pore gating glutamate residue; other site 991905004295 dimer interface [polypeptide binding]; other site 991905004296 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 991905004297 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 991905004298 active site 991905004299 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 991905004300 FAD binding domain; Region: FAD_binding_4; pfam01565 991905004301 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 991905004302 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 991905004303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 991905004304 thymidylate synthase; Reviewed; Region: thyA; PRK01827 991905004305 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 991905004306 dimerization interface [polypeptide binding]; other site 991905004307 active site 991905004308 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 991905004309 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 991905004310 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 991905004311 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 991905004312 DctM-like transporters; Region: DctM; pfam06808 991905004313 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 991905004314 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905004315 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 991905004316 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 991905004317 NADP+ binding site [chemical binding]; other site 991905004318 folate binding site [chemical binding]; other site 991905004319 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905004320 Ligand Binding Site [chemical binding]; other site 991905004321 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 991905004322 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905004323 Coenzyme A binding pocket [chemical binding]; other site 991905004324 HflK protein; Region: hflK; TIGR01933 991905004325 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 991905004326 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 991905004327 FtsH protease regulator HflC; Provisional; Region: PRK11029 991905004328 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 991905004329 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 991905004330 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 991905004331 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 991905004332 protein binding site [polypeptide binding]; other site 991905004333 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 991905004334 protein binding site [polypeptide binding]; other site 991905004335 HAMP domain; Region: HAMP; pfam00672 991905004336 PAS domain; Region: PAS; smart00091 991905004337 PAS fold; Region: PAS_7; pfam12860 991905004338 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905004339 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905004340 metal binding site [ion binding]; metal-binding site 991905004341 active site 991905004342 I-site; other site 991905004343 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 991905004344 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 991905004345 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 991905004346 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 991905004347 motif II; other site 991905004348 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 991905004349 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 991905004350 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 991905004351 GIY-YIG motif/motif A; other site 991905004352 putative active site [active] 991905004353 putative metal binding site [ion binding]; other site 991905004354 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 991905004355 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 991905004356 2-isopropylmalate synthase; Validated; Region: PRK00915 991905004357 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 991905004358 active site 991905004359 catalytic residues [active] 991905004360 metal binding site [ion binding]; metal-binding site 991905004361 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 991905004362 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 991905004363 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 991905004364 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905004365 Coenzyme A binding pocket [chemical binding]; other site 991905004366 Predicted helicase [General function prediction only]; Region: COG4889 991905004367 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 991905004368 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 991905004369 Walker A/P-loop; other site 991905004370 ATP binding site [chemical binding]; other site 991905004371 Q-loop/lid; other site 991905004372 ABC transporter signature motif; other site 991905004373 Walker B; other site 991905004374 D-loop; other site 991905004375 H-loop/switch region; other site 991905004376 ABC-2 type transporter; Region: ABC2_membrane; cl17235 991905004377 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 991905004378 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 991905004379 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 991905004380 ketol-acid reductoisomerase; Provisional; Region: PRK05479 991905004381 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 991905004382 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 991905004383 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905004384 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905004385 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 991905004386 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 991905004387 FAD binding pocket [chemical binding]; other site 991905004388 FAD binding motif [chemical binding]; other site 991905004389 phosphate binding motif [ion binding]; other site 991905004390 NAD binding pocket [chemical binding]; other site 991905004391 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 991905004392 substrate binding site [chemical binding]; other site 991905004393 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 991905004394 active site 991905004395 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cl00541 991905004396 active site 991905004397 hydrophilic channel; other site 991905004398 dimerization interface [polypeptide binding]; other site 991905004399 catalytic residues [active] 991905004400 active site lid [active] 991905004401 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 991905004402 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 991905004403 ligand binding site [chemical binding]; other site 991905004404 NAD binding site [chemical binding]; other site 991905004405 tetramer interface [polypeptide binding]; other site 991905004406 catalytic site [active] 991905004407 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 991905004408 L-serine binding site [chemical binding]; other site 991905004409 ACT domain interface; other site 991905004410 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 991905004411 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 991905004412 putative valine binding site [chemical binding]; other site 991905004413 dimer interface [polypeptide binding]; other site 991905004414 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 991905004415 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 991905004416 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 991905004417 PYR/PP interface [polypeptide binding]; other site 991905004418 dimer interface [polypeptide binding]; other site 991905004419 TPP binding site [chemical binding]; other site 991905004420 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 991905004421 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 991905004422 TPP-binding site [chemical binding]; other site 991905004423 dimer interface [polypeptide binding]; other site 991905004424 Transcriptional regulator; Region: Rrf2; pfam02082 991905004425 Predicted transcriptional regulator [Transcription]; Region: COG1959 991905004426 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 991905004427 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 991905004428 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 991905004429 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 991905004430 dimer interface [polypeptide binding]; other site 991905004431 conserved gate region; other site 991905004432 putative PBP binding loops; other site 991905004433 ABC-ATPase subunit interface; other site 991905004434 sulfate transport protein; Provisional; Region: cysT; CHL00187 991905004435 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 991905004436 dimer interface [polypeptide binding]; other site 991905004437 conserved gate region; other site 991905004438 putative PBP binding loops; other site 991905004439 ABC-ATPase subunit interface; other site 991905004440 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 991905004441 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 991905004442 Walker A/P-loop; other site 991905004443 ATP binding site [chemical binding]; other site 991905004444 Q-loop/lid; other site 991905004445 ABC transporter signature motif; other site 991905004446 Walker B; other site 991905004447 D-loop; other site 991905004448 H-loop/switch region; other site 991905004449 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905004450 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 991905004451 dimerization interface [polypeptide binding]; other site 991905004452 putative DNA binding site [nucleotide binding]; other site 991905004453 putative Zn2+ binding site [ion binding]; other site 991905004454 AsnC family; Region: AsnC_trans_reg; pfam01037 991905004455 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 991905004456 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 991905004457 Serine hydrolase; Region: Ser_hydrolase; cl17834 991905004458 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 991905004459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 991905004460 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 991905004461 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 991905004462 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 991905004463 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 991905004464 active site 991905004465 iron coordination sites [ion binding]; other site 991905004466 substrate binding pocket [chemical binding]; other site 991905004467 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 991905004468 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 991905004469 active site 991905004470 non-prolyl cis peptide bond; other site 991905004471 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905004472 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 991905004473 dimer interface [polypeptide binding]; other site 991905004474 conserved gate region; other site 991905004475 putative PBP binding loops; other site 991905004476 ABC-ATPase subunit interface; other site 991905004477 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 991905004478 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 991905004479 substrate binding pocket [chemical binding]; other site 991905004480 membrane-bound complex binding site; other site 991905004481 hinge residues; other site 991905004482 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 991905004483 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 991905004484 Walker A/P-loop; other site 991905004485 ATP binding site [chemical binding]; other site 991905004486 Q-loop/lid; other site 991905004487 ABC transporter signature motif; other site 991905004488 Walker B; other site 991905004489 D-loop; other site 991905004490 H-loop/switch region; other site 991905004491 GAF domain; Region: GAF_2; pfam13185 991905004492 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905004493 dimer interface [polypeptide binding]; other site 991905004494 putative CheW interface [polypeptide binding]; other site 991905004495 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 991905004496 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 991905004497 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 991905004498 DNA binding residues [nucleotide binding] 991905004499 Killing trait; Region: RebB; pfam11747 991905004500 Killing trait; Region: RebB; pfam11747 991905004501 Killing trait; Region: RebB; pfam11747 991905004502 hypothetical protein; Validated; Region: PRK01415 991905004503 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 991905004504 active site residue [active] 991905004505 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 991905004506 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905004507 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 991905004508 putative DNA binding site [nucleotide binding]; other site 991905004509 putative Zn2+ binding site [ion binding]; other site 991905004510 AsnC family; Region: AsnC_trans_reg; pfam01037 991905004511 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 991905004512 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 991905004513 hexamer interface [polypeptide binding]; other site 991905004514 ligand binding site [chemical binding]; other site 991905004515 putative active site [active] 991905004516 NAD(P) binding site [chemical binding]; other site 991905004517 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 991905004518 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 991905004519 active site 991905004520 dimer interface [polypeptide binding]; other site 991905004521 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 991905004522 dimer interface [polypeptide binding]; other site 991905004523 active site 991905004524 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 991905004525 Interdomain contacts; other site 991905004526 Cytokine receptor motif; other site 991905004527 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 991905004528 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 991905004529 Walker A/P-loop; other site 991905004530 ATP binding site [chemical binding]; other site 991905004531 Q-loop/lid; other site 991905004532 ABC transporter signature motif; other site 991905004533 Walker B; other site 991905004534 D-loop; other site 991905004535 H-loop/switch region; other site 991905004536 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 991905004537 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 991905004538 cobalt transport protein CbiM; Validated; Region: PRK06265 991905004539 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 991905004540 nickel responsive regulator; Provisional; Region: PRK02967 991905004541 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 991905004542 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 991905004543 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 991905004544 dimer interface [polypeptide binding]; other site 991905004545 putative radical transfer pathway; other site 991905004546 diiron center [ion binding]; other site 991905004547 tyrosyl radical; other site 991905004548 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 991905004549 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 991905004550 catalytic residues [active] 991905004551 Predicted membrane protein [Function unknown]; Region: COG1238 991905004552 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 991905004553 PhnA protein; Region: PhnA; pfam03831 991905004554 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 991905004555 active site 991905004556 catalytic residue [active] 991905004557 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 991905004558 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 991905004559 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 991905004560 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 991905004561 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 991905004562 active site 991905004563 intersubunit interface [polypeptide binding]; other site 991905004564 catalytic residue [active] 991905004565 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 991905004566 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 991905004567 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 991905004568 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 991905004569 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 991905004570 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 991905004571 active site 991905004572 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 991905004573 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 991905004574 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 991905004575 acyl-activating enzyme (AAE) consensus motif; other site 991905004576 putative AMP binding site [chemical binding]; other site 991905004577 putative active site [active] 991905004578 putative CoA binding site [chemical binding]; other site 991905004579 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 991905004580 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 991905004581 dimerization interface [polypeptide binding]; other site 991905004582 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905004583 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905004584 dimer interface [polypeptide binding]; other site 991905004585 putative CheW interface [polypeptide binding]; other site 991905004586 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 991905004587 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 991905004588 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 991905004589 dimer interface [polypeptide binding]; other site 991905004590 active site 991905004591 glutathione binding site [chemical binding]; other site 991905004592 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 991905004593 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 991905004594 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 991905004595 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 991905004596 Cytochrome c553 [Energy production and conversion]; Region: COG2863 991905004597 Cytochrome c; Region: Cytochrom_C; cl11414 991905004598 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 991905004599 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 991905004600 Walker A/P-loop; other site 991905004601 ATP binding site [chemical binding]; other site 991905004602 Q-loop/lid; other site 991905004603 ABC transporter signature motif; other site 991905004604 Walker B; other site 991905004605 D-loop; other site 991905004606 H-loop/switch region; other site 991905004607 DevC protein; Region: devC; TIGR01185 991905004608 FtsX-like permease family; Region: FtsX; pfam02687 991905004609 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 991905004610 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 991905004611 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905004612 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905004613 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905004614 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 991905004615 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 991905004616 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 991905004617 SbmA/BacA-like family; Region: SbmA_BacA; pfam05992 991905004618 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 991905004619 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905004620 AsnC family; Region: AsnC_trans_reg; pfam01037 991905004621 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 991905004622 substrate binding site [chemical binding]; other site 991905004623 multimerization interface [polypeptide binding]; other site 991905004624 ATP binding site [chemical binding]; other site 991905004625 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 991905004626 dimer interface [polypeptide binding]; other site 991905004627 substrate binding site [chemical binding]; other site 991905004628 ATP binding site [chemical binding]; other site 991905004629 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 991905004630 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905004631 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 991905004632 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 991905004633 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 991905004634 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 991905004635 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 991905004636 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 991905004637 putative NAD(P) binding site [chemical binding]; other site 991905004638 putative active site [active] 991905004639 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 991905004640 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 991905004641 putative active site [active] 991905004642 putative metal binding site [ion binding]; other site 991905004643 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 991905004644 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905004645 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 991905004646 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 991905004647 tetramer interface [polypeptide binding]; other site 991905004648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905004649 catalytic residue [active] 991905004650 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 991905004651 heme-binding site [chemical binding]; other site 991905004652 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905004653 dimer interface [polypeptide binding]; other site 991905004654 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905004655 putative CheW interface [polypeptide binding]; other site 991905004656 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 991905004657 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 991905004658 Major Facilitator Superfamily; Region: MFS_1; pfam07690 991905004659 putative substrate translocation pore; other site 991905004660 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 991905004661 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 991905004662 active site 991905004663 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 991905004664 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 991905004665 anti sigma factor interaction site; other site 991905004666 regulatory phosphorylation site [posttranslational modification]; other site 991905004667 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 991905004668 Permease; Region: Permease; pfam02405 991905004669 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 991905004670 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 991905004671 Walker A/P-loop; other site 991905004672 ATP binding site [chemical binding]; other site 991905004673 Q-loop/lid; other site 991905004674 ABC transporter signature motif; other site 991905004675 Walker B; other site 991905004676 D-loop; other site 991905004677 H-loop/switch region; other site 991905004678 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 991905004679 mce related protein; Region: MCE; pfam02470 991905004680 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 991905004681 Protein of unknown function (DUF330); Region: DUF330; cl01135 991905004682 Yip1 domain; Region: Yip1; pfam04893 991905004683 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 991905004684 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 991905004685 putative binding surface; other site 991905004686 active site 991905004687 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 991905004688 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 991905004689 catalytic loop [active] 991905004690 iron binding site [ion binding]; other site 991905004691 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 991905004692 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905004693 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 991905004694 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 991905004695 Walker A/P-loop; other site 991905004696 ATP binding site [chemical binding]; other site 991905004697 Q-loop/lid; other site 991905004698 ABC transporter signature motif; other site 991905004699 Walker B; other site 991905004700 D-loop; other site 991905004701 H-loop/switch region; other site 991905004702 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 991905004703 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 991905004704 FtsX-like permease family; Region: FtsX; pfam02687 991905004705 Major Facilitator Superfamily; Region: MFS_1; pfam07690 991905004706 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 991905004707 putative substrate translocation pore; other site 991905004708 Helix-turn-helix domain; Region: HTH_18; pfam12833 991905004709 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905004710 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905004711 Ligand Binding Site [chemical binding]; other site 991905004712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 991905004713 Methyltransferase domain; Region: Methyltransf_31; pfam13847 991905004714 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 991905004715 S-adenosylmethionine binding site [chemical binding]; other site 991905004716 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 991905004717 Domain of unknown function (DUF697); Region: DUF697; cl12064 991905004718 hypothetical protein; Provisional; Region: PRK05415 991905004719 YcjX-like family, DUF463; Region: DUF463; pfam04317 991905004720 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 991905004721 catalytic core [active] 991905004722 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 991905004723 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 991905004724 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 991905004725 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 991905004726 putative substrate translocation pore; other site 991905004727 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 991905004728 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 991905004729 Walker A motif; other site 991905004730 ATP binding site [chemical binding]; other site 991905004731 Walker B motif; other site 991905004732 arginine finger; other site 991905004733 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 991905004734 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 991905004735 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 991905004736 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 991905004737 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 991905004738 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08913 991905004739 Flagellar protein FlaF; Region: FlaF; pfam07309 991905004740 Flagellar protein FlbT; Region: FlbT; cl11455 991905004741 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 991905004742 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 991905004743 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 991905004744 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 991905004745 FlaG protein; Region: FlaG; cl00591 991905004746 Rod binding protein; Region: Rod-binding; cl01626 991905004747 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 991905004748 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 991905004749 Class II flagellar assembly regulator; Region: FliX; pfam10768 991905004750 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 991905004751 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 991905004752 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 991905004753 SAF-like; Region: SAF_2; pfam13144 991905004754 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 991905004755 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 991905004756 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 991905004757 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 991905004758 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 991905004759 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 991905004760 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 991905004761 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 991905004762 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK12785 991905004763 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 991905004764 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 991905004765 Uncharacterized conserved protein [Function unknown]; Region: COG3334 991905004766 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 991905004767 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 991905004768 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 991905004769 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 991905004770 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 991905004771 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 991905004772 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00732 991905004773 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 991905004774 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 991905004775 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 991905004776 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 991905004777 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905004778 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 991905004779 putative active site [active] 991905004780 heme pocket [chemical binding]; other site 991905004781 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905004782 putative active site [active] 991905004783 heme pocket [chemical binding]; other site 991905004784 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 991905004785 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 991905004786 dimer interface [polypeptide binding]; other site 991905004787 phosphorylation site [posttranslational modification] 991905004788 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 991905004789 ATP binding site [chemical binding]; other site 991905004790 Mg2+ binding site [ion binding]; other site 991905004791 G-X-G motif; other site 991905004792 Response regulator receiver domain; Region: Response_reg; pfam00072 991905004793 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 991905004794 active site 991905004795 phosphorylation site [posttranslational modification] 991905004796 intermolecular recognition site; other site 991905004797 DinB family; Region: DinB; cl17821 991905004798 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 991905004799 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 991905004800 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 991905004801 substrate binding site [chemical binding]; other site 991905004802 ATP binding site [chemical binding]; other site 991905004803 recombinase A; Provisional; Region: recA; PRK09354 991905004804 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 991905004805 hexamer interface [polypeptide binding]; other site 991905004806 Walker A motif; other site 991905004807 ATP binding site [chemical binding]; other site 991905004808 Walker B motif; other site 991905004809 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 991905004810 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 991905004811 motif 1; other site 991905004812 active site 991905004813 motif 2; other site 991905004814 motif 3; other site 991905004815 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 991905004816 Ion transport protein; Region: Ion_trans; pfam00520 991905004817 Ion channel; Region: Ion_trans_2; pfam07885 991905004818 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 991905004819 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 991905004820 ligand binding site [chemical binding]; other site 991905004821 flexible hinge region; other site 991905004822 isocitrate dehydrogenase; Validated; Region: PRK08299 991905004823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905004824 Coenzyme A binding pocket [chemical binding]; other site 991905004825 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 991905004826 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 991905004827 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 991905004828 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 991905004829 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 991905004830 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 991905004831 glutamate racemase; Provisional; Region: PRK00865 991905004832 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 991905004833 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 991905004834 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 991905004835 RNA binding surface [nucleotide binding]; other site 991905004836 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 991905004837 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 991905004838 active site 991905004839 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 991905004840 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 991905004841 Ligand Binding Site [chemical binding]; other site 991905004842 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 991905004843 putative GSH binding site [chemical binding]; other site 991905004844 catalytic residues [active] 991905004845 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 991905004846 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 991905004847 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 991905004848 dimerization interface [polypeptide binding]; other site 991905004849 ATP binding site [chemical binding]; other site 991905004850 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 991905004851 dimerization interface [polypeptide binding]; other site 991905004852 ATP binding site [chemical binding]; other site 991905004853 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 991905004854 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 991905004855 agmatinase; Region: agmatinase; TIGR01230 991905004856 oligomer interface [polypeptide binding]; other site 991905004857 putative active site [active] 991905004858 Mn binding site [ion binding]; other site 991905004859 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 991905004860 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 991905004861 putative active site [active] 991905004862 catalytic triad [active] 991905004863 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 991905004864 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 991905004865 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 991905004866 ATP binding site [chemical binding]; other site 991905004867 active site 991905004868 substrate binding site [chemical binding]; other site 991905004869 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 991905004870 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 991905004871 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 991905004872 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905004873 BA14K-like protein; Region: BA14K; pfam07886 991905004874 adenylosuccinate lyase; Provisional; Region: PRK07492 991905004875 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 991905004876 tetramer interface [polypeptide binding]; other site 991905004877 active site 991905004878 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 991905004879 Predicted secreted protein (DUF2259); Region: DUF2259; pfam10016 991905004880 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 991905004881 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 991905004882 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 991905004883 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905004884 putative DNA binding site [nucleotide binding]; other site 991905004885 putative Zn2+ binding site [ion binding]; other site 991905004886 AsnC family; Region: AsnC_trans_reg; pfam01037 991905004887 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 991905004888 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 991905004889 dimer interface [polypeptide binding]; other site 991905004890 PYR/PP interface [polypeptide binding]; other site 991905004891 TPP binding site [chemical binding]; other site 991905004892 substrate binding site [chemical binding]; other site 991905004893 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 991905004894 TPP-binding site [chemical binding]; other site 991905004895 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 991905004896 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 991905004897 putative active site pocket [active] 991905004898 cleavage site 991905004899 Flavin Reductases; Region: FlaRed; cl00801 991905004900 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 991905004901 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 991905004902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 991905004903 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905004904 LrgA family; Region: LrgA; pfam03788 991905004905 LrgB-like family; Region: LrgB; pfam04172 991905004906 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 991905004907 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 991905004908 metal ion-dependent adhesion site (MIDAS); other site 991905004909 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 991905004910 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 991905004911 Walker A motif; other site 991905004912 ATP binding site [chemical binding]; other site 991905004913 Walker B motif; other site 991905004914 arginine finger; other site 991905004915 Cytochrome c; Region: Cytochrom_C; cl11414 991905004916 Usg-like family; Region: Usg; cl11567 991905004917 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 991905004918 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 991905004919 S-adenosylmethionine binding site [chemical binding]; other site 991905004920 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 991905004921 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 991905004922 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 991905004923 substrate binding pocket [chemical binding]; other site 991905004924 chain length determination region; other site 991905004925 substrate-Mg2+ binding site; other site 991905004926 catalytic residues [active] 991905004927 aspartate-rich region 1; other site 991905004928 active site lid residues [active] 991905004929 aspartate-rich region 2; other site 991905004930 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 991905004931 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 991905004932 binding surface 991905004933 TPR motif; other site 991905004934 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 991905004935 binding surface 991905004936 TPR motif; other site 991905004937 TPR repeat; Region: TPR_11; pfam13414 991905004938 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 991905004939 binding surface 991905004940 Tetratricopeptide repeat; Region: TPR_16; pfam13432 991905004941 TPR motif; other site 991905004942 TPR repeat; Region: TPR_11; pfam13414 991905004943 pyruvate phosphate dikinase; Provisional; Region: PRK09279 991905004944 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 991905004945 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 991905004946 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 991905004947 Protein of unknown function, DUF258; Region: DUF258; pfam03193 991905004948 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 991905004949 Conserved hypothetical ATP binding protein; Region: ATP_bind_1; pfam03029 991905004950 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 991905004951 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 991905004952 DNA binding residues [nucleotide binding] 991905004953 dimer interface [polypeptide binding]; other site 991905004954 copper binding site [ion binding]; other site 991905004955 CHASE4 domain; Region: CHASE4; pfam05228 991905004956 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905004957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905004958 metal binding site [ion binding]; metal-binding site 991905004959 active site 991905004960 I-site; other site 991905004961 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 991905004962 hypothetical protein; Reviewed; Region: PRK00024 991905004963 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 991905004964 MPN+ (JAMM) motif; other site 991905004965 Zinc-binding site [ion binding]; other site 991905004966 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 991905004967 active site 991905004968 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 991905004969 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 991905004970 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 991905004971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 991905004972 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905004973 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905004974 active site 991905004975 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 991905004976 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 991905004977 putative MPT binding site; other site 991905004978 salicylate hydroxylase; Provisional; Region: PRK08163 991905004979 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 991905004980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 991905004981 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905004982 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 991905004983 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 991905004984 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 991905004985 enoyl-CoA hydratase; Provisional; Region: PRK06127 991905004986 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 991905004987 substrate binding site [chemical binding]; other site 991905004988 oxyanion hole (OAH) forming residues; other site 991905004989 trimer interface [polypeptide binding]; other site 991905004990 serine acetyltransferase; Provisional; Region: cysE; PRK11132 991905004991 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 991905004992 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 991905004993 trimer interface [polypeptide binding]; other site 991905004994 active site 991905004995 substrate binding site [chemical binding]; other site 991905004996 CoA binding site [chemical binding]; other site 991905004997 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 991905004998 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 991905004999 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 991905005000 trimer interface [polypeptide binding]; other site 991905005001 putative metal binding site [ion binding]; other site 991905005002 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 991905005003 PilZ domain; Region: PilZ; pfam07238 991905005004 PilZ domain; Region: PilZ; pfam07238 991905005005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 991905005006 PAS domain; Region: PAS_5; pfam07310 991905005007 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 991905005008 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_10; cd04623 991905005009 FOG: CBS domain [General function prediction only]; Region: COG0517 991905005010 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 991905005011 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 991905005012 GTP cyclohydrolase I; Provisional; Region: PLN03044 991905005013 active site 991905005014 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 991905005015 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 991905005016 trimerization site [polypeptide binding]; other site 991905005017 active site 991905005018 hypothetical protein; Validated; Region: PRK00041 991905005019 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 991905005020 Radical SAM superfamily; Region: Radical_SAM; pfam04055 991905005021 FeS/SAM binding site; other site 991905005022 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 991905005023 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905005024 Coenzyme A binding pocket [chemical binding]; other site 991905005025 Peptidase_C39 like family; Region: DUF3335; pfam11814 991905005026 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 991905005027 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 991905005028 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 991905005029 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 991905005030 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 991905005031 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 991905005032 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 991905005033 active site 991905005034 dimer interface [polypeptide binding]; other site 991905005035 motif 1; other site 991905005036 motif 2; other site 991905005037 motif 3; other site 991905005038 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 991905005039 anticodon binding site; other site 991905005040 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 991905005041 putative FMN binding site [chemical binding]; other site 991905005042 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 991905005043 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 991905005044 N-acetyl-D-glucosamine binding site [chemical binding]; other site 991905005045 catalytic residue [active] 991905005046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 991905005047 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 991905005048 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 991905005049 putative binding surface; other site 991905005050 active site 991905005051 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 991905005052 ATP-NAD kinase; Region: NAD_kinase; pfam01513 991905005053 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 991905005054 ParB-like nuclease domain; Region: ParB; smart00470 991905005055 Integrase core domain; Region: rve; pfam00665 991905005056 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 991905005057 AAA domain; Region: AAA_22; pfam13401 991905005058 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 991905005059 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 991905005060 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 991905005061 Helix-turn-helix domain; Region: HTH_38; pfam13936 991905005062 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 991905005063 catalytic residue [active] 991905005064 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 991905005065 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 991905005066 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 991905005067 Terminase-like family; Region: Terminase_6; pfam03237 991905005068 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 991905005069 Phage-related protein [Function unknown]; Region: COG4695; cl01923 991905005070 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 991905005071 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 991905005072 Phage capsid family; Region: Phage_capsid; pfam05065 991905005073 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 991905005074 salt bridge; other site 991905005075 non-specific DNA binding site [nucleotide binding]; other site 991905005076 sequence-specific DNA binding site [nucleotide binding]; other site 991905005077 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 991905005078 NlpC/P60 family; Region: NLPC_P60; cl17555 991905005079 Putative phage tail protein; Region: Phage-tail_3; pfam13550 991905005080 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 991905005081 active site 991905005082 DNA binding site [nucleotide binding] 991905005083 Int/Topo IB signature motif; other site 991905005084 Helix-turn-helix domain; Region: HTH_17; pfam12728 991905005085 Helix-turn-helix domain; Region: HTH_17; pfam12728 991905005086 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 991905005087 polymerase nucleotide-binding site; other site 991905005088 DNA-binding residues [nucleotide binding]; DNA binding site 991905005089 nucleotide binding site [chemical binding]; other site 991905005090 primase nucleotide-binding site [nucleotide binding]; other site 991905005091 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 991905005092 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 991905005093 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 991905005094 non-specific DNA binding site [nucleotide binding]; other site 991905005095 salt bridge; other site 991905005096 sequence-specific DNA binding site [nucleotide binding]; other site 991905005097 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 991905005098 cofactor binding site; other site 991905005099 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 991905005100 DNA binding site [nucleotide binding] 991905005101 substrate interaction site [chemical binding]; other site 991905005102 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 991905005103 ParB-like nuclease domain; Region: ParBc; cl02129 991905005104 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 991905005105 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 991905005106 ATP binding site [chemical binding]; other site 991905005107 putative Mg++ binding site [ion binding]; other site 991905005108 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 991905005109 nucleotide binding region [chemical binding]; other site 991905005110 ATP-binding site [chemical binding]; other site 991905005111 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 991905005112 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 991905005113 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 991905005114 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 991905005115 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 991905005116 active site 991905005117 metal binding site [ion binding]; metal-binding site 991905005118 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 991905005119 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 991905005120 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 991905005121 elongation factor Tu; Reviewed; Region: PRK00049 991905005122 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 991905005123 G1 box; other site 991905005124 GEF interaction site [polypeptide binding]; other site 991905005125 GTP/Mg2+ binding site [chemical binding]; other site 991905005126 Switch I region; other site 991905005127 G2 box; other site 991905005128 G3 box; other site 991905005129 Switch II region; other site 991905005130 G4 box; other site 991905005131 G5 box; other site 991905005132 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 991905005133 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 991905005134 Antibiotic Binding Site [chemical binding]; other site 991905005135 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 991905005136 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 991905005137 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 991905005138 putative homodimer interface [polypeptide binding]; other site 991905005139 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 991905005140 heterodimer interface [polypeptide binding]; other site 991905005141 homodimer interface [polypeptide binding]; other site 991905005142 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 991905005143 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 991905005144 23S rRNA interface [nucleotide binding]; other site 991905005145 L7/L12 interface [polypeptide binding]; other site 991905005146 putative thiostrepton binding site; other site 991905005147 L25 interface [polypeptide binding]; other site 991905005148 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 991905005149 mRNA/rRNA interface [nucleotide binding]; other site 991905005150 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 991905005151 23S rRNA interface [nucleotide binding]; other site 991905005152 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 991905005153 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 991905005154 core dimer interface [polypeptide binding]; other site 991905005155 peripheral dimer interface [polypeptide binding]; other site 991905005156 L10 interface [polypeptide binding]; other site 991905005157 L11 interface [polypeptide binding]; other site 991905005158 putative EF-Tu interaction site [polypeptide binding]; other site 991905005159 putative EF-G interaction site [polypeptide binding]; other site 991905005160 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 991905005161 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 991905005162 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 991905005163 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 991905005164 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 991905005165 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 991905005166 RPB3 interaction site [polypeptide binding]; other site 991905005167 RPB1 interaction site [polypeptide binding]; other site 991905005168 RPB11 interaction site [polypeptide binding]; other site 991905005169 RPB10 interaction site [polypeptide binding]; other site 991905005170 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 991905005171 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 991905005172 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 991905005173 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 991905005174 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 991905005175 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 991905005176 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 991905005177 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 991905005178 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 991905005179 DNA binding site [nucleotide binding] 991905005180 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 991905005181 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 991905005182 S17 interaction site [polypeptide binding]; other site 991905005183 S8 interaction site; other site 991905005184 16S rRNA interaction site [nucleotide binding]; other site 991905005185 streptomycin interaction site [chemical binding]; other site 991905005186 23S rRNA interaction site [nucleotide binding]; other site 991905005187 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 991905005188 30S ribosomal protein S7; Validated; Region: PRK05302 991905005189 elongation factor G; Reviewed; Region: PRK00007 991905005190 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 991905005191 G1 box; other site 991905005192 putative GEF interaction site [polypeptide binding]; other site 991905005193 GTP/Mg2+ binding site [chemical binding]; other site 991905005194 Switch I region; other site 991905005195 G2 box; other site 991905005196 G3 box; other site 991905005197 Switch II region; other site 991905005198 G4 box; other site 991905005199 G5 box; other site 991905005200 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 991905005201 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 991905005202 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 991905005203 elongation factor Tu; Reviewed; Region: PRK00049 991905005204 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 991905005205 G1 box; other site 991905005206 GEF interaction site [polypeptide binding]; other site 991905005207 GTP/Mg2+ binding site [chemical binding]; other site 991905005208 Switch I region; other site 991905005209 G2 box; other site 991905005210 G3 box; other site 991905005211 Switch II region; other site 991905005212 G4 box; other site 991905005213 G5 box; other site 991905005214 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 991905005215 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 991905005216 Antibiotic Binding Site [chemical binding]; other site 991905005217 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 991905005218 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 991905005219 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 991905005220 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 991905005221 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 991905005222 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 991905005223 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 991905005224 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 991905005225 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 991905005226 putative translocon binding site; other site 991905005227 protein-rRNA interface [nucleotide binding]; other site 991905005228 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 991905005229 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 991905005230 G-X-X-G motif; other site 991905005231 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 991905005232 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 991905005233 23S rRNA interface [nucleotide binding]; other site 991905005234 5S rRNA interface [nucleotide binding]; other site 991905005235 putative antibiotic binding site [chemical binding]; other site 991905005236 L25 interface [polypeptide binding]; other site 991905005237 L27 interface [polypeptide binding]; other site 991905005238 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 991905005239 23S rRNA interface [nucleotide binding]; other site 991905005240 putative translocon interaction site; other site 991905005241 signal recognition particle (SRP54) interaction site; other site 991905005242 L23 interface [polypeptide binding]; other site 991905005243 trigger factor interaction site; other site 991905005244 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 991905005245 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 991905005246 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 991905005247 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 991905005248 RNA binding site [nucleotide binding]; other site 991905005249 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 991905005250 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 991905005251 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 991905005252 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 991905005253 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 991905005254 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 991905005255 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 991905005256 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 991905005257 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 991905005258 23S rRNA interface [nucleotide binding]; other site 991905005259 5S rRNA interface [nucleotide binding]; other site 991905005260 L27 interface [polypeptide binding]; other site 991905005261 L5 interface [polypeptide binding]; other site 991905005262 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 991905005263 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 991905005264 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 991905005265 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 991905005266 23S rRNA binding site [nucleotide binding]; other site 991905005267 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 991905005268 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 991905005269 SecY translocase; Region: SecY; pfam00344 991905005270 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 991905005271 adenylate kinase; Reviewed; Region: adk; PRK00279 991905005272 AMP-binding site [chemical binding]; other site 991905005273 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 991905005274 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 991905005275 30S ribosomal protein S13; Region: bact_S13; TIGR03631 991905005276 30S ribosomal protein S11; Validated; Region: PRK05309 991905005277 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 991905005278 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 991905005279 alphaNTD - beta interaction site [polypeptide binding]; other site 991905005280 alphaNTD homodimer interface [polypeptide binding]; other site 991905005281 alphaNTD - beta' interaction site [polypeptide binding]; other site 991905005282 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 991905005283 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 991905005284 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 991905005285 dimerization interface [polypeptide binding]; other site 991905005286 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905005287 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905005288 dimer interface [polypeptide binding]; other site 991905005289 putative CheW interface [polypeptide binding]; other site 991905005290 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 991905005291 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 991905005292 protein binding site [polypeptide binding]; other site 991905005293 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 991905005294 protein binding site [polypeptide binding]; other site 991905005295 recombination factor protein RarA; Reviewed; Region: PRK13342 991905005296 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 991905005297 Walker A motif; other site 991905005298 ATP binding site [chemical binding]; other site 991905005299 Walker B motif; other site 991905005300 arginine finger; other site 991905005301 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 991905005302 short chain dehydrogenase; Provisional; Region: PRK06172 991905005303 classical (c) SDRs; Region: SDR_c; cd05233 991905005304 NAD(P) binding site [chemical binding]; other site 991905005305 active site 991905005306 patatin-related protein; Region: TIGR03607 991905005307 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 991905005308 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 991905005309 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 991905005310 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 991905005311 camphor resistance protein CrcB; Provisional; Region: PRK14195 991905005312 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 991905005313 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 991905005314 active site 991905005315 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 991905005316 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 991905005317 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 991905005318 motif II; other site 991905005319 ATP12 chaperone protein; Region: ATP12; cl02228 991905005320 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 991905005321 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 991905005322 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 991905005323 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 991905005324 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 991905005325 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 991905005326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 991905005327 Uncharacterized conserved protein [Function unknown]; Region: COG2308 991905005328 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 991905005329 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 991905005330 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 991905005331 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 991905005332 homooctamer interface [polypeptide binding]; other site 991905005333 active site 991905005334 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 991905005335 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 991905005336 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 991905005337 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 991905005338 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 991905005339 carboxyltransferase (CT) interaction site; other site 991905005340 biotinylation site [posttranslational modification]; other site 991905005341 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 991905005342 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 991905005343 motif II; other site 991905005344 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 991905005345 PAS fold; Region: PAS_4; pfam08448 991905005346 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905005347 putative active site [active] 991905005348 heme pocket [chemical binding]; other site 991905005349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905005350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905005351 metal binding site [ion binding]; metal-binding site 991905005352 active site 991905005353 I-site; other site 991905005354 Acylphosphatase; Region: Acylphosphatase; pfam00708 991905005355 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 991905005356 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 991905005357 NAD binding site [chemical binding]; other site 991905005358 substrate binding site [chemical binding]; other site 991905005359 active site 991905005360 Glycogenin belongs the GT 8 family and initiates the biosynthesis of glycogen; Region: GT8_Glycogenin; cd02537 991905005361 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 991905005362 substrate binding site; other site 991905005363 Manganese binding site; other site 991905005364 dimer interface; other site 991905005365 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 991905005366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905005367 NAD(P) binding site [chemical binding]; other site 991905005368 active site 991905005369 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 991905005370 active site residue [active] 991905005371 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 991905005372 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 991905005373 active site 991905005374 metal binding site [ion binding]; metal-binding site 991905005375 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 991905005376 lipoate-protein ligase B; Provisional; Region: PRK14341 991905005377 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 991905005378 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 991905005379 MgtE intracellular N domain; Region: MgtE_N; smart00924 991905005380 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 991905005381 Divalent cation transporter; Region: MgtE; pfam01769 991905005382 Response regulator receiver domain; Region: Response_reg; pfam00072 991905005383 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 991905005384 active site 991905005385 phosphorylation site [posttranslational modification] 991905005386 intermolecular recognition site; other site 991905005387 dimerization interface [polypeptide binding]; other site 991905005388 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905005389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905005390 metal binding site [ion binding]; metal-binding site 991905005391 active site 991905005392 I-site; other site 991905005393 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 991905005394 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 991905005395 DNA binding residues [nucleotide binding] 991905005396 putative dimer interface [polypeptide binding]; other site 991905005397 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 991905005398 CoenzymeA binding site [chemical binding]; other site 991905005399 subunit interaction site [polypeptide binding]; other site 991905005400 PHB binding site; other site 991905005401 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 991905005402 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905005403 Coenzyme A binding pocket [chemical binding]; other site 991905005404 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 991905005405 isovaleryl-CoA dehydrogenase; Region: PLN02519 991905005406 substrate binding site [chemical binding]; other site 991905005407 FAD binding site [chemical binding]; other site 991905005408 catalytic base [active] 991905005409 phenol 2-monooxygenase; Provisional; Region: PRK08294 991905005410 FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and...; Region: PHOX_C; cd02979 991905005411 dimer interface [polypeptide binding]; other site 991905005412 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905005413 MarR family; Region: MarR; pfam01047 991905005414 MarR family; Region: MarR_2; cl17246 991905005415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 991905005416 ACT domain; Region: ACT_3; pfam10000 991905005417 Family description; Region: ACT_7; pfam13840 991905005418 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905005419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905005420 metal binding site [ion binding]; metal-binding site 991905005421 active site 991905005422 I-site; other site 991905005423 Clp protease; Region: CLP_protease; pfam00574 991905005424 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 991905005425 oligomer interface [polypeptide binding]; other site 991905005426 active site residues [active] 991905005427 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 991905005428 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 991905005429 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 991905005430 active site 991905005431 catalytic tetrad [active] 991905005432 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 991905005433 thiamine phosphate binding site [chemical binding]; other site 991905005434 active site 991905005435 pyrophosphate binding site [ion binding]; other site 991905005436 Uncharacterized conserved protein [Function unknown]; Region: COG1434 991905005437 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 991905005438 putative active site [active] 991905005439 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 991905005440 cyclase homology domain; Region: CHD; cd07302 991905005441 nucleotidyl binding site; other site 991905005442 metal binding site [ion binding]; metal-binding site 991905005443 dimer interface [polypeptide binding]; other site 991905005444 Protein of unknown function, DUF599; Region: DUF599; pfam04654 991905005445 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 991905005446 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 991905005447 pantoate--beta-alanine ligase; Region: panC; TIGR00018 991905005448 active site 991905005449 nucleotide binding site [chemical binding]; other site 991905005450 HIGH motif; other site 991905005451 KMSKS motif; other site 991905005452 von Willebrand factor type A domain; Region: VWA_2; pfam13519 991905005453 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 991905005454 HSP70 interaction site [polypeptide binding]; other site 991905005455 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 991905005456 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 991905005457 Sporulation related domain; Region: SPOR; pfam05036 991905005458 Phasin protein; Region: Phasin_2; pfam09361 991905005459 Uncharacterized conserved protein [Function unknown]; Region: COG2127 991905005460 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 991905005461 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 991905005462 Walker A motif; other site 991905005463 ATP binding site [chemical binding]; other site 991905005464 Walker B motif; other site 991905005465 arginine finger; other site 991905005466 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 991905005467 Walker A motif; other site 991905005468 ATP binding site [chemical binding]; other site 991905005469 Walker B motif; other site 991905005470 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 991905005471 AzlC protein; Region: AzlC; cl00570 991905005472 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 991905005473 glutathionine S-transferase; Provisional; Region: PRK10542 991905005474 putative C-terminal domain interface [polypeptide binding]; other site 991905005475 putative GSH binding site (G-site) [chemical binding]; other site 991905005476 putative dimer interface [polypeptide binding]; other site 991905005477 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 991905005478 dimer interface [polypeptide binding]; other site 991905005479 N-terminal domain interface [polypeptide binding]; other site 991905005480 putative substrate binding pocket (H-site) [chemical binding]; other site 991905005481 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 991905005482 HIT family signature motif; other site 991905005483 catalytic residue [active] 991905005484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 991905005485 Protein of unknown function, DUF482; Region: DUF482; pfam04339 991905005486 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 991905005487 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 991905005488 active site 991905005489 catalytic site [active] 991905005490 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 991905005491 homotrimer interaction site [polypeptide binding]; other site 991905005492 putative active site [active] 991905005493 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 991905005494 DNA polymerase IV; Provisional; Region: PRK02794 991905005495 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 991905005496 active site 991905005497 DNA binding site [nucleotide binding] 991905005498 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 991905005499 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 991905005500 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 991905005501 active site 991905005502 phosphorylation site [posttranslational modification] 991905005503 intermolecular recognition site; other site 991905005504 dimerization interface [polypeptide binding]; other site 991905005505 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 991905005506 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 991905005507 nudix motif; other site 991905005508 Protein of unknown function (DUF983); Region: DUF983; cl02211 991905005509 ribonuclease R; Region: RNase_R; TIGR02063 991905005510 RNB domain; Region: RNB; pfam00773 991905005511 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 991905005512 RNA binding site [nucleotide binding]; other site 991905005513 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 991905005514 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 991905005515 active site 991905005516 interdomain interaction site; other site 991905005517 putative metal-binding site [ion binding]; other site 991905005518 nucleotide binding site [chemical binding]; other site 991905005519 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 991905005520 domain I; other site 991905005521 DNA binding groove [nucleotide binding] 991905005522 phosphate binding site [ion binding]; other site 991905005523 domain II; other site 991905005524 domain III; other site 991905005525 nucleotide binding site [chemical binding]; other site 991905005526 catalytic site [active] 991905005527 domain IV; other site 991905005528 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 991905005529 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 991905005530 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 991905005531 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 991905005532 DNA protecting protein DprA; Region: dprA; TIGR00732 991905005533 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 991905005534 dihydroorotase; Validated; Region: PRK09059 991905005535 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 991905005536 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 991905005537 active site 991905005538 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 991905005539 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 991905005540 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 991905005541 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 991905005542 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905005543 active site 991905005544 Predicted permeases [General function prediction only]; Region: COG0679 991905005545 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 991905005546 metal-dependent hydrolase; Provisional; Region: PRK00685 991905005547 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 991905005548 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 991905005549 hypothetical protein; Provisional; Region: PRK07236 991905005550 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 991905005551 active site 991905005552 FMN binding site [chemical binding]; other site 991905005553 substrate binding site [chemical binding]; other site 991905005554 homotetramer interface [polypeptide binding]; other site 991905005555 catalytic residue [active] 991905005556 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 991905005557 classical (c) SDRs; Region: SDR_c; cd05233 991905005558 NAD(P) binding site [chemical binding]; other site 991905005559 active site 991905005560 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905005561 MarR family; Region: MarR; pfam01047 991905005562 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 991905005563 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 991905005564 substrate binding site [chemical binding]; other site 991905005565 oxyanion hole (OAH) forming residues; other site 991905005566 trimer interface [polypeptide binding]; other site 991905005567 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905005568 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905005569 active site 991905005570 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 991905005571 homotrimer interaction site [polypeptide binding]; other site 991905005572 putative active site [active] 991905005573 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905005574 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 991905005575 acyl-activating enzyme (AAE) consensus motif; other site 991905005576 AMP binding site [chemical binding]; other site 991905005577 active site 991905005578 CoA binding site [chemical binding]; other site 991905005579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905005580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905005581 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 991905005582 putative dimerization interface [polypeptide binding]; other site 991905005583 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 991905005584 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 991905005585 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 991905005586 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 991905005587 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 991905005588 inhibitor site; inhibition site 991905005589 active site 991905005590 dimer interface [polypeptide binding]; other site 991905005591 catalytic residue [active] 991905005592 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 991905005593 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905005594 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 991905005595 putative ligand binding site [chemical binding]; other site 991905005596 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905005597 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905005598 TM-ABC transporter signature motif; other site 991905005599 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905005600 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905005601 TM-ABC transporter signature motif; other site 991905005602 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905005603 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905005604 Walker A/P-loop; other site 991905005605 ATP binding site [chemical binding]; other site 991905005606 Q-loop/lid; other site 991905005607 ABC transporter signature motif; other site 991905005608 Walker B; other site 991905005609 D-loop; other site 991905005610 H-loop/switch region; other site 991905005611 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905005612 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905005613 Walker A/P-loop; other site 991905005614 ATP binding site [chemical binding]; other site 991905005615 Q-loop/lid; other site 991905005616 ABC transporter signature motif; other site 991905005617 Walker B; other site 991905005618 D-loop; other site 991905005619 H-loop/switch region; other site 991905005620 L-aspartate dehydrogenase; Provisional; Region: PRK13303 991905005621 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 991905005622 Domain of unknown function DUF108; Region: DUF108; pfam01958 991905005623 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 991905005624 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 991905005625 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 991905005626 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 991905005627 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 991905005628 Walker A/P-loop; other site 991905005629 ATP binding site [chemical binding]; other site 991905005630 Q-loop/lid; other site 991905005631 ABC transporter signature motif; other site 991905005632 Walker B; other site 991905005633 D-loop; other site 991905005634 H-loop/switch region; other site 991905005635 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 991905005636 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 991905005637 dimer interface [polypeptide binding]; other site 991905005638 conserved gate region; other site 991905005639 ABC-ATPase subunit interface; other site 991905005640 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 991905005641 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 991905005642 dimer interface [polypeptide binding]; other site 991905005643 conserved gate region; other site 991905005644 ABC-ATPase subunit interface; other site 991905005645 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 991905005646 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 991905005647 trimer interface [polypeptide binding]; other site 991905005648 active site 991905005649 substrate binding site [chemical binding]; other site 991905005650 CoA binding site [chemical binding]; other site 991905005651 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 991905005652 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 991905005653 Walker A/P-loop; other site 991905005654 ATP binding site [chemical binding]; other site 991905005655 Q-loop/lid; other site 991905005656 ABC transporter signature motif; other site 991905005657 Walker B; other site 991905005658 D-loop; other site 991905005659 H-loop/switch region; other site 991905005660 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 991905005661 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 991905005662 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 991905005663 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 991905005664 dimer interface [polypeptide binding]; other site 991905005665 conserved gate region; other site 991905005666 putative PBP binding loops; other site 991905005667 ABC-ATPase subunit interface; other site 991905005668 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 991905005669 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 991905005670 Transglycosylase SLT domain; Region: SLT_2; pfam13406 991905005671 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 991905005672 N-acetyl-D-glucosamine binding site [chemical binding]; other site 991905005673 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905005674 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 991905005675 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 991905005676 P-loop; other site 991905005677 Magnesium ion binding site [ion binding]; other site 991905005678 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 991905005679 putative binding site; other site 991905005680 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 991905005681 MG2 domain; Region: A2M_N; pfam01835 991905005682 Alpha-2-macroglobulin family; Region: A2M; pfam00207 991905005683 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 991905005684 surface patch; other site 991905005685 thioester region; other site 991905005686 specificity defining residues; other site 991905005687 Transglycosylase; Region: Transgly; pfam00912 991905005688 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 991905005689 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 991905005690 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 991905005691 Porin subfamily; Region: Porin_2; pfam02530 991905005692 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 991905005693 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905005694 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 991905005695 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 991905005696 dimer interface [polypeptide binding]; other site 991905005697 active site 991905005698 catalytic residue [active] 991905005699 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 991905005700 SmpB-tmRNA interface; other site 991905005701 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 991905005702 active site 991905005703 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 991905005704 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 991905005705 CAP-like domain; other site 991905005706 active site 991905005707 primary dimer interface [polypeptide binding]; other site 991905005708 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 991905005709 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 991905005710 Recombination protein O N terminal; Region: RecO_N; pfam11967 991905005711 Recombination protein O C terminal; Region: RecO_C; pfam02565 991905005712 GTPase Era; Reviewed; Region: era; PRK00089 991905005713 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 991905005714 G1 box; other site 991905005715 GTP/Mg2+ binding site [chemical binding]; other site 991905005716 Switch I region; other site 991905005717 G2 box; other site 991905005718 Switch II region; other site 991905005719 G3 box; other site 991905005720 G4 box; other site 991905005721 G5 box; other site 991905005722 KH domain; Region: KH_2; pfam07650 991905005723 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 991905005724 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 991905005725 dimerization interface [polypeptide binding]; other site 991905005726 active site 991905005727 metal binding site [ion binding]; metal-binding site 991905005728 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 991905005729 dsRNA binding site [nucleotide binding]; other site 991905005730 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 991905005731 Catalytic site [active] 991905005732 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 991905005733 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 991905005734 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 991905005735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 991905005736 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905005737 active site 991905005738 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 991905005739 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 991905005740 Zn2+ binding site [ion binding]; other site 991905005741 Mg2+ binding site [ion binding]; other site 991905005742 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 991905005743 synthetase active site [active] 991905005744 NTP binding site [chemical binding]; other site 991905005745 metal binding site [ion binding]; metal-binding site 991905005746 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 991905005747 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 991905005748 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 991905005749 Uncharacterized conserved protein [Function unknown]; Region: COG1432 991905005750 LabA_like proteins; Region: LabA; cd10911 991905005751 putative metal binding site [ion binding]; other site 991905005752 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 991905005753 Fe-S cluster binding site [ion binding]; other site 991905005754 DNA binding site [nucleotide binding] 991905005755 active site 991905005756 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 991905005757 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 991905005758 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 991905005759 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 991905005760 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 991905005761 transmembrane helices; other site 991905005762 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 991905005763 TrkA-C domain; Region: TrkA_C; pfam02080 991905005764 TrkA-C domain; Region: TrkA_C; pfam02080 991905005765 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 991905005766 RDD family; Region: RDD; pfam06271 991905005767 threonine dehydratase; Provisional; Region: PRK07334 991905005768 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 991905005769 tetramer interface [polypeptide binding]; other site 991905005770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905005771 catalytic residue [active] 991905005772 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 991905005773 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 991905005774 dimer interface [polypeptide binding]; other site 991905005775 active site 991905005776 aspartate-rich active site metal binding site; other site 991905005777 allosteric magnesium binding site [ion binding]; other site 991905005778 Schiff base residues; other site 991905005779 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905005780 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 991905005781 substrate binding pocket [chemical binding]; other site 991905005782 FAD binding site [chemical binding]; other site 991905005783 catalytic base [active] 991905005784 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 991905005785 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 991905005786 substrate binding site [chemical binding]; other site 991905005787 oxyanion hole (OAH) forming residues; other site 991905005788 trimer interface [polypeptide binding]; other site 991905005789 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 991905005790 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 991905005791 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 991905005792 Transcriptional regulators [Transcription]; Region: MarR; COG1846 991905005793 MarR family; Region: MarR_2; cl17246 991905005794 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 991905005795 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905005796 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905005797 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905005798 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 991905005799 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 991905005800 dimer interface [polypeptide binding]; other site 991905005801 active site 991905005802 glycine-pyridoxal phosphate binding site [chemical binding]; other site 991905005803 folate binding site [chemical binding]; other site 991905005804 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 991905005805 ATP cone domain; Region: ATP-cone; pfam03477 991905005806 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 991905005807 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 991905005808 catalytic motif [active] 991905005809 Zn binding site [ion binding]; other site 991905005810 RibD C-terminal domain; Region: RibD_C; cl17279 991905005811 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 991905005812 Lumazine binding domain; Region: Lum_binding; pfam00677 991905005813 Lumazine binding domain; Region: Lum_binding; pfam00677 991905005814 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 991905005815 homopentamer interface [polypeptide binding]; other site 991905005816 active site 991905005817 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 991905005818 putative RNA binding site [nucleotide binding]; other site 991905005819 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 991905005820 thiamine monophosphate kinase; Provisional; Region: PRK05731 991905005821 ATP binding site [chemical binding]; other site 991905005822 dimerization interface [polypeptide binding]; other site 991905005823 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 991905005824 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 991905005825 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 991905005826 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 991905005827 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 991905005828 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 991905005829 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 991905005830 putative phosphate acyltransferase; Provisional; Region: PRK05331 991905005831 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 991905005832 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 991905005833 dimer interface [polypeptide binding]; other site 991905005834 active site 991905005835 CoA binding pocket [chemical binding]; other site 991905005836 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 991905005837 IHF dimer interface [polypeptide binding]; other site 991905005838 IHF - DNA interface [nucleotide binding]; other site 991905005839 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 991905005840 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 991905005841 DNA binding residues [nucleotide binding] 991905005842 CoA-binding domain; Region: CoA_binding_3; pfam13727 991905005843 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 991905005844 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905005845 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 991905005846 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 991905005847 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 991905005848 SLBB domain; Region: SLBB; pfam10531 991905005849 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 991905005850 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 991905005851 AAA domain; Region: AAA_31; pfam13614 991905005852 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 991905005853 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 991905005854 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 991905005855 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 991905005856 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 991905005857 putative active site [active] 991905005858 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 991905005859 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 991905005860 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 991905005861 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 991905005862 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 991905005863 homodimer interface [polypeptide binding]; other site 991905005864 substrate-cofactor binding pocket; other site 991905005865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905005866 catalytic residue [active] 991905005867 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 991905005868 enoyl-CoA hydratase; Validated; Region: PRK08139 991905005869 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 991905005870 substrate binding site [chemical binding]; other site 991905005871 oxyanion hole (OAH) forming residues; other site 991905005872 trimer interface [polypeptide binding]; other site 991905005873 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 991905005874 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_9; cd04666 991905005875 nudix motif; other site 991905005876 Phosphate transporter family; Region: PHO4; pfam01384 991905005877 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 991905005878 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 991905005879 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 991905005880 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 991905005881 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 991905005882 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 991905005883 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 991905005884 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 991905005885 hydroxyglutarate oxidase; Provisional; Region: PRK11728 991905005886 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 991905005887 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 991905005888 putative acyl-acceptor binding pocket; other site 991905005889 Cytochrome P450; Region: p450; pfam00067 991905005890 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 991905005891 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 991905005892 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 991905005893 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 991905005894 active site 991905005895 Zn binding site [ion binding]; other site 991905005896 Bacterial SH3 domain; Region: SH3_3; pfam08239 991905005897 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905005898 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905005899 DNA-binding site [nucleotide binding]; DNA binding site 991905005900 FCD domain; Region: FCD; pfam07729 991905005901 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 991905005902 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 991905005903 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 991905005904 amidase; Provisional; Region: PRK09201 991905005905 Amidase; Region: Amidase; cl11426 991905005906 Isochorismatase family; Region: Isochorismatase; pfam00857 991905005907 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 991905005908 catalytic triad [active] 991905005909 conserved cis-peptide bond; other site 991905005910 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 991905005911 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 991905005912 Walker A/P-loop; other site 991905005913 ATP binding site [chemical binding]; other site 991905005914 Q-loop/lid; other site 991905005915 ABC transporter signature motif; other site 991905005916 Walker B; other site 991905005917 D-loop; other site 991905005918 H-loop/switch region; other site 991905005919 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 991905005920 Isochorismatase family; Region: Isochorismatase; pfam00857 991905005921 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 991905005922 catalytic triad [active] 991905005923 conserved cis-peptide bond; other site 991905005924 formamidase; Provisional; Region: amiF; PRK13287 991905005925 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 991905005926 multimer interface [polypeptide binding]; other site 991905005927 active site 991905005928 catalytic triad [active] 991905005929 dimer interface [polypeptide binding]; other site 991905005930 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905005931 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905005932 TM-ABC transporter signature motif; other site 991905005933 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905005934 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905005935 TM-ABC transporter signature motif; other site 991905005936 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 991905005937 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 991905005938 putative ligand binding site [chemical binding]; other site 991905005939 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 991905005940 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 991905005941 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 991905005942 allophanate hydrolase; Provisional; Region: PRK08186 991905005943 Amidase; Region: Amidase; cl11426 991905005944 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 991905005945 CHASE2 domain; Region: CHASE2; pfam05226 991905005946 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 991905005947 cyclase homology domain; Region: CHD; cd07302 991905005948 nucleotidyl binding site; other site 991905005949 metal binding site [ion binding]; metal-binding site 991905005950 dimer interface [polypeptide binding]; other site 991905005951 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 991905005952 Caspase domain; Region: Peptidase_C14; pfam00656 991905005953 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905005954 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 991905005955 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 991905005956 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 991905005957 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 991905005958 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 991905005959 tetramer interface [polypeptide binding]; other site 991905005960 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 991905005961 tetramer interface [polypeptide binding]; other site 991905005962 active site 991905005963 metal binding site [ion binding]; metal-binding site 991905005964 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 991905005965 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 991905005966 putative active site [active] 991905005967 putative metal binding site [ion binding]; other site 991905005968 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 991905005969 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 991905005970 NAD binding site [chemical binding]; other site 991905005971 catalytic residues [active] 991905005972 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 991905005973 putative substrate binding pocket [chemical binding]; other site 991905005974 trimer interface [polypeptide binding]; other site 991905005975 MarR family; Region: MarR_2; cl17246 991905005976 Transcriptional regulators [Transcription]; Region: MarR; COG1846 991905005977 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 991905005978 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 991905005979 dimer interface [polypeptide binding]; other site 991905005980 active site 991905005981 glutathione binding site [chemical binding]; other site 991905005982 NAD-dependent deacetylase; Provisional; Region: PRK00481 991905005983 SIR2 family 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-fam; cd01407 991905005984 NAD+ binding site [chemical binding]; other site 991905005985 substrate binding site [chemical binding]; other site 991905005986 Zn binding site [ion binding]; other site 991905005987 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 991905005988 DNA-binding site [nucleotide binding]; DNA binding site 991905005989 RNA-binding motif; other site 991905005990 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 991905005991 DNA-binding site [nucleotide binding]; DNA binding site 991905005992 RNA-binding motif; other site 991905005993 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 991905005994 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 991905005995 Domain of unknown function DUF21; Region: DUF21; pfam01595 991905005996 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 991905005997 Transporter associated domain; Region: CorC_HlyC; smart01091 991905005998 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 991905005999 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 991905006000 Bacterial transcriptional activator domain; Region: BTAD; smart01043 991905006001 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 991905006002 TPR motif; other site 991905006003 binding surface 991905006004 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 991905006005 YcaO-like family; Region: YcaO; pfam02624 991905006006 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 991905006007 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 991905006008 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 991905006009 active site 991905006010 metal binding site [ion binding]; metal-binding site 991905006011 hexamer interface [polypeptide binding]; other site 991905006012 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 991905006013 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 991905006014 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 991905006015 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 991905006016 active site 991905006017 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 991905006018 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 991905006019 Ligand binding site; other site 991905006020 Putative Catalytic site; other site 991905006021 DXD motif; other site 991905006022 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 991905006023 cystathionine beta-lyase; Provisional; Region: PRK05967 991905006024 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 991905006025 homodimer interface [polypeptide binding]; other site 991905006026 substrate-cofactor binding pocket; other site 991905006027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905006028 catalytic residue [active] 991905006029 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 991905006030 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 991905006031 substrate binding pocket [chemical binding]; other site 991905006032 membrane-bound complex binding site; other site 991905006033 hinge residues; other site 991905006034 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 991905006035 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 991905006036 conserved gate region; other site 991905006037 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 991905006038 dimer interface [polypeptide binding]; other site 991905006039 ABC-ATPase subunit interface; other site 991905006040 putative PBP binding loops; other site 991905006041 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 991905006042 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 991905006043 dimer interface [polypeptide binding]; other site 991905006044 conserved gate region; other site 991905006045 putative PBP binding loops; other site 991905006046 ABC-ATPase subunit interface; other site 991905006047 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 991905006048 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 991905006049 Walker A/P-loop; other site 991905006050 ATP binding site [chemical binding]; other site 991905006051 Q-loop/lid; other site 991905006052 ABC transporter signature motif; other site 991905006053 Walker B; other site 991905006054 D-loop; other site 991905006055 H-loop/switch region; other site 991905006056 META domain; Region: META; pfam03724 991905006057 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 991905006058 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 991905006059 active site residue [active] 991905006060 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 991905006061 active site residue [active] 991905006062 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 991905006063 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 991905006064 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 991905006065 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 991905006066 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 991905006067 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 991905006068 putative active site [active] 991905006069 catalytic site [active] 991905006070 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 991905006071 putative active site [active] 991905006072 catalytic site [active] 991905006073 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 991905006074 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 991905006075 dimer interface [polypeptide binding]; other site 991905006076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905006077 catalytic residue [active] 991905006078 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 991905006079 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 991905006080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905006081 NAD(P) binding site [chemical binding]; other site 991905006082 active site 991905006083 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 991905006084 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 991905006085 S-adenosylmethionine binding site [chemical binding]; other site 991905006086 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 991905006087 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 991905006088 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 991905006089 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 991905006090 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 991905006091 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 991905006092 substrate-cofactor binding pocket; other site 991905006093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905006094 catalytic residue [active] 991905006095 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 991905006096 nudix motif; other site 991905006097 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905006098 Ligand Binding Site [chemical binding]; other site 991905006099 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905006100 Ligand Binding Site [chemical binding]; other site 991905006101 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 991905006102 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 991905006103 Walker A/P-loop; other site 991905006104 ATP binding site [chemical binding]; other site 991905006105 Q-loop/lid; other site 991905006106 ABC transporter signature motif; other site 991905006107 Walker B; other site 991905006108 D-loop; other site 991905006109 H-loop/switch region; other site 991905006110 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 991905006111 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 991905006112 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 991905006113 dimer interface [polypeptide binding]; other site 991905006114 conserved gate region; other site 991905006115 putative PBP binding loops; other site 991905006116 ABC-ATPase subunit interface; other site 991905006117 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 991905006118 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 991905006119 PLD-like domain; Region: PLDc_2; pfam13091 991905006120 putative homodimer interface [polypeptide binding]; other site 991905006121 putative active site [active] 991905006122 catalytic site [active] 991905006123 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 991905006124 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 991905006125 homotrimer interface [polypeptide binding]; other site 991905006126 Walker A motif; other site 991905006127 GTP binding site [chemical binding]; other site 991905006128 Walker B motif; other site 991905006129 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 991905006130 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 991905006131 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 991905006132 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 991905006133 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 991905006134 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 991905006135 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 991905006136 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 991905006137 homodimer interface [polypeptide binding]; other site 991905006138 Walker A motif; other site 991905006139 ATP binding site [chemical binding]; other site 991905006140 hydroxycobalamin binding site [chemical binding]; other site 991905006141 Walker B motif; other site 991905006142 cobyric acid synthase; Provisional; Region: PRK00784 991905006143 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 991905006144 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 991905006145 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 991905006146 catalytic triad [active] 991905006147 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 991905006148 S-adenosylmethionine binding site [chemical binding]; other site 991905006149 GDA1/CD39 (nucleoside phosphatase) family; Region: GDA1_CD39; cl17763 991905006150 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 991905006151 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 991905006152 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 991905006153 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905006154 catalytic residue [active] 991905006155 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 991905006156 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 991905006157 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 991905006158 S-adenosylmethionine binding site [chemical binding]; other site 991905006159 active site residue [active] 991905006160 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 991905006161 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 991905006162 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 991905006163 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 991905006164 HIGH motif; other site 991905006165 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 991905006166 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 991905006167 active site 991905006168 KMSKS motif; other site 991905006169 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 991905006170 tRNA binding surface [nucleotide binding]; other site 991905006171 anticodon binding site; other site 991905006172 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 991905006173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 991905006174 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 991905006175 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 991905006176 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 991905006177 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 991905006178 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 991905006179 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 991905006180 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 991905006181 carboxyltransferase (CT) interaction site; other site 991905006182 biotinylation site [posttranslational modification]; other site 991905006183 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 991905006184 Dehydroquinase class II; Region: DHquinase_II; pfam01220 991905006185 trimer interface [polypeptide binding]; other site 991905006186 active site 991905006187 dimer interface [polypeptide binding]; other site 991905006188 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 991905006189 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 991905006190 catalytic residues [active] 991905006191 Peptidase family M48; Region: Peptidase_M48; cl12018 991905006192 TPR repeat; Region: TPR_11; pfam13414 991905006193 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 991905006194 TPR motif; other site 991905006195 binding surface 991905006196 aspartate aminotransferase; Provisional; Region: PRK05764 991905006197 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 991905006198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905006199 homodimer interface [polypeptide binding]; other site 991905006200 catalytic residue [active] 991905006201 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 991905006202 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 991905006203 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 991905006204 AMIN domain; Region: AMIN; pfam11741 991905006205 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 991905006206 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 991905006207 active site 991905006208 metal binding site [ion binding]; metal-binding site 991905006209 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 991905006210 Transglycosylase; Region: Transgly; pfam00912 991905006211 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 991905006212 peptide chain release factor 2; Provisional; Region: PRK07342 991905006213 This domain is found in peptide chain release factors; Region: PCRF; smart00937 991905006214 RF-1 domain; Region: RF-1; pfam00472 991905006215 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 991905006216 Peptidase family M23; Region: Peptidase_M23; pfam01551 991905006217 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 991905006218 dinuclear metal binding motif [ion binding]; other site 991905006219 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 991905006220 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 991905006221 catalytic triad [active] 991905006222 Protein of unknown function; Region: DUF3971; pfam13116 991905006223 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 991905006224 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 991905006225 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 991905006226 active site 991905006227 HIGH motif; other site 991905006228 dimer interface [polypeptide binding]; other site 991905006229 KMSKS motif; other site 991905006230 glutamine synthetase; Provisional; Region: glnA; PRK09469 991905006231 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 991905006232 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 991905006233 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 991905006234 Nitrogen regulatory protein P-II; Region: P-II; smart00938 991905006235 Uncharacterized conserved protein [Function unknown]; Region: COG0062 991905006236 putative carbohydrate kinase; Provisional; Region: PRK10565 991905006237 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 991905006238 putative substrate binding site [chemical binding]; other site 991905006239 putative ATP binding site [chemical binding]; other site 991905006240 trigger factor; Provisional; Region: tig; PRK01490 991905006241 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 991905006242 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 991905006243 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 991905006244 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 991905006245 oligomer interface [polypeptide binding]; other site 991905006246 active site residues [active] 991905006247 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 991905006248 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 991905006249 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 991905006250 Walker A motif; other site 991905006251 ATP binding site [chemical binding]; other site 991905006252 Walker B motif; other site 991905006253 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 991905006254 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 991905006255 Found in ATP-dependent protease La (LON); Region: LON; smart00464 991905006256 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 991905006257 Walker A motif; other site 991905006258 ATP binding site [chemical binding]; other site 991905006259 Walker B motif; other site 991905006260 arginine finger; other site 991905006261 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 991905006262 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 991905006263 IHF dimer interface [polypeptide binding]; other site 991905006264 IHF - DNA interface [nucleotide binding]; other site 991905006265 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 991905006266 NADH dehydrogenase subunit B; Validated; Region: PRK06411 991905006267 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 991905006268 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 991905006269 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 991905006270 NADH dehydrogenase subunit D; Validated; Region: PRK06075 991905006271 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 991905006272 NADH dehydrogenase subunit E; Validated; Region: PRK07539 991905006273 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 991905006274 putative dimer interface [polypeptide binding]; other site 991905006275 [2Fe-2S] cluster binding site [ion binding]; other site 991905006276 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 991905006277 SLBB domain; Region: SLBB; pfam10531 991905006278 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 991905006279 NADH dehydrogenase subunit G; Validated; Region: PRK09130 991905006280 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 991905006281 catalytic loop [active] 991905006282 iron binding site [ion binding]; other site 991905006283 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 991905006284 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 991905006285 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 991905006286 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 991905006287 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 991905006288 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 991905006289 4Fe-4S binding domain; Region: Fer4; pfam00037 991905006290 4Fe-4S binding domain; Region: Fer4; pfam00037 991905006291 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 991905006292 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 991905006293 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 991905006294 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 991905006295 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 991905006296 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 991905006297 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 991905006298 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 991905006299 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 991905006300 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 991905006301 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 991905006302 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 991905006303 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 991905006304 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 991905006305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 991905006306 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 991905006307 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 991905006308 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 991905006309 dimer interface [polypeptide binding]; other site 991905006310 substrate binding site [chemical binding]; other site 991905006311 metal binding site [ion binding]; metal-binding site 991905006312 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 991905006313 prolyl-tRNA synthetase; Provisional; Region: PRK12325 991905006314 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_prok; cd00779 991905006315 dimer interface [polypeptide binding]; other site 991905006316 motif 1; other site 991905006317 active site 991905006318 motif 2; other site 991905006319 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 991905006320 active site 991905006321 motif 3; other site 991905006322 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 991905006323 anticodon binding site; other site 991905006324 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 991905006325 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 991905006326 FtsX-like permease family; Region: FtsX; pfam02687 991905006327 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 991905006328 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 991905006329 Walker A/P-loop; other site 991905006330 ATP binding site [chemical binding]; other site 991905006331 Q-loop/lid; other site 991905006332 ABC transporter signature motif; other site 991905006333 Walker B; other site 991905006334 D-loop; other site 991905006335 H-loop/switch region; other site 991905006336 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 991905006337 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 991905006338 putative active site [active] 991905006339 putative PHP Thumb interface [polypeptide binding]; other site 991905006340 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 991905006341 generic binding surface II; other site 991905006342 generic binding surface I; other site 991905006343 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 991905006344 rRNA interaction site [nucleotide binding]; other site 991905006345 S8 interaction site; other site 991905006346 putative laminin-1 binding site; other site 991905006347 elongation factor Ts; Provisional; Region: tsf; PRK09377 991905006348 UBA/TS-N domain; Region: UBA; pfam00627 991905006349 Elongation factor TS; Region: EF_TS; pfam00889 991905006350 Elongation factor TS; Region: EF_TS; pfam00889 991905006351 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 991905006352 putative nucleotide binding site [chemical binding]; other site 991905006353 uridine monophosphate binding site [chemical binding]; other site 991905006354 homohexameric interface [polypeptide binding]; other site 991905006355 ribosome recycling factor; Reviewed; Region: frr; PRK00083 991905006356 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 991905006357 hinge region; other site 991905006358 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 991905006359 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 991905006360 catalytic residue [active] 991905006361 putative FPP diphosphate binding site; other site 991905006362 putative FPP binding hydrophobic cleft; other site 991905006363 dimer interface [polypeptide binding]; other site 991905006364 putative IPP diphosphate binding site; other site 991905006365 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 991905006366 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 991905006367 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 991905006368 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 991905006369 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 991905006370 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 991905006371 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 991905006372 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 991905006373 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 991905006374 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 991905006375 putative substrate binding region [chemical binding]; other site 991905006376 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 991905006377 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 991905006378 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 991905006379 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 991905006380 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 991905006381 Surface antigen; Region: Bac_surface_Ag; pfam01103 991905006382 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 991905006383 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 991905006384 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 991905006385 trimer interface [polypeptide binding]; other site 991905006386 active site 991905006387 UDP-GlcNAc binding site [chemical binding]; other site 991905006388 lipid binding site [chemical binding]; lipid-binding site 991905006389 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 991905006390 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 991905006391 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 991905006392 active site 991905006393 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 991905006394 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 991905006395 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 991905006396 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 991905006397 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 991905006398 dimer interface [polypeptide binding]; other site 991905006399 active site 991905006400 citrylCoA binding site [chemical binding]; other site 991905006401 NADH binding [chemical binding]; other site 991905006402 cationic pore residues; other site 991905006403 oxalacetate/citrate binding site [chemical binding]; other site 991905006404 coenzyme A binding site [chemical binding]; other site 991905006405 catalytic triad [active] 991905006406 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 991905006407 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 991905006408 active site 991905006409 HIGH motif; other site 991905006410 nucleotide binding site [chemical binding]; other site 991905006411 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 991905006412 active site 991905006413 KMSKS motif; other site 991905006414 Competence protein; Region: Competence; pfam03772 991905006415 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 991905006416 LexA repressor; Validated; Region: PRK00215 991905006417 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 991905006418 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 991905006419 Catalytic site [active] 991905006420 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 991905006421 FeS/SAM binding site; other site 991905006422 nif11-class peptide radical SAM maturase 3; Region: rSAM_nif11_3; TIGR04103 991905006423 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 991905006424 FeS/SAM binding site; other site 991905006425 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 991905006426 Glyco_18 domain; Region: Glyco_18; smart00636 991905006427 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 991905006428 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 991905006429 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 991905006430 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 991905006431 S-adenosylmethionine binding site [chemical binding]; other site 991905006432 peptide modification radical SAM enzyme, YydG family; Region: rSAM_yydG; TIGR04078 991905006433 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 991905006434 FeS/SAM binding site; other site 991905006435 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 991905006436 B12 binding domain; Region: B12-binding; pfam02310 991905006437 Histidine kinase; Region: HisKA_3; pfam07730 991905006438 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 991905006439 ATP binding site [chemical binding]; other site 991905006440 Mg2+ binding site [ion binding]; other site 991905006441 G-X-G motif; other site 991905006442 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 991905006443 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 991905006444 active site 991905006445 phosphorylation site [posttranslational modification] 991905006446 intermolecular recognition site; other site 991905006447 dimerization interface [polypeptide binding]; other site 991905006448 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 991905006449 DNA binding residues [nucleotide binding] 991905006450 dimerization interface [polypeptide binding]; other site 991905006451 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 991905006452 nucleophile elbow; other site 991905006453 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 991905006454 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905006455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905006456 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 991905006457 dimerization interface [polypeptide binding]; other site 991905006458 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 991905006459 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 991905006460 putative dimer interface [polypeptide binding]; other site 991905006461 [2Fe-2S] cluster binding site [ion binding]; other site 991905006462 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 991905006463 putative dimer interface [polypeptide binding]; other site 991905006464 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 991905006465 SLBB domain; Region: SLBB; pfam10531 991905006466 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 991905006467 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 991905006468 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 991905006469 catalytic loop [active] 991905006470 iron binding site [ion binding]; other site 991905006471 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 991905006472 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 991905006473 [4Fe-4S] binding site [ion binding]; other site 991905006474 molybdopterin cofactor binding site; other site 991905006475 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 991905006476 molybdopterin cofactor binding site; other site 991905006477 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 991905006478 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 991905006479 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 991905006480 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 991905006481 amidohydrolase; Region: amidohydrolases; TIGR01891 991905006482 metal binding site [ion binding]; metal-binding site 991905006483 cyanate hydratase; Validated; Region: PRK02866 991905006484 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 991905006485 oligomer interface [polypeptide binding]; other site 991905006486 active site 991905006487 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 991905006488 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905006489 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 991905006490 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 991905006491 active site residue [active] 991905006492 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 991905006493 active site residue [active] 991905006494 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905006495 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905006496 active site 991905006497 OsmC-like protein; Region: OsmC; pfam02566 991905006498 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905006499 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 991905006500 dimer interface [polypeptide binding]; other site 991905006501 conserved gate region; other site 991905006502 putative PBP binding loops; other site 991905006503 ABC-ATPase subunit interface; other site 991905006504 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 991905006505 NMT1-like family; Region: NMT1_2; pfam13379 991905006506 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 991905006507 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 991905006508 Walker A/P-loop; other site 991905006509 ATP binding site [chemical binding]; other site 991905006510 Q-loop/lid; other site 991905006511 ABC transporter signature motif; other site 991905006512 Walker B; other site 991905006513 D-loop; other site 991905006514 H-loop/switch region; other site 991905006515 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905006516 PaaX-like protein; Region: PaaX; pfam07848 991905006517 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 991905006518 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 991905006519 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 991905006520 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 991905006521 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 991905006522 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 991905006523 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 991905006524 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 991905006525 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 991905006526 FAD binding pocket [chemical binding]; other site 991905006527 FAD binding motif [chemical binding]; other site 991905006528 phosphate binding motif [ion binding]; other site 991905006529 beta-alpha-beta structure motif; other site 991905006530 NAD(p) ribose binding residues [chemical binding]; other site 991905006531 NAD binding pocket [chemical binding]; other site 991905006532 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 991905006533 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 991905006534 catalytic loop [active] 991905006535 iron binding site [ion binding]; other site 991905006536 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 991905006537 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 991905006538 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 991905006539 substrate binding site [chemical binding]; other site 991905006540 dimer interface [polypeptide binding]; other site 991905006541 NADP binding site [chemical binding]; other site 991905006542 catalytic residues [active] 991905006543 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 991905006544 substrate binding site [chemical binding]; other site 991905006545 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905006546 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905006547 TFIIE_beta_winged_helix domain, located at the central core region of TFIIE beta, with double-stranded DNA binding activity; Region: TFIIE_beta_winged_helix; cl02153 991905006548 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905006549 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 991905006550 acyl-activating enzyme (AAE) consensus motif; other site 991905006551 AMP binding site [chemical binding]; other site 991905006552 active site 991905006553 CoA binding site [chemical binding]; other site 991905006554 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 991905006555 CoenzymeA binding site [chemical binding]; other site 991905006556 subunit interaction site [polypeptide binding]; other site 991905006557 PHB binding site; other site 991905006558 enoyl-CoA hydratase; Provisional; Region: PRK08140 991905006559 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 991905006560 substrate binding site [chemical binding]; other site 991905006561 oxyanion hole (OAH) forming residues; other site 991905006562 trimer interface [polypeptide binding]; other site 991905006563 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 991905006564 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 991905006565 putative ligand binding site [chemical binding]; other site 991905006566 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905006567 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905006568 TM-ABC transporter signature motif; other site 991905006569 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905006570 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905006571 TM-ABC transporter signature motif; other site 991905006572 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905006573 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905006574 Walker A/P-loop; other site 991905006575 ATP binding site [chemical binding]; other site 991905006576 Q-loop/lid; other site 991905006577 ABC transporter signature motif; other site 991905006578 Walker B; other site 991905006579 D-loop; other site 991905006580 H-loop/switch region; other site 991905006581 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905006582 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905006583 Walker A/P-loop; other site 991905006584 ATP binding site [chemical binding]; other site 991905006585 Q-loop/lid; other site 991905006586 ABC transporter signature motif; other site 991905006587 Walker B; other site 991905006588 D-loop; other site 991905006589 H-loop/switch region; other site 991905006590 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 991905006591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905006592 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 991905006593 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 991905006594 N-terminal plug; other site 991905006595 ligand-binding site [chemical binding]; other site 991905006596 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 991905006597 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 991905006598 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 991905006599 intersubunit interface [polypeptide binding]; other site 991905006600 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 991905006601 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 991905006602 ABC-ATPase subunit interface; other site 991905006603 dimer interface [polypeptide binding]; other site 991905006604 putative PBP binding regions; other site 991905006605 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 991905006606 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 991905006607 Walker A/P-loop; other site 991905006608 ATP binding site [chemical binding]; other site 991905006609 Q-loop/lid; other site 991905006610 ABC transporter signature motif; other site 991905006611 Walker B; other site 991905006612 D-loop; other site 991905006613 H-loop/switch region; other site 991905006614 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 991905006615 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 991905006616 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 991905006617 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 991905006618 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 991905006619 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 991905006620 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 991905006621 Predicted permease; Region: DUF318; cl17795 991905006622 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 991905006623 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905006624 Walker A/P-loop; other site 991905006625 ATP binding site [chemical binding]; other site 991905006626 Q-loop/lid; other site 991905006627 ABC transporter signature motif; other site 991905006628 Walker B; other site 991905006629 D-loop; other site 991905006630 H-loop/switch region; other site 991905006631 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905006632 Walker A/P-loop; other site 991905006633 ATP binding site [chemical binding]; other site 991905006634 Q-loop/lid; other site 991905006635 ABC transporter signature motif; other site 991905006636 Walker B; other site 991905006637 D-loop; other site 991905006638 H-loop/switch region; other site 991905006639 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 991905006640 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 991905006641 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 991905006642 active site 991905006643 metal binding site [ion binding]; metal-binding site 991905006644 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 991905006645 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_10; cd08515 991905006646 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 991905006647 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 991905006648 dimer interface [polypeptide binding]; other site 991905006649 conserved gate region; other site 991905006650 putative PBP binding loops; other site 991905006651 ABC-ATPase subunit interface; other site 991905006652 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 991905006653 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 991905006654 dimer interface [polypeptide binding]; other site 991905006655 conserved gate region; other site 991905006656 putative PBP binding loops; other site 991905006657 ABC-ATPase subunit interface; other site 991905006658 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 991905006659 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 991905006660 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 991905006661 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 991905006662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905006663 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 991905006664 dimerization interface [polypeptide binding]; other site 991905006665 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 991905006666 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 991905006667 dimer interface [polypeptide binding]; other site 991905006668 putative functional site; other site 991905006669 putative MPT binding site; other site 991905006670 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 991905006671 trimer interface [polypeptide binding]; other site 991905006672 dimer interface [polypeptide binding]; other site 991905006673 putative active site [active] 991905006674 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 991905006675 active site 991905006676 substrate (anthranilate) binding pocket [chemical binding]; other site 991905006677 product (indole) binding pocket [chemical binding]; other site 991905006678 ribulose/triose binding site [chemical binding]; other site 991905006679 phosphate binding site [ion binding]; other site 991905006680 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 991905006681 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 991905006682 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 991905006683 SurA N-terminal domain; Region: SurA_N_3; cl07813 991905006684 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 991905006685 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 991905006686 triosephosphate isomerase; Provisional; Region: PRK14565 991905006687 substrate binding site [chemical binding]; other site 991905006688 dimer interface [polypeptide binding]; other site 991905006689 catalytic triad [active] 991905006690 CTP synthetase; Validated; Region: pyrG; PRK05380 991905006691 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 991905006692 Catalytic site [active] 991905006693 active site 991905006694 UTP binding site [chemical binding]; other site 991905006695 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 991905006696 active site 991905006697 putative oxyanion hole; other site 991905006698 catalytic triad [active] 991905006699 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 991905006700 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 991905006701 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 991905006702 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 991905006703 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 991905006704 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 991905006705 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 991905006706 Walker A/P-loop; other site 991905006707 ATP binding site [chemical binding]; other site 991905006708 Q-loop/lid; other site 991905006709 ABC transporter signature motif; other site 991905006710 Walker B; other site 991905006711 D-loop; other site 991905006712 H-loop/switch region; other site 991905006713 TOBE domain; Region: TOBE_2; pfam08402 991905006714 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 991905006715 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 991905006716 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 991905006717 seryl-tRNA synthetase; Provisional; Region: PRK05431 991905006718 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 991905006719 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 991905006720 dimer interface [polypeptide binding]; other site 991905006721 active site 991905006722 motif 1; other site 991905006723 motif 2; other site 991905006724 motif 3; other site 991905006725 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 991905006726 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 991905006727 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 991905006728 S-adenosylmethionine binding site [chemical binding]; other site 991905006729 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 991905006730 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 991905006731 Peptidase family M23; Region: Peptidase_M23; pfam01551 991905006732 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 991905006733 Protein of unknown function (DUF815); Region: DUF815; pfam05673 991905006734 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 991905006735 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 991905006736 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 991905006737 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 991905006738 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 991905006739 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 991905006740 Protein export membrane protein; Region: SecD_SecF; pfam02355 991905006741 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 991905006742 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 991905006743 substrate binding pocket [chemical binding]; other site 991905006744 substrate-Mg2+ binding site; other site 991905006745 aspartate-rich region 1; other site 991905006746 aspartate-rich region 2; other site 991905006747 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 991905006748 Glucose inhibited division protein A; Region: GIDA; pfam01134 991905006749 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 991905006750 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 991905006751 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 991905006752 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 991905006753 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 991905006754 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 991905006755 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 991905006756 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 991905006757 dimer interface [polypeptide binding]; other site 991905006758 ssDNA binding site [nucleotide binding]; other site 991905006759 tetramer (dimer of dimers) interface [polypeptide binding]; other site 991905006760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 991905006761 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905006762 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905006763 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 991905006764 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 991905006765 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905006766 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 991905006767 Protein export membrane protein; Region: SecD_SecF; cl14618 991905006768 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 991905006769 DNA gyrase subunit A; Validated; Region: PRK05560 991905006770 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 991905006771 CAP-like domain; other site 991905006772 active site 991905006773 primary dimer interface [polypeptide binding]; other site 991905006774 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 991905006775 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 991905006776 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 991905006777 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 991905006778 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 991905006779 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 991905006780 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 991905006781 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 991905006782 active site 991905006783 (T/H)XGH motif; other site 991905006784 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 991905006785 active site 991905006786 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 991905006787 active site 991905006788 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 991905006789 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 991905006790 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 991905006791 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 991905006792 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 991905006793 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 991905006794 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 991905006795 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 991905006796 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 991905006797 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 991905006798 active site 991905006799 tetramer interface; other site 991905006800 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 991905006801 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 991905006802 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 991905006803 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 991905006804 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 991905006805 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 991905006806 enolase; Provisional; Region: eno; PRK00077 991905006807 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 991905006808 dimer interface [polypeptide binding]; other site 991905006809 metal binding site [ion binding]; metal-binding site 991905006810 substrate binding pocket [chemical binding]; other site 991905006811 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 991905006812 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 991905006813 catalytic residues [active] 991905006814 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905006815 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 991905006816 acyl-activating enzyme (AAE) consensus motif; other site 991905006817 AMP binding site [chemical binding]; other site 991905006818 active site 991905006819 CoA binding site [chemical binding]; other site 991905006820 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 991905006821 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 991905006822 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 991905006823 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 991905006824 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 991905006825 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 991905006826 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 991905006827 putative acyl-acceptor binding pocket; other site 991905006828 Predicted permeases [General function prediction only]; Region: COG0679 991905006829 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 991905006830 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 991905006831 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 991905006832 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 991905006833 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 991905006834 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 991905006835 NADP binding site [chemical binding]; other site 991905006836 dimer interface [polypeptide binding]; other site 991905006837 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905006838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905006839 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 991905006840 dimerization interface [polypeptide binding]; other site 991905006841 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 991905006842 active site 991905006843 homotetramer interface [polypeptide binding]; other site 991905006844 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 991905006845 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 991905006846 catalytic loop [active] 991905006847 iron binding site [ion binding]; other site 991905006848 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 991905006849 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 991905006850 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 991905006851 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 991905006852 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 991905006853 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 991905006854 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 991905006855 XdhC Rossmann domain; Region: XdhC_C; pfam13478 991905006856 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 991905006857 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 991905006858 Walker A/P-loop; other site 991905006859 ATP binding site [chemical binding]; other site 991905006860 Q-loop/lid; other site 991905006861 ABC transporter signature motif; other site 991905006862 Walker B; other site 991905006863 D-loop; other site 991905006864 H-loop/switch region; other site 991905006865 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 991905006866 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905006867 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905006868 TM-ABC transporter signature motif; other site 991905006869 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905006870 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905006871 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905006872 TM-ABC transporter signature motif; other site 991905006873 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 991905006874 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 991905006875 putative ligand binding site [chemical binding]; other site 991905006876 Protein of unknown function (DUF989); Region: DUF989; pfam06181 991905006877 Predicted membrane protein [Function unknown]; Region: COG3748 991905006878 Cytochrome c; Region: Cytochrom_C; pfam00034 991905006879 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 991905006880 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 991905006881 allantoate amidohydrolase; Reviewed; Region: PRK09290 991905006882 active site 991905006883 metal binding site [ion binding]; metal-binding site 991905006884 dimer interface [polypeptide binding]; other site 991905006885 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 991905006886 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 991905006887 metal binding site [ion binding]; metal-binding site 991905006888 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 991905006889 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 991905006890 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 991905006891 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 991905006892 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 991905006893 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 991905006894 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 991905006895 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 991905006896 N-terminal plug; other site 991905006897 ligand-binding site [chemical binding]; other site 991905006898 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 991905006899 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 991905006900 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 991905006901 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 991905006902 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 991905006903 putative hemin binding site; other site 991905006904 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; cl00462 991905006905 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 991905006906 ABC-ATPase subunit interface; other site 991905006907 dimer interface [polypeptide binding]; other site 991905006908 putative PBP binding regions; other site 991905006909 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 991905006910 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 991905006911 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 991905006912 Walker A/P-loop; other site 991905006913 ATP binding site [chemical binding]; other site 991905006914 Q-loop/lid; other site 991905006915 ABC transporter signature motif; other site 991905006916 Walker B; other site 991905006917 D-loop; other site 991905006918 H-loop/switch region; other site 991905006919 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 991905006920 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 991905006921 glutamate dehydrogenase; Provisional; Region: PRK09414 991905006922 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 991905006923 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 991905006924 NAD(P) binding pocket [chemical binding]; other site 991905006925 Helix-turn-helix domain; Region: HTH_28; pfam13518 991905006926 Winged helix-turn helix; Region: HTH_29; pfam13551 991905006927 Homeodomain-like domain; Region: HTH_32; pfam13565 991905006928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 991905006929 Integrase core domain; Region: rve; pfam00665 991905006930 Integrase core domain; Region: rve_3; pfam13683 991905006931 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 991905006932 Transposase; Region: HTH_Tnp_1; pfam01527 991905006933 putative transposase OrfB; Reviewed; Region: PHA02517 991905006934 HTH-like domain; Region: HTH_21; pfam13276 991905006935 Integrase core domain; Region: rve; pfam00665 991905006936 Integrase core domain; Region: rve_3; cl15866 991905006937 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 991905006938 ATP binding site [chemical binding]; other site 991905006939 Mg2+ binding site [ion binding]; other site 991905006940 G-X-G motif; other site 991905006941 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 991905006942 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 991905006943 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 991905006944 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 991905006945 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 991905006946 thymidylate kinase; Validated; Region: tmk; PRK00698 991905006947 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 991905006948 TMP-binding site; other site 991905006949 ATP-binding site [chemical binding]; other site 991905006950 DNA polymerase III subunit delta'; Validated; Region: PRK07471 991905006951 DNA polymerase III subunit delta'; Validated; Region: PRK08485 991905006952 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 991905006953 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 991905006954 active site 991905006955 HIGH motif; other site 991905006956 KMSKS motif; other site 991905006957 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 991905006958 tRNA binding surface [nucleotide binding]; other site 991905006959 anticodon binding site; other site 991905006960 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 991905006961 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 991905006962 active site 991905006963 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 991905006964 putative hydrolase; Provisional; Region: PRK02113 991905006965 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905006966 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905006967 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 991905006968 recombination regulator RecX; Reviewed; Region: recX; PRK00117 991905006969 hypothetical protein; Provisional; Region: PRK09256 991905006970 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 991905006971 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 991905006972 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905006973 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 991905006974 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 991905006975 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905006976 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 991905006977 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 991905006978 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 991905006979 inhibitor-cofactor binding pocket; inhibition site 991905006980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905006981 catalytic residue [active] 991905006982 allantoate amidohydrolase; Reviewed; Region: PRK12893 991905006983 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 991905006984 active site 991905006985 metal binding site [ion binding]; metal-binding site 991905006986 dimer interface [polypeptide binding]; other site 991905006987 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 991905006988 catalytic site [active] 991905006989 metal binding site [ion binding]; metal-binding site 991905006990 phenylhydantoinase; Validated; Region: PRK08323 991905006991 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 991905006992 tetramer interface [polypeptide binding]; other site 991905006993 active site 991905006994 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 991905006995 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 991905006996 Walker A/P-loop; other site 991905006997 ATP binding site [chemical binding]; other site 991905006998 Q-loop/lid; other site 991905006999 ABC transporter signature motif; other site 991905007000 Walker B; other site 991905007001 D-loop; other site 991905007002 H-loop/switch region; other site 991905007003 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905007004 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 991905007005 dimer interface [polypeptide binding]; other site 991905007006 conserved gate region; other site 991905007007 putative PBP binding loops; other site 991905007008 ABC-ATPase subunit interface; other site 991905007009 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905007010 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 991905007011 dimer interface [polypeptide binding]; other site 991905007012 conserved gate region; other site 991905007013 putative PBP binding loops; other site 991905007014 ABC-ATPase subunit interface; other site 991905007015 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 991905007016 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 991905007017 homodimer interface [polypeptide binding]; other site 991905007018 metal binding site [ion binding]; metal-binding site 991905007019 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 991905007020 homodimer interface [polypeptide binding]; other site 991905007021 active site 991905007022 putative chemical substrate binding site [chemical binding]; other site 991905007023 metal binding site [ion binding]; metal-binding site 991905007024 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 991905007025 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 991905007026 HflX GTPase family; Region: HflX; cd01878 991905007027 G1 box; other site 991905007028 GTP/Mg2+ binding site [chemical binding]; other site 991905007029 Switch I region; other site 991905007030 G2 box; other site 991905007031 G3 box; other site 991905007032 Switch II region; other site 991905007033 G4 box; other site 991905007034 G5 box; other site 991905007035 bacterial Hfq-like; Region: Hfq; cd01716 991905007036 hexamer interface [polypeptide binding]; other site 991905007037 Sm1 motif; other site 991905007038 RNA binding site [nucleotide binding]; other site 991905007039 Sm2 motif; other site 991905007040 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 991905007041 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 991905007042 homodimer interface [polypeptide binding]; other site 991905007043 substrate-cofactor binding pocket; other site 991905007044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905007045 catalytic residue [active] 991905007046 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 991905007047 TrkA-N domain; Region: TrkA_N; pfam02254 991905007048 TrkA-N domain; Region: TrkA_N; pfam02254 991905007049 TrkA-C domain; Region: TrkA_C; pfam02080 991905007050 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 991905007051 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 991905007052 active site 991905007053 phosphorylation site [posttranslational modification] 991905007054 intermolecular recognition site; other site 991905007055 dimerization interface [polypeptide binding]; other site 991905007056 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 991905007057 Walker A motif; other site 991905007058 ATP binding site [chemical binding]; other site 991905007059 Walker B motif; other site 991905007060 arginine finger; other site 991905007061 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 991905007062 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 991905007063 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 991905007064 dimerization interface [polypeptide binding]; other site 991905007065 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905007066 putative active site [active] 991905007067 heme pocket [chemical binding]; other site 991905007068 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 991905007069 dimer interface [polypeptide binding]; other site 991905007070 phosphorylation site [posttranslational modification] 991905007071 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 991905007072 ATP binding site [chemical binding]; other site 991905007073 Mg2+ binding site [ion binding]; other site 991905007074 G-X-G motif; other site 991905007075 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 991905007076 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905007077 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 991905007078 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 991905007079 Walker A/P-loop; other site 991905007080 ATP binding site [chemical binding]; other site 991905007081 Q-loop/lid; other site 991905007082 ABC transporter signature motif; other site 991905007083 Walker B; other site 991905007084 D-loop; other site 991905007085 H-loop/switch region; other site 991905007086 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 991905007087 Walker A/P-loop; other site 991905007088 ATP binding site [chemical binding]; other site 991905007089 Q-loop/lid; other site 991905007090 ABC transporter signature motif; other site 991905007091 Walker B; other site 991905007092 D-loop; other site 991905007093 H-loop/switch region; other site 991905007094 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 991905007095 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 991905007096 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 991905007097 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 991905007098 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 991905007099 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 991905007100 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 991905007101 active site 991905007102 phosphorylation site [posttranslational modification] 991905007103 intermolecular recognition site; other site 991905007104 dimerization interface [polypeptide binding]; other site 991905007105 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 991905007106 Walker A motif; other site 991905007107 ATP binding site [chemical binding]; other site 991905007108 Walker B motif; other site 991905007109 arginine finger; other site 991905007110 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 991905007111 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 991905007112 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 991905007113 dimer interface [polypeptide binding]; other site 991905007114 phosphorylation site [posttranslational modification] 991905007115 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 991905007116 ATP binding site [chemical binding]; other site 991905007117 Mg2+ binding site [ion binding]; other site 991905007118 G-X-G motif; other site 991905007119 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 991905007120 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 991905007121 FMN binding site [chemical binding]; other site 991905007122 active site 991905007123 catalytic residues [active] 991905007124 substrate binding site [chemical binding]; other site 991905007125 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 991905007126 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 991905007127 substrate binding site; other site 991905007128 dimer interface; other site 991905007129 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 991905007130 homotrimer interaction site [polypeptide binding]; other site 991905007131 zinc binding site [ion binding]; other site 991905007132 CDP-binding sites; other site 991905007133 Competence-damaged protein; Region: CinA; pfam02464 991905007134 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 991905007135 putative coenzyme Q binding site [chemical binding]; other site 991905007136 lipoyl synthase; Provisional; Region: PRK05481 991905007137 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 991905007138 FeS/SAM binding site; other site 991905007139 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 991905007140 active site 991905007141 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 991905007142 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 991905007143 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905007144 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 991905007145 e3 binding domain; Region: E3_binding; pfam02817 991905007146 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 991905007147 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 991905007148 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 991905007149 E3 interaction surface; other site 991905007150 lipoyl attachment site [posttranslational modification]; other site 991905007151 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 991905007152 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 991905007153 alpha subunit interface [polypeptide binding]; other site 991905007154 TPP binding site [chemical binding]; other site 991905007155 heterodimer interface [polypeptide binding]; other site 991905007156 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 991905007157 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 991905007158 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 991905007159 tetramer interface [polypeptide binding]; other site 991905007160 TPP-binding site [chemical binding]; other site 991905007161 heterodimer interface [polypeptide binding]; other site 991905007162 phosphorylation loop region [posttranslational modification] 991905007163 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 991905007164 Septum formation initiator; Region: DivIC; pfam04977 991905007165 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 991905007166 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 991905007167 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 991905007168 ATP binding site [chemical binding]; other site 991905007169 putative Mg++ binding site [ion binding]; other site 991905007170 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 991905007171 nucleotide binding region [chemical binding]; other site 991905007172 ATP-binding site [chemical binding]; other site 991905007173 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 991905007174 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 991905007175 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 991905007176 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 991905007177 generic binding surface II; other site 991905007178 ssDNA binding site; other site 991905007179 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 991905007180 ATP binding site [chemical binding]; other site 991905007181 putative Mg++ binding site [ion binding]; other site 991905007182 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 991905007183 nucleotide binding region [chemical binding]; other site 991905007184 ATP-binding site [chemical binding]; other site 991905007185 Uncharacterized conserved protein [Function unknown]; Region: COG2928 991905007186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 991905007187 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 991905007188 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 991905007189 glutaminase active site [active] 991905007190 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 991905007191 dimer interface [polypeptide binding]; other site 991905007192 active site 991905007193 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 991905007194 dimer interface [polypeptide binding]; other site 991905007195 active site 991905007196 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 991905007197 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 991905007198 active site 991905007199 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 991905007200 active site 991905007201 substrate binding site [chemical binding]; other site 991905007202 CoA binding site [chemical binding]; other site 991905007203 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 991905007204 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 991905007205 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 991905007206 arsenite oxidase, large subunit; Region: arsenite_ox_L; TIGR02693 991905007207 molybdopterin cofactor binding site; other site 991905007208 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 991905007209 molybdopterin cofactor binding site; other site 991905007210 Small subunit of Arsenite oxidase (ArOX) family, Rieske domain; ArOX is a molybdenum/iron protein involved in the detoxification of arsenic, oxidizing it to arsenate. It consists of two subunits, a large subunit similar to members of the DMSO reductase...; Region: Rieske_ArOX_small; cd03476 991905007211 [2Fe-2S] cluster binding site [ion binding]; other site 991905007212 subunit interaction site [polypeptide binding]; other site 991905007213 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 991905007214 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 991905007215 active site 991905007216 phosphorylation site [posttranslational modification] 991905007217 intermolecular recognition site; other site 991905007218 dimerization interface [polypeptide binding]; other site 991905007219 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 991905007220 Walker A motif; other site 991905007221 ATP binding site [chemical binding]; other site 991905007222 Walker B motif; other site 991905007223 arginine finger; other site 991905007224 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 991905007225 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 991905007226 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905007227 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 991905007228 dimer interface [polypeptide binding]; other site 991905007229 phosphorylation site [posttranslational modification] 991905007230 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 991905007231 ATP binding site [chemical binding]; other site 991905007232 Mg2+ binding site [ion binding]; other site 991905007233 G-X-G motif; other site 991905007234 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 991905007235 putative DNA binding site [nucleotide binding]; other site 991905007236 Predicted permeases [General function prediction only]; Region: COG0701 991905007237 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 991905007238 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 991905007239 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 991905007240 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 991905007241 putative NAD(P) binding site [chemical binding]; other site 991905007242 putative active site [active] 991905007243 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 991905007244 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 991905007245 inhibitor site; inhibition site 991905007246 active site 991905007247 dimer interface [polypeptide binding]; other site 991905007248 catalytic residue [active] 991905007249 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 991905007250 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905007251 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 991905007252 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 991905007253 Sporulation related domain; Region: SPOR; pfam05036 991905007254 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 991905007255 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 991905007256 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 991905007257 active site 991905007258 HIGH motif; other site 991905007259 KMSK motif region; other site 991905007260 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 991905007261 tRNA binding surface [nucleotide binding]; other site 991905007262 anticodon binding site; other site 991905007263 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 991905007264 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 991905007265 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 991905007266 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 991905007267 putative catalytic site [active] 991905007268 putative phosphate binding site [ion binding]; other site 991905007269 active site 991905007270 metal binding site A [ion binding]; metal-binding site 991905007271 DNA binding site [nucleotide binding] 991905007272 putative AP binding site [nucleotide binding]; other site 991905007273 putative metal binding site B [ion binding]; other site 991905007274 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 991905007275 Sel1-like repeats; Region: SEL1; smart00671 991905007276 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 991905007277 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 991905007278 Mg2+ binding site [ion binding]; other site 991905007279 G-X-G motif; other site 991905007280 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 991905007281 anchoring element; other site 991905007282 dimer interface [polypeptide binding]; other site 991905007283 ATP binding site [chemical binding]; other site 991905007284 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 991905007285 active site 991905007286 putative metal-binding site [ion binding]; other site 991905007287 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 991905007288 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 991905007289 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 991905007290 ATP binding site [chemical binding]; other site 991905007291 Mg++ binding site [ion binding]; other site 991905007292 motif III; other site 991905007293 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 991905007294 nucleotide binding region [chemical binding]; other site 991905007295 ATP-binding site [chemical binding]; other site 991905007296 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905007297 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905007298 metal binding site [ion binding]; metal-binding site 991905007299 active site 991905007300 I-site; other site 991905007301 Putative transcription activator [Transcription]; Region: TenA; COG0819 991905007302 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 991905007303 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 991905007304 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 991905007305 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 991905007306 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905007307 catalytic residue [active] 991905007308 FeS assembly protein SufD; Region: sufD; TIGR01981 991905007309 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 991905007310 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 991905007311 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 991905007312 Walker A/P-loop; other site 991905007313 ATP binding site [chemical binding]; other site 991905007314 Q-loop/lid; other site 991905007315 ABC transporter signature motif; other site 991905007316 Walker B; other site 991905007317 D-loop; other site 991905007318 H-loop/switch region; other site 991905007319 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 991905007320 putative ABC transporter; Region: ycf24; CHL00085 991905007321 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 991905007322 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 991905007323 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905007324 catalytic residue [active] 991905007325 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 991905007326 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 991905007327 NADH dehydrogenase; Validated; Region: PRK08183 991905007328 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 991905007329 Response regulator receiver domain; Region: Response_reg; pfam00072 991905007330 active site 991905007331 phosphorylation site [posttranslational modification] 991905007332 intermolecular recognition site; other site 991905007333 dimerization interface [polypeptide binding]; other site 991905007334 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 991905007335 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 991905007336 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 991905007337 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 991905007338 active site 991905007339 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 991905007340 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 991905007341 TSCPD domain; Region: TSCPD; pfam12637 991905007342 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 991905007343 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 991905007344 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 991905007345 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 991905007346 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 991905007347 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 991905007348 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 991905007349 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 991905007350 substrate binding site [chemical binding]; other site 991905007351 ATP binding site [chemical binding]; other site 991905007352 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 991905007353 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 991905007354 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 991905007355 Walker A/P-loop; other site 991905007356 ATP binding site [chemical binding]; other site 991905007357 Q-loop/lid; other site 991905007358 ABC transporter signature motif; other site 991905007359 Walker B; other site 991905007360 D-loop; other site 991905007361 H-loop/switch region; other site 991905007362 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 991905007363 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 991905007364 dimer interface [polypeptide binding]; other site 991905007365 anticodon binding site; other site 991905007366 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 991905007367 homodimer interface [polypeptide binding]; other site 991905007368 motif 1; other site 991905007369 active site 991905007370 motif 2; other site 991905007371 GAD domain; Region: GAD; pfam02938 991905007372 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 991905007373 active site 991905007374 motif 3; other site 991905007375 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 991905007376 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 991905007377 catalytic site [active] 991905007378 putative active site [active] 991905007379 putative substrate binding site [chemical binding]; other site 991905007380 HRDC domain; Region: HRDC; pfam00570 991905007381 exopolyphosphatase; Region: exo_poly_only; TIGR03706 991905007382 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 991905007383 polyphosphate kinase; Provisional; Region: PRK05443 991905007384 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 991905007385 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 991905007386 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 991905007387 putative domain interface [polypeptide binding]; other site 991905007388 putative active site [active] 991905007389 catalytic site [active] 991905007390 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 991905007391 putative domain interface [polypeptide binding]; other site 991905007392 putative active site [active] 991905007393 catalytic site [active] 991905007394 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 991905007395 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 991905007396 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 991905007397 Domain of unknown function DUF20; Region: UPF0118; pfam01594 991905007398 Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]; Region: PurM; COG0150 991905007399 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 991905007400 dimerization interface [polypeptide binding]; other site 991905007401 putative ATP binding site [chemical binding]; other site 991905007402 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 991905007403 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 991905007404 active site 991905007405 substrate binding site [chemical binding]; other site 991905007406 cosubstrate binding site; other site 991905007407 catalytic site [active] 991905007408 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 991905007409 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 991905007410 putative [4Fe-4S] binding site [ion binding]; other site 991905007411 putative molybdopterin cofactor binding site [chemical binding]; other site 991905007412 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 991905007413 putative molybdopterin cofactor binding site; other site 991905007414 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 991905007415 active site 991905007416 multimer interface [polypeptide binding]; other site 991905007417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 991905007418 DinB superfamily; Region: DinB_2; pfam12867 991905007419 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 991905007420 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 991905007421 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905007422 Walker A/P-loop; other site 991905007423 ATP binding site [chemical binding]; other site 991905007424 Q-loop/lid; other site 991905007425 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 991905007426 ABC transporter signature motif; other site 991905007427 Walker B; other site 991905007428 D-loop; other site 991905007429 ABC transporter; Region: ABC_tran_2; pfam12848 991905007430 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 991905007431 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 991905007432 S-adenosylmethionine binding site [chemical binding]; other site 991905007433 DNA polymerase III subunit chi; Validated; Region: PRK05728 991905007434 multifunctional aminopeptidase A; Provisional; Region: PRK00913 991905007435 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 991905007436 interface (dimer of trimers) [polypeptide binding]; other site 991905007437 Substrate-binding/catalytic site; other site 991905007438 Zn-binding sites [ion binding]; other site 991905007439 Predicted permeases [General function prediction only]; Region: COG0795 991905007440 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 991905007441 Predicted permeases [General function prediction only]; Region: COG0795 991905007442 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 991905007443 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 991905007444 Organic solvent tolerance protein; Region: OstA_C; pfam04453 991905007445 Organic solvent tolerance protein; Region: OstA_C; pfam04453 991905007446 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 991905007447 SurA N-terminal domain; Region: SurA_N; pfam09312 991905007448 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 991905007449 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 991905007450 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 991905007451 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 991905007452 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 991905007453 catalytic site [active] 991905007454 G-X2-G-X-G-K; other site 991905007455 hypothetical protein; Provisional; Region: PRK11820 991905007456 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 991905007457 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 991905007458 YceG-like family; Region: YceG; pfam02618 991905007459 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 991905007460 dimerization interface [polypeptide binding]; other site 991905007461 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 991905007462 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 991905007463 dimer interface [polypeptide binding]; other site 991905007464 active site 991905007465 acyl carrier protein; Provisional; Region: acpP; PRK00982 991905007466 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 991905007467 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 991905007468 NAD(P) binding site [chemical binding]; other site 991905007469 homotetramer interface [polypeptide binding]; other site 991905007470 homodimer interface [polypeptide binding]; other site 991905007471 active site 991905007472 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 991905007473 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 991905007474 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 991905007475 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 991905007476 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 991905007477 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 991905007478 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 991905007479 replicative DNA helicase; Provisional; Region: PRK09165 991905007480 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 991905007481 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 991905007482 Walker A motif; other site 991905007483 ATP binding site [chemical binding]; other site 991905007484 Walker B motif; other site 991905007485 DNA binding loops [nucleotide binding] 991905007486 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 991905007487 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 991905007488 active site 991905007489 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 991905007490 dimer interface [polypeptide binding]; other site 991905007491 substrate binding site [chemical binding]; other site 991905007492 catalytic residues [active] 991905007493 DNA repair protein RadA; Provisional; Region: PRK11823 991905007494 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 991905007495 Walker A motif; other site 991905007496 ATP binding site [chemical binding]; other site 991905007497 Walker B motif; other site 991905007498 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 991905007499 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 991905007500 Colicin V production protein; Region: Colicin_V; pfam02674 991905007501 amidophosphoribosyltransferase; Provisional; Region: PRK09123 991905007502 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 991905007503 active site 991905007504 tetramer interface [polypeptide binding]; other site 991905007505 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905007506 active site 991905007507 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 991905007508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905007509 NAD(P) binding site [chemical binding]; other site 991905007510 active site 991905007511 GTP-binding protein Der; Reviewed; Region: PRK00093 991905007512 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 991905007513 G1 box; other site 991905007514 GTP/Mg2+ binding site [chemical binding]; other site 991905007515 Switch I region; other site 991905007516 G2 box; other site 991905007517 Switch II region; other site 991905007518 G3 box; other site 991905007519 G4 box; other site 991905007520 G5 box; other site 991905007521 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 991905007522 G1 box; other site 991905007523 GTP/Mg2+ binding site [chemical binding]; other site 991905007524 Switch I region; other site 991905007525 G2 box; other site 991905007526 G3 box; other site 991905007527 Switch II region; other site 991905007528 G4 box; other site 991905007529 G5 box; other site 991905007530 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 991905007531 PQQ-like domain; Region: PQQ_2; pfam13360 991905007532 Trp docking motif [polypeptide binding]; other site 991905007533 active site 991905007534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 991905007535 NnrU protein; Region: NnrU; pfam07298 991905007536 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 991905007537 PilZ domain; Region: PilZ; pfam07238 991905007538 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 991905007539 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 991905007540 dimer interface [polypeptide binding]; other site 991905007541 conserved gate region; other site 991905007542 putative PBP binding loops; other site 991905007543 ABC-ATPase subunit interface; other site 991905007544 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 991905007545 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 991905007546 ABC-ATPase subunit interface; other site 991905007547 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 991905007548 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 991905007549 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 991905007550 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 991905007551 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 991905007552 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 991905007553 active site 991905007554 metal binding site [ion binding]; metal-binding site 991905007555 hexamer interface [polypeptide binding]; other site 991905007556 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 991905007557 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 991905007558 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 991905007559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905007560 Walker A/P-loop; other site 991905007561 ATP binding site [chemical binding]; other site 991905007562 Q-loop/lid; other site 991905007563 ABC transporter signature motif; other site 991905007564 Walker B; other site 991905007565 D-loop; other site 991905007566 H-loop/switch region; other site 991905007567 TOBE domain; Region: TOBE_2; pfam08402 991905007568 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905007569 GMP synthase; Reviewed; Region: guaA; PRK00074 991905007570 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 991905007571 AMP/PPi binding site [chemical binding]; other site 991905007572 candidate oxyanion hole; other site 991905007573 catalytic triad [active] 991905007574 potential glutamine specificity residues [chemical binding]; other site 991905007575 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 991905007576 ATP Binding subdomain [chemical binding]; other site 991905007577 Ligand Binding sites [chemical binding]; other site 991905007578 Dimerization subdomain; other site 991905007579 Transcriptional regulators [Transcription]; Region: MarR; COG1846 991905007580 MarR family; Region: MarR_2; pfam12802 991905007581 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 991905007582 TPR motif; other site 991905007583 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 991905007584 binding surface 991905007585 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 991905007586 binding surface 991905007587 TPR motif; other site 991905007588 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 991905007589 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 991905007590 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 991905007591 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 991905007592 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 991905007593 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 991905007594 active site 991905007595 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 991905007596 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 991905007597 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 991905007598 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 991905007599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905007600 Integrase core domain; Region: rve; pfam00665 991905007601 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 991905007602 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 991905007603 Walker A motif; other site 991905007604 ATP binding site [chemical binding]; other site 991905007605 Walker B motif; other site 991905007606 arginine finger; other site 991905007607 glucuronate isomerase; Reviewed; Region: PRK02925 991905007608 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 991905007609 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 991905007610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905007611 Walker A/P-loop; other site 991905007612 ATP binding site [chemical binding]; other site 991905007613 Q-loop/lid; other site 991905007614 ABC transporter signature motif; other site 991905007615 Walker B; other site 991905007616 D-loop; other site 991905007617 H-loop/switch region; other site 991905007618 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905007619 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 991905007620 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905007621 Walker A/P-loop; other site 991905007622 ATP binding site [chemical binding]; other site 991905007623 Q-loop/lid; other site 991905007624 ABC transporter signature motif; other site 991905007625 Walker B; other site 991905007626 D-loop; other site 991905007627 H-loop/switch region; other site 991905007628 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905007629 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 991905007630 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 991905007631 dimer interface [polypeptide binding]; other site 991905007632 conserved gate region; other site 991905007633 putative PBP binding loops; other site 991905007634 ABC-ATPase subunit interface; other site 991905007635 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 991905007636 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 991905007637 dimer interface [polypeptide binding]; other site 991905007638 conserved gate region; other site 991905007639 putative PBP binding loops; other site 991905007640 ABC-ATPase subunit interface; other site 991905007641 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 991905007642 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 991905007643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905007644 DNA-binding site [nucleotide binding]; DNA binding site 991905007645 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 991905007646 FCD domain; Region: FCD; pfam07729 991905007647 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 991905007648 TPP-binding site [chemical binding]; other site 991905007649 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 991905007650 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 991905007651 PYR/PP interface [polypeptide binding]; other site 991905007652 dimer interface [polypeptide binding]; other site 991905007653 TPP binding site [chemical binding]; other site 991905007654 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 991905007655 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 991905007656 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 991905007657 enoyl-CoA hydratase; Provisional; Region: PRK05981 991905007658 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 991905007659 substrate binding site [chemical binding]; other site 991905007660 oxyanion hole (OAH) forming residues; other site 991905007661 trimer interface [polypeptide binding]; other site 991905007662 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905007663 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905007664 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905007665 DctM-like transporters; Region: DctM; pfam06808 991905007666 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905007667 hypothetical protein; Provisional; Region: PRK08204 991905007668 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 991905007669 active site 991905007670 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 991905007671 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 991905007672 putative ligand binding site [chemical binding]; other site 991905007673 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 991905007674 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 991905007675 Walker A/P-loop; other site 991905007676 ATP binding site [chemical binding]; other site 991905007677 Q-loop/lid; other site 991905007678 ABC transporter signature motif; other site 991905007679 Walker B; other site 991905007680 D-loop; other site 991905007681 H-loop/switch region; other site 991905007682 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 991905007683 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905007684 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; cl00454 991905007685 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905007686 TM-ABC transporter signature motif; other site 991905007687 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905007688 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905007689 TM-ABC transporter signature motif; other site 991905007690 cytosine deaminase; Validated; Region: PRK07572 991905007691 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 991905007692 active site 991905007693 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 991905007694 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 991905007695 E3 interaction surface; other site 991905007696 lipoyl attachment site [posttranslational modification]; other site 991905007697 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 991905007698 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 991905007699 alpha subunit interface [polypeptide binding]; other site 991905007700 TPP binding site [chemical binding]; other site 991905007701 heterodimer interface [polypeptide binding]; other site 991905007702 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 991905007703 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 991905007704 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 991905007705 tetramer interface [polypeptide binding]; other site 991905007706 TPP-binding site [chemical binding]; other site 991905007707 heterodimer interface [polypeptide binding]; other site 991905007708 phosphorylation loop region [posttranslational modification] 991905007709 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905007710 FCD domain; Region: FCD; pfam07729 991905007711 hypothetical protein; Provisional; Region: PRK08204 991905007712 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 991905007713 active site 991905007714 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 991905007715 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 991905007716 Bacterial transcriptional regulator; Region: IclR; pfam01614 991905007717 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 991905007718 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 991905007719 active site 991905007720 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 991905007721 active site 991905007722 citrylCoA binding site [chemical binding]; other site 991905007723 oxalacetate binding site [chemical binding]; other site 991905007724 coenzyme A binding site [chemical binding]; other site 991905007725 catalytic triad [active] 991905007726 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 991905007727 CoA-transferase family III; Region: CoA_transf_3; pfam02515 991905007728 YCII-related domain; Region: YCII; cl00999 991905007729 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905007730 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905007731 DctM-like transporters; Region: DctM; pfam06808 991905007732 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905007733 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 991905007734 Predicted flavoprotein [General function prediction only]; Region: COG0431 991905007735 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 991905007736 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 991905007737 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 991905007738 Transcriptional regulator [Transcription]; Region: IclR; COG1414 991905007739 Bacterial transcriptional regulator; Region: IclR; pfam01614 991905007740 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 991905007741 Predicted flavoprotein [General function prediction only]; Region: COG0431 991905007742 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 991905007743 SnoaL-like domain; Region: SnoaL_4; pfam13577 991905007744 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 991905007745 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 991905007746 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905007747 Walker A/P-loop; other site 991905007748 ATP binding site [chemical binding]; other site 991905007749 Q-loop/lid; other site 991905007750 ABC transporter signature motif; other site 991905007751 Walker B; other site 991905007752 D-loop; other site 991905007753 H-loop/switch region; other site 991905007754 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 991905007755 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 991905007756 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 991905007757 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 991905007758 FeS/SAM binding site; other site 991905007759 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 991905007760 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 991905007761 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 991905007762 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 991905007763 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 991905007764 Helix-turn-helix domain; Region: HTH_18; pfam12833 991905007765 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905007766 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905007767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905007768 DNA-binding site [nucleotide binding]; DNA binding site 991905007769 FCD domain; Region: FCD; pfam07729 991905007770 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905007771 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905007772 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 991905007773 DctM-like transporters; Region: DctM; pfam06808 991905007774 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905007775 mannonate dehydratase; Region: uxuA; TIGR00695 991905007776 mannonate dehydratase; Provisional; Region: PRK03906 991905007777 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905007778 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905007779 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 991905007780 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 991905007781 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 991905007782 catalytic loop [active] 991905007783 iron binding site [ion binding]; other site 991905007784 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 991905007785 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 991905007786 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 991905007787 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 991905007788 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905007789 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905007790 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905007791 DctM-like transporters; Region: DctM; pfam06808 991905007792 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905007793 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 991905007794 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 991905007795 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 991905007796 dimer interface [polypeptide binding]; other site 991905007797 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 991905007798 active site 991905007799 Fe binding site [ion binding]; other site 991905007800 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 991905007801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905007802 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 991905007803 dimerization interface [polypeptide binding]; other site 991905007804 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 991905007805 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 991905007806 Na binding site [ion binding]; other site 991905007807 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 991905007808 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 991905007809 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 991905007810 active site 991905007811 catalytic site [active] 991905007812 substrate binding site [chemical binding]; other site 991905007813 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 991905007814 FOG: CBS domain [General function prediction only]; Region: COG0517 991905007815 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 991905007816 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 991905007817 metal binding triad; other site 991905007818 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 991905007819 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 991905007820 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 991905007821 FMN binding site [chemical binding]; other site 991905007822 substrate binding site [chemical binding]; other site 991905007823 putative catalytic residue [active] 991905007824 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 991905007825 CoA-transferase family III; Region: CoA_transf_3; pfam02515 991905007826 enoyl-CoA hydratase; Provisional; Region: PRK06688 991905007827 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 991905007828 substrate binding site [chemical binding]; other site 991905007829 oxyanion hole (OAH) forming residues; other site 991905007830 trimer interface [polypeptide binding]; other site 991905007831 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; cl15762 991905007832 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 991905007833 substrate binding site [chemical binding]; other site 991905007834 oxyanion hole (OAH) forming residues; other site 991905007835 trimer interface [polypeptide binding]; other site 991905007836 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 991905007837 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 991905007838 dimer interface [polypeptide binding]; other site 991905007839 active site 991905007840 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06463 991905007841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905007842 NAD(P) binding site [chemical binding]; other site 991905007843 active site 991905007844 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 991905007845 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905007846 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905007847 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 991905007848 acyl-activating enzyme (AAE) consensus motif; other site 991905007849 acyl-activating enzyme (AAE) consensus motif; other site 991905007850 putative AMP binding site [chemical binding]; other site 991905007851 putative active site [active] 991905007852 putative CoA binding site [chemical binding]; other site 991905007853 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905007854 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905007855 Walker A/P-loop; other site 991905007856 ATP binding site [chemical binding]; other site 991905007857 Q-loop/lid; other site 991905007858 ABC transporter signature motif; other site 991905007859 Walker B; other site 991905007860 D-loop; other site 991905007861 H-loop/switch region; other site 991905007862 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905007863 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 991905007864 putative ligand binding site [chemical binding]; other site 991905007865 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905007866 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905007867 TM-ABC transporter signature motif; other site 991905007868 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905007869 TM-ABC transporter signature motif; other site 991905007870 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905007871 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905007872 Walker A/P-loop; other site 991905007873 ATP binding site [chemical binding]; other site 991905007874 Q-loop/lid; other site 991905007875 ABC transporter signature motif; other site 991905007876 Walker B; other site 991905007877 D-loop; other site 991905007878 H-loop/switch region; other site 991905007879 Transcriptional regulators [Transcription]; Region: FadR; COG2186 991905007880 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905007881 DNA-binding site [nucleotide binding]; DNA binding site 991905007882 FCD domain; Region: FCD; pfam07729 991905007883 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 991905007884 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 991905007885 Predicted oxidoreductase [General function prediction only]; Region: COG3573 991905007886 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 991905007887 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 991905007888 PYR/PP interface [polypeptide binding]; other site 991905007889 dimer interface [polypeptide binding]; other site 991905007890 TPP binding site [chemical binding]; other site 991905007891 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 991905007892 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 991905007893 TPP-binding site [chemical binding]; other site 991905007894 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 991905007895 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905007896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905007897 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 991905007898 putative dimerization interface [polypeptide binding]; other site 991905007899 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905007900 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 991905007901 putative ligand binding site [chemical binding]; other site 991905007902 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905007903 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905007904 TM-ABC transporter signature motif; other site 991905007905 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905007906 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905007907 TM-ABC transporter signature motif; other site 991905007908 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905007909 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905007910 Walker A/P-loop; other site 991905007911 ATP binding site [chemical binding]; other site 991905007912 Q-loop/lid; other site 991905007913 ABC transporter signature motif; other site 991905007914 Walker B; other site 991905007915 D-loop; other site 991905007916 H-loop/switch region; other site 991905007917 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905007918 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905007919 Walker A/P-loop; other site 991905007920 ATP binding site [chemical binding]; other site 991905007921 Q-loop/lid; other site 991905007922 ABC transporter signature motif; other site 991905007923 Walker B; other site 991905007924 D-loop; other site 991905007925 H-loop/switch region; other site 991905007926 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905007927 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 991905007928 NAD(P) binding site [chemical binding]; other site 991905007929 catalytic residues [active] 991905007930 short chain dehydrogenase; Provisional; Region: PRK12937 991905007931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905007932 NAD(P) binding site [chemical binding]; other site 991905007933 active site 991905007934 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 991905007935 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 991905007936 substrate binding pocket [chemical binding]; other site 991905007937 membrane-bound complex binding site; other site 991905007938 hinge residues; other site 991905007939 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 991905007940 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 991905007941 Metal-binding active site; metal-binding site 991905007942 tricarballylate utilization protein B; Provisional; Region: PRK15033 991905007943 tricarballylate dehydrogenase; Validated; Region: PRK08274 991905007944 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905007945 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905007946 DNA-binding site [nucleotide binding]; DNA binding site 991905007947 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 991905007948 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 991905007949 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905007950 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 991905007951 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 991905007952 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 991905007953 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 991905007954 SLBB domain; Region: SLBB; pfam10531 991905007955 anthranilate synthase; Provisional; Region: PRK13566 991905007956 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 991905007957 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 991905007958 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 991905007959 glutamine binding [chemical binding]; other site 991905007960 catalytic triad [active] 991905007961 PRC-barrel domain; Region: PRC; pfam05239 991905007962 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 991905007963 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 991905007964 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 991905007965 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 991905007966 Walker A/P-loop; other site 991905007967 ATP binding site [chemical binding]; other site 991905007968 Q-loop/lid; other site 991905007969 ABC transporter signature motif; other site 991905007970 Walker B; other site 991905007971 D-loop; other site 991905007972 H-loop/switch region; other site 991905007973 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 991905007974 ABC-2 type transporter; Region: ABC2_membrane; cl17235 991905007975 Methyltransferase domain; Region: Methyltransf_23; pfam13489 991905007976 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 991905007977 S-adenosylmethionine binding site [chemical binding]; other site 991905007978 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 991905007979 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 991905007980 substrate binding site; other site 991905007981 tetramer interface; other site 991905007982 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 991905007983 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 991905007984 NADP binding site [chemical binding]; other site 991905007985 active site 991905007986 putative substrate binding site [chemical binding]; other site 991905007987 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 991905007988 extended (e) SDRs; Region: SDR_e; cd08946 991905007989 NAD(P) binding site [chemical binding]; other site 991905007990 active site 991905007991 substrate binding site [chemical binding]; other site 991905007992 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 991905007993 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 991905007994 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 991905007995 NADP-binding site; other site 991905007996 homotetramer interface [polypeptide binding]; other site 991905007997 substrate binding site [chemical binding]; other site 991905007998 homodimer interface [polypeptide binding]; other site 991905007999 active site 991905008000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905008001 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 991905008002 NAD(P) binding site [chemical binding]; other site 991905008003 active site 991905008004 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 991905008005 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905008006 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 991905008007 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 991905008008 active site 991905008009 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 991905008010 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 991905008011 Probable Catalytic site; other site 991905008012 metal-binding site 991905008013 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 991905008014 Methyltransferase domain; Region: Methyltransf_23; pfam13489 991905008015 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 991905008016 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905008017 Ligand Binding Site [chemical binding]; other site 991905008018 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905008019 Ligand Binding Site [chemical binding]; other site 991905008020 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 991905008021 DNA binding residues [nucleotide binding] 991905008022 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 991905008023 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 991905008024 TrkA-N domain; Region: TrkA_N; pfam02254 991905008025 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 991905008026 formate-dependent cytochrome c nitrite reductase, c552 subunit; Region: cyto_c552_HCOOH; TIGR03152 991905008027 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 991905008028 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 991905008029 FAD binding pocket [chemical binding]; other site 991905008030 FAD binding motif [chemical binding]; other site 991905008031 phosphate binding motif [ion binding]; other site 991905008032 beta-alpha-beta structure motif; other site 991905008033 NAD binding pocket [chemical binding]; other site 991905008034 CopC domain; Region: CopC; pfam04234 991905008035 Copper resistance protein D; Region: CopD; cl00563 991905008036 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 991905008037 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 991905008038 Chromate transporter; Region: Chromate_transp; pfam02417 991905008039 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 991905008040 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 991905008041 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 991905008042 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 991905008043 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 991905008044 dimer interface [polypeptide binding]; other site 991905008045 conserved gate region; other site 991905008046 putative PBP binding loops; other site 991905008047 ABC-ATPase subunit interface; other site 991905008048 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 991905008049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905008050 Walker A/P-loop; other site 991905008051 ATP binding site [chemical binding]; other site 991905008052 Q-loop/lid; other site 991905008053 ABC transporter signature motif; other site 991905008054 Walker B; other site 991905008055 D-loop; other site 991905008056 H-loop/switch region; other site 991905008057 TOBE domain; Region: TOBE; pfam03459 991905008058 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 991905008059 ApbE family; Region: ApbE; pfam02424 991905008060 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 991905008061 FAD binding pocket [chemical binding]; other site 991905008062 FAD binding motif [chemical binding]; other site 991905008063 catalytic residues [active] 991905008064 NAD binding pocket [chemical binding]; other site 991905008065 phosphate binding motif [ion binding]; other site 991905008066 beta-alpha-beta structure motif; other site 991905008067 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 991905008068 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 991905008069 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 991905008070 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905008071 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 991905008072 active site 991905008073 phosphorylation site [posttranslational modification] 991905008074 intermolecular recognition site; other site 991905008075 dimerization interface [polypeptide binding]; other site 991905008076 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 991905008077 DNA binding site [nucleotide binding] 991905008078 sensor protein QseC; Provisional; Region: PRK10337 991905008079 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 991905008080 dimer interface [polypeptide binding]; other site 991905008081 phosphorylation site [posttranslational modification] 991905008082 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 991905008083 Mg2+ binding site [ion binding]; other site 991905008084 G-X-G motif; other site 991905008085 Cytochrome c; Region: Cytochrom_C; pfam00034 991905008086 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 991905008087 FAD binding domain; Region: FAD_binding_4; pfam01565 991905008088 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 991905008089 GAF domain; Region: GAF_2; pfam13185 991905008090 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 991905008091 Transposase; Region: HTH_Tnp_1; pfam01527 991905008092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 991905008093 putative transposase OrfB; Reviewed; Region: PHA02517 991905008094 HTH-like domain; Region: HTH_21; pfam13276 991905008095 Integrase core domain; Region: rve; pfam00665 991905008096 Integrase core domain; Region: rve_3; pfam13683 991905008097 Helix-turn-helix domain; Region: HTH_28; pfam13518 991905008098 Winged helix-turn helix; Region: HTH_29; pfam13551 991905008099 Homeodomain-like domain; Region: HTH_32; pfam13565 991905008100 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 991905008101 Integrase core domain; Region: rve; pfam00665 991905008102 Integrase core domain; Region: rve_3; pfam13683 991905008103 HTH-like domain; Region: HTH_21; pfam13276 991905008104 Integrase core domain; Region: rve; pfam00665 991905008105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 991905008106 Transposase; Region: HTH_Tnp_1; pfam01527 991905008107 Rrf2 family protein; Region: rrf2_super; TIGR00738 991905008108 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 991905008109 additional DNA contacts [nucleotide binding]; other site 991905008110 active site 991905008111 zinc binding site [ion binding]; other site 991905008112 DNA intercalation site [nucleotide binding]; other site 991905008113 AAA-like domain; Region: AAA_10; pfam12846 991905008114 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 991905008115 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 991905008116 cofactor binding site; other site 991905008117 DNA binding site [nucleotide binding] 991905008118 substrate interaction site [chemical binding]; other site 991905008119 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 991905008120 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 991905008121 BA14K-like protein; Region: BA14K; pfam07886 991905008122 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 991905008123 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 991905008124 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 991905008125 C-terminal domain interface [polypeptide binding]; other site 991905008126 GSH binding site (G-site) [chemical binding]; other site 991905008127 dimer interface [polypeptide binding]; other site 991905008128 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 991905008129 N-terminal domain interface [polypeptide binding]; other site 991905008130 putative dimer interface [polypeptide binding]; other site 991905008131 active site 991905008132 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 991905008133 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905008134 Coenzyme A binding pocket [chemical binding]; other site 991905008135 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 991905008136 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 991905008137 GatB domain; Region: GatB_Yqey; smart00845 991905008138 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 991905008139 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 991905008140 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 991905008141 Ligand binding site; other site 991905008142 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 991905008143 DXD motif; other site 991905008144 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 991905008145 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 991905008146 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 991905008147 hydroxyglutarate oxidase; Provisional; Region: PRK11728 991905008148 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 991905008149 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 991905008150 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 991905008151 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905008152 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905008153 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 991905008154 AAA domain; Region: AAA_32; pfam13654 991905008155 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 991905008156 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 991905008157 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905008158 Ligand Binding Site [chemical binding]; other site 991905008159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 991905008160 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905008161 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 991905008162 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 991905008163 30S subunit binding site; other site 991905008164 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 991905008165 DNA-binding site [nucleotide binding]; DNA binding site 991905008166 RNA-binding motif; other site 991905008167 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 991905008168 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 991905008169 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905008170 active site 991905008171 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 991905008172 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 991905008173 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 991905008174 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 991905008175 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 991905008176 motif II; other site 991905008177 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 991905008178 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 991905008179 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 991905008180 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 991905008181 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 991905008182 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 991905008183 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 991905008184 Transcriptional regulator; Region: Rrf2; cl17282 991905008185 Predicted transcriptional regulator [Transcription]; Region: COG1959 991905008186 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 991905008187 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 991905008188 putative oligomer interface [polypeptide binding]; other site 991905008189 putative active site [active] 991905008190 metal binding site [ion binding]; metal-binding site 991905008191 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 991905008192 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905008193 Coenzyme A binding pocket [chemical binding]; other site 991905008194 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905008195 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905008196 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 991905008197 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 991905008198 active site 991905008199 dimer interface [polypeptide binding]; other site 991905008200 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 991905008201 Ligand Binding Site [chemical binding]; other site 991905008202 Molecular Tunnel; other site 991905008203 Transcriptional regulators [Transcription]; Region: MarR; COG1846 991905008204 MarR family; Region: MarR; pfam01047 991905008205 Helix-turn-helix domain; Region: HTH_28; pfam13518 991905008206 Winged helix-turn helix; Region: HTH_29; pfam13551 991905008207 Homeodomain-like domain; Region: HTH_32; pfam13565 991905008208 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 991905008209 Integrase core domain; Region: rve; pfam00665 991905008210 Integrase core domain; Region: rve_3; pfam13683 991905008211 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 991905008212 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 991905008213 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 991905008214 active site 991905008215 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 991905008216 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 991905008217 dimer interface [polypeptide binding]; other site 991905008218 conserved gate region; other site 991905008219 putative PBP binding loops; other site 991905008220 ABC-ATPase subunit interface; other site 991905008221 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 991905008222 dimer interface [polypeptide binding]; other site 991905008223 conserved gate region; other site 991905008224 putative PBP binding loops; other site 991905008225 ABC-ATPase subunit interface; other site 991905008226 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 991905008227 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 991905008228 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 991905008229 Walker A/P-loop; other site 991905008230 ATP binding site [chemical binding]; other site 991905008231 Q-loop/lid; other site 991905008232 ABC transporter signature motif; other site 991905008233 Walker B; other site 991905008234 D-loop; other site 991905008235 H-loop/switch region; other site 991905008236 TOBE domain; Region: TOBE_2; pfam08402 991905008237 hypothetical protein; Provisional; Region: PRK07482 991905008238 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 991905008239 inhibitor-cofactor binding pocket; inhibition site 991905008240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905008241 catalytic residue [active] 991905008242 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 991905008243 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 991905008244 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 991905008245 active site 991905008246 acetylornithine deacetylase; Provisional; Region: PRK07522 991905008247 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 991905008248 metal binding site [ion binding]; metal-binding site 991905008249 putative dimer interface [polypeptide binding]; other site 991905008250 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905008251 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905008252 DNA-binding site [nucleotide binding]; DNA binding site 991905008253 FCD domain; Region: FCD; pfam07729 991905008254 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 991905008255 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 991905008256 intersubunit interface [polypeptide binding]; other site 991905008257 active site 991905008258 Zn2+ binding site [ion binding]; other site 991905008259 fructokinase; Reviewed; Region: PRK09557 991905008260 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 991905008261 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 991905008262 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 991905008263 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 991905008264 Predicted amidohydrolase [General function prediction only]; Region: COG0388 991905008265 active site 991905008266 catalytic triad [active] 991905008267 dimer interface [polypeptide binding]; other site 991905008268 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 991905008269 DHH family; Region: DHH; pfam01368 991905008270 DHHA1 domain; Region: DHHA1; pfam02272 991905008271 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 991905008272 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 991905008273 putative active site [active] 991905008274 homoserine dehydrogenase; Provisional; Region: PRK06349 991905008275 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 991905008276 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 991905008277 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 991905008278 aminotransferase; Validated; Region: PRK09148 991905008279 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 991905008280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905008281 homodimer interface [polypeptide binding]; other site 991905008282 catalytic residue [active] 991905008283 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 991905008284 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 991905008285 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 991905008286 agmatinase; Region: agmatinase; TIGR01230 991905008287 oligomer interface [polypeptide binding]; other site 991905008288 putative active site [active] 991905008289 Mn binding site [ion binding]; other site 991905008290 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 991905008291 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 991905008292 23S rRNA interface [nucleotide binding]; other site 991905008293 L3 interface [polypeptide binding]; other site 991905008294 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 991905008295 CoenzymeA binding site [chemical binding]; other site 991905008296 subunit interaction site [polypeptide binding]; other site 991905008297 PHB binding site; other site 991905008298 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 991905008299 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 991905008300 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 991905008301 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; cl00246 991905008302 FAD binding site [chemical binding]; other site 991905008303 Transcriptional regulators [Transcription]; Region: MarR; COG1846 991905008304 MarR family; Region: MarR; pfam01047 991905008305 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 991905008306 Transglycosylase SLT domain; Region: SLT_2; pfam13406 991905008307 murein hydrolase B; Provisional; Region: PRK10760; cl17906 991905008308 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905008309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905008310 NAD(P) binding site [chemical binding]; other site 991905008311 active site 991905008312 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 991905008313 cyclase homology domain; Region: CHD; cd07302 991905008314 nucleotidyl binding site; other site 991905008315 metal binding site [ion binding]; metal-binding site 991905008316 dimer interface [polypeptide binding]; other site 991905008317 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 991905008318 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 991905008319 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 991905008320 ligand binding site [chemical binding]; other site 991905008321 flexible hinge region; other site 991905008322 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 991905008323 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 991905008324 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 991905008325 Walker A/P-loop; other site 991905008326 ATP binding site [chemical binding]; other site 991905008327 Q-loop/lid; other site 991905008328 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 991905008329 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 991905008330 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 991905008331 putative ADP-binding pocket [chemical binding]; other site 991905008332 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905008333 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905008334 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 991905008335 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 991905008336 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 991905008337 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 991905008338 NodB motif; other site 991905008339 putative active site [active] 991905008340 putative catalytic site [active] 991905008341 putative Zn binding site [ion binding]; other site 991905008342 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 991905008343 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 991905008344 Beta-Casp domain; Region: Beta-Casp; smart01027 991905008345 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 991905008346 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 991905008347 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 991905008348 dimerization interface [polypeptide binding]; other site 991905008349 putative DNA binding site [nucleotide binding]; other site 991905008350 putative Zn2+ binding site [ion binding]; other site 991905008351 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 991905008352 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 991905008353 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 991905008354 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 991905008355 catalytic residues [active] 991905008356 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 991905008357 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 991905008358 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 991905008359 Cytochrome c; Region: Cytochrom_C; cl11414 991905008360 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 991905008361 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 991905008362 active site 991905008363 metal binding site [ion binding]; metal-binding site 991905008364 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 991905008365 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 991905008366 Moco binding site; other site 991905008367 metal coordination site [ion binding]; other site 991905008368 dimerization interface [polypeptide binding]; other site 991905008369 Cytochrome c; Region: Cytochrom_C; pfam00034 991905008370 Cytochrome c2 [Energy production and conversion]; Region: COG3474 991905008371 Cytochrome c; Region: Cytochrom_C; cl11414 991905008372 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 991905008373 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 991905008374 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 991905008375 metal binding site 2 [ion binding]; metal-binding site 991905008376 putative DNA binding helix; other site 991905008377 metal binding site 1 [ion binding]; metal-binding site 991905008378 dimer interface [polypeptide binding]; other site 991905008379 structural Zn2+ binding site [ion binding]; other site 991905008380 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 991905008381 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; cl00462 991905008382 putative PBP binding regions; other site 991905008383 ABC-ATPase subunit interface; other site 991905008384 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 991905008385 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 991905008386 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 991905008387 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 991905008388 metal binding site [ion binding]; metal-binding site 991905008389 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 991905008390 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 991905008391 CysD dimerization site [polypeptide binding]; other site 991905008392 G1 box; other site 991905008393 putative GEF interaction site [polypeptide binding]; other site 991905008394 GTP/Mg2+ binding site [chemical binding]; other site 991905008395 Switch I region; other site 991905008396 G2 box; other site 991905008397 G3 box; other site 991905008398 Switch II region; other site 991905008399 G4 box; other site 991905008400 G5 box; other site 991905008401 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 991905008402 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 991905008403 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 991905008404 ligand-binding site [chemical binding]; other site 991905008405 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 991905008406 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 991905008407 Active Sites [active] 991905008408 DctM-like transporters; Region: DctM; pfam06808 991905008409 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905008410 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905008411 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905008412 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905008413 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 991905008414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905008415 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 991905008416 dimerization interface [polypeptide binding]; other site 991905008417 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 991905008418 TAP-like protein; Region: Abhydrolase_4; pfam08386 991905008419 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 991905008420 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 991905008421 heterodimer interface [polypeptide binding]; other site 991905008422 multimer interface [polypeptide binding]; other site 991905008423 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 991905008424 active site 991905008425 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 991905008426 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 991905008427 heterodimer interface [polypeptide binding]; other site 991905008428 active site 991905008429 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 991905008430 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 991905008431 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 991905008432 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 991905008433 dimer interface [polypeptide binding]; other site 991905008434 active site 991905008435 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 991905008436 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 991905008437 tetramer interface [polypeptide binding]; other site 991905008438 active site 991905008439 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 991905008440 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 991905008441 Cupin domain; Region: Cupin_2; cl17218 991905008442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905008443 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 991905008444 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 991905008445 active site 991905008446 catalytic site [active] 991905008447 tetramer interface [polypeptide binding]; other site 991905008448 Predicted transcriptional regulators [Transcription]; Region: COG1695 991905008449 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 991905008450 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 991905008451 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 991905008452 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905008453 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 991905008454 Protein export membrane protein; Region: SecD_SecF; cl14618 991905008455 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 991905008456 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 991905008457 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 991905008458 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 991905008459 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 991905008460 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 991905008461 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 991905008462 Walker A/P-loop; other site 991905008463 ATP binding site [chemical binding]; other site 991905008464 Q-loop/lid; other site 991905008465 ABC transporter signature motif; other site 991905008466 Walker B; other site 991905008467 D-loop; other site 991905008468 H-loop/switch region; other site 991905008469 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 991905008470 putative DNA binding site [nucleotide binding]; other site 991905008471 dimerization interface [polypeptide binding]; other site 991905008472 putative Zn2+ binding site [ion binding]; other site 991905008473 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 991905008474 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 991905008475 Predicted permeases [General function prediction only]; Region: RarD; COG2962 991905008476 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 991905008477 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 991905008478 active site 991905008479 catalytic residues [active] 991905008480 metal binding site [ion binding]; metal-binding site 991905008481 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 991905008482 Uncharacterized conserved protein [Function unknown]; Region: COG3791 991905008483 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 991905008484 putative active site [active] 991905008485 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 991905008486 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 991905008487 active site 991905008488 HIGH motif; other site 991905008489 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 991905008490 KMSKS motif; other site 991905008491 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 991905008492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 991905008493 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905008494 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905008495 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905008496 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 991905008497 dimerization interface [polypeptide binding]; other site 991905008498 putative DNA binding site [nucleotide binding]; other site 991905008499 putative Zn2+ binding site [ion binding]; other site 991905008500 CreA protein; Region: CreA; pfam05981 991905008501 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 991905008502 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905008503 MarR family; Region: MarR; pfam01047 991905008504 MarR family; Region: MarR_2; cl17246 991905008505 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 991905008506 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 991905008507 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 991905008508 active site 991905008509 HIGH motif; other site 991905008510 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 991905008511 active site 991905008512 KMSKS motif; other site 991905008513 NAD synthetase; Provisional; Region: PRK13981 991905008514 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 991905008515 multimer interface [polypeptide binding]; other site 991905008516 active site 991905008517 catalytic triad [active] 991905008518 protein interface 1 [polypeptide binding]; other site 991905008519 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 991905008520 homodimer interface [polypeptide binding]; other site 991905008521 NAD binding pocket [chemical binding]; other site 991905008522 ATP binding pocket [chemical binding]; other site 991905008523 Mg binding site [ion binding]; other site 991905008524 active-site loop [active] 991905008525 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 991905008526 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 991905008527 active site 991905008528 phosphorylation site [posttranslational modification] 991905008529 intermolecular recognition site; other site 991905008530 dimerization interface [polypeptide binding]; other site 991905008531 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 991905008532 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_3; cd02434 991905008533 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl15777 991905008534 putative active site pocket [active] 991905008535 dimerization interface [polypeptide binding]; other site 991905008536 putative catalytic residue [active] 991905008537 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 991905008538 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 991905008539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905008540 catalytic residue [active] 991905008541 CHASE4 domain; Region: CHASE4; cl01308 991905008542 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905008543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905008544 metal binding site [ion binding]; metal-binding site 991905008545 active site 991905008546 I-site; other site 991905008547 glutathione reductase; Validated; Region: PRK06116 991905008548 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 991905008549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905008550 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 991905008551 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 991905008552 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 991905008553 tetramer (dimer of dimers) interface [polypeptide binding]; other site 991905008554 active site 991905008555 dimer interface [polypeptide binding]; other site 991905008556 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905008557 dimer interface [polypeptide binding]; other site 991905008558 putative CheW interface [polypeptide binding]; other site 991905008559 PilZ domain; Region: PilZ; pfam07238 991905008560 phosphoglycolate phosphatase; Provisional; Region: PRK13222 991905008561 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 991905008562 motif II; other site 991905008563 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 991905008564 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 991905008565 heme-binding site [chemical binding]; other site 991905008566 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905008567 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905008568 dimer interface [polypeptide binding]; other site 991905008569 putative CheW interface [polypeptide binding]; other site 991905008570 Tetratricopeptide repeat; Region: TPR_16; pfam13432 991905008571 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 991905008572 TPR motif; other site 991905008573 binding surface 991905008574 TPR repeat; Region: TPR_11; pfam13414 991905008575 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 991905008576 binding surface 991905008577 TPR motif; other site 991905008578 TPR repeat; Region: TPR_11; pfam13414 991905008579 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 991905008580 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 991905008581 binding surface 991905008582 TPR motif; other site 991905008583 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 991905008584 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 991905008585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905008586 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 991905008587 NAD(P) binding site [chemical binding]; other site 991905008588 active site 991905008589 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 991905008590 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 991905008591 homodimer interface [polypeptide binding]; other site 991905008592 substrate-cofactor binding pocket; other site 991905008593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905008594 catalytic residue [active] 991905008595 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 991905008596 active site 991905008597 Methyltransferase domain; Region: Methyltransf_31; pfam13847 991905008598 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 991905008599 S-adenosylmethionine binding site [chemical binding]; other site 991905008600 NeuB family; Region: NeuB; pfam03102 991905008601 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 991905008602 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 991905008603 FAD binding pocket [chemical binding]; other site 991905008604 FAD binding motif [chemical binding]; other site 991905008605 phosphate binding motif [ion binding]; other site 991905008606 beta-alpha-beta structure motif; other site 991905008607 NAD binding pocket [chemical binding]; other site 991905008608 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 991905008609 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 991905008610 conserved cys residue [active] 991905008611 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905008612 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 991905008613 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 991905008614 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 991905008615 Potassium binding sites [ion binding]; other site 991905008616 Cesium cation binding sites [ion binding]; other site 991905008617 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 991905008618 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 991905008619 B12 binding site [chemical binding]; other site 991905008620 cobalt ligand [ion binding]; other site 991905008621 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 991905008622 Virulence factor; Region: Virulence_fact; pfam13769 991905008623 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; cl00246 991905008624 FAD binding site [chemical binding]; other site 991905008625 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 991905008626 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 991905008627 substrate binding pocket [chemical binding]; other site 991905008628 inhibitor binding site; inhibition site 991905008629 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 991905008630 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 991905008631 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 991905008632 dimer interface [polypeptide binding]; other site 991905008633 conserved gate region; other site 991905008634 putative PBP binding loops; other site 991905008635 ABC-ATPase subunit interface; other site 991905008636 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 991905008637 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 991905008638 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 991905008639 dimer interface [polypeptide binding]; other site 991905008640 conserved gate region; other site 991905008641 putative PBP binding loops; other site 991905008642 ABC-ATPase subunit interface; other site 991905008643 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 991905008644 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 991905008645 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 991905008646 hydroxyglutarate oxidase; Provisional; Region: PRK11728 991905008647 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 991905008648 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 991905008649 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 991905008650 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 991905008651 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 991905008652 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 991905008653 active site 991905008654 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 991905008655 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 991905008656 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 991905008657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905008658 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 991905008659 Enoylreductase; Region: PKS_ER; smart00829 991905008660 NAD(P) binding site [chemical binding]; other site 991905008661 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 991905008662 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 991905008663 putative NADP binding site [chemical binding]; other site 991905008664 active site 991905008665 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 991905008666 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 991905008667 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 991905008668 substrate-cofactor binding pocket; other site 991905008669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905008670 catalytic residue [active] 991905008671 short chain dehydrogenase; Provisional; Region: PRK06101 991905008672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905008673 NAD(P) binding site [chemical binding]; other site 991905008674 active site 991905008675 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 991905008676 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 991905008677 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 991905008678 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 991905008679 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 991905008680 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 991905008681 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 991905008682 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 991905008683 SLBB domain; Region: SLBB; pfam10531 991905008684 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 991905008685 dimerization interface [polypeptide binding]; other site 991905008686 putative active cleft [active] 991905008687 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 991905008688 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 991905008689 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 991905008690 homodimer interface [polypeptide binding]; other site 991905008691 NADP binding site [chemical binding]; other site 991905008692 substrate binding site [chemical binding]; other site 991905008693 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 991905008694 Surface antigen; Region: Bac_surface_Ag; pfam01103 991905008695 Family of unknown function (DUF490); Region: DUF490; pfam04357 991905008696 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 991905008697 non-specific DNA binding site [nucleotide binding]; other site 991905008698 salt bridge; other site 991905008699 sequence-specific DNA binding site [nucleotide binding]; other site 991905008700 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 991905008701 succinic semialdehyde dehydrogenase; Region: PLN02278 991905008702 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 991905008703 tetramerization interface [polypeptide binding]; other site 991905008704 NAD(P) binding site [chemical binding]; other site 991905008705 catalytic residues [active] 991905008706 CHASE2 domain; Region: CHASE2; pfam05226 991905008707 PAS fold; Region: PAS_4; pfam08448 991905008708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905008709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905008710 metal binding site [ion binding]; metal-binding site 991905008711 active site 991905008712 I-site; other site 991905008713 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 991905008714 FecR protein; Region: FecR; pfam04773 991905008715 Uncharacterized conserved protein [Function unknown]; Region: COG2353 991905008716 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 991905008717 YceI-like domain; Region: YceI; pfam04264 991905008718 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 991905008719 fumarate hydratase; Provisional; Region: PRK15389 991905008720 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 991905008721 Fumarase C-terminus; Region: Fumerase_C; pfam05683 991905008722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 991905008723 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905008724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 991905008725 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 991905008726 DNA photolyase; Region: DNA_photolyase; pfam00875 991905008727 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 991905008728 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 991905008729 FeS/SAM binding site; other site 991905008730 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 991905008731 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 991905008732 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 991905008733 putative substrate translocation pore; other site 991905008734 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 991905008735 antiporter inner membrane protein; Provisional; Region: PRK11670 991905008736 Domain of unknown function DUF59; Region: DUF59; pfam01883 991905008737 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 991905008738 short chain dehydrogenase; Provisional; Region: PRK08219 991905008739 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 991905008740 NADP binding site [chemical binding]; other site 991905008741 homodimer interface [polypeptide binding]; other site 991905008742 active site 991905008743 Sensors of blue-light using FAD; Region: BLUF; pfam04940 991905008744 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 991905008745 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 991905008746 GTP binding site; other site 991905008747 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 991905008748 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 991905008749 dimer interface [polypeptide binding]; other site 991905008750 putative functional site; other site 991905008751 putative MPT binding site; other site 991905008752 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 991905008753 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 991905008754 substrate binding pocket [chemical binding]; other site 991905008755 membrane-bound complex binding site; other site 991905008756 hinge residues; other site 991905008757 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 991905008758 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 991905008759 dimer interface [polypeptide binding]; other site 991905008760 conserved gate region; other site 991905008761 putative PBP binding loops; other site 991905008762 ABC-ATPase subunit interface; other site 991905008763 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 991905008764 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 991905008765 dimer interface [polypeptide binding]; other site 991905008766 conserved gate region; other site 991905008767 putative PBP binding loops; other site 991905008768 ABC-ATPase subunit interface; other site 991905008769 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 991905008770 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 991905008771 Domain of unknown function DUF302; Region: DUF302; cl01364 991905008772 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 991905008773 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 991905008774 putative DNA binding site [nucleotide binding]; other site 991905008775 putative Zn2+ binding site [ion binding]; other site 991905008776 AsnC family; Region: AsnC_trans_reg; pfam01037 991905008777 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 991905008778 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 991905008779 active site residue [active] 991905008780 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 991905008781 active site residue [active] 991905008782 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 991905008783 putative uracil binding site [chemical binding]; other site 991905008784 putative active site [active] 991905008785 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 991905008786 dimer interface [polypeptide binding]; other site 991905008787 phosphorylation site [posttranslational modification] 991905008788 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 991905008789 ATP binding site [chemical binding]; other site 991905008790 Mg2+ binding site [ion binding]; other site 991905008791 G-X-G motif; other site 991905008792 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 991905008793 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 991905008794 putative dimer interface [polypeptide binding]; other site 991905008795 active site pocket [active] 991905008796 putative cataytic base [active] 991905008797 cobalamin synthase; Reviewed; Region: cobS; PRK00235 991905008798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 991905008799 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 991905008800 Predicted aspartyl protease [General function prediction only]; Region: COG3577 991905008801 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 991905008802 catalytic motif [active] 991905008803 Catalytic residue [active] 991905008804 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 991905008805 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 991905008806 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 991905008807 FMN binding site [chemical binding]; other site 991905008808 active site 991905008809 catalytic residues [active] 991905008810 substrate binding site [chemical binding]; other site 991905008811 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 991905008812 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 991905008813 dimer interface [polypeptide binding]; other site 991905008814 conserved gate region; other site 991905008815 ABC-ATPase subunit interface; other site 991905008816 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 991905008817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905008818 Walker A/P-loop; other site 991905008819 ATP binding site [chemical binding]; other site 991905008820 Q-loop/lid; other site 991905008821 ABC transporter signature motif; other site 991905008822 Walker B; other site 991905008823 D-loop; other site 991905008824 H-loop/switch region; other site 991905008825 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 991905008826 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 991905008827 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 991905008828 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 991905008829 Walker A motif; other site 991905008830 ATP binding site [chemical binding]; other site 991905008831 Walker B motif; other site 991905008832 arginine finger; other site 991905008833 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905008834 Integrase core domain; Region: rve; pfam00665 991905008835 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 991905008836 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 991905008837 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 991905008838 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 991905008839 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 991905008840 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 991905008841 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 991905008842 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 991905008843 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 991905008844 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 991905008845 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 991905008846 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 991905008847 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 991905008848 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905008849 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 991905008850 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 991905008851 Walker A/P-loop; other site 991905008852 ATP binding site [chemical binding]; other site 991905008853 Q-loop/lid; other site 991905008854 ABC transporter signature motif; other site 991905008855 Walker B; other site 991905008856 D-loop; other site 991905008857 H-loop/switch region; other site 991905008858 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905008859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905008860 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905008861 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 991905008862 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 991905008863 dimerization interface [polypeptide binding]; other site 991905008864 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 991905008865 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 991905008866 active site 991905008867 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905008868 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 991905008869 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 991905008870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 991905008871 hypothetical protein; Provisional; Region: PRK09262 991905008872 hypothetical protein; Validated; Region: PRK06201 991905008873 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 991905008874 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 991905008875 N-terminal, non-catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_N_like; cd09013 991905008876 tetramer interface [polypeptide binding]; other site 991905008877 C-terminal, catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_C_like; cd09014 991905008878 tetramer interface [polypeptide binding]; other site 991905008879 active site 991905008880 metal binding site [ion binding]; metal-binding site 991905008881 YCII-related domain; Region: YCII; cl00999 991905008882 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 991905008883 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 991905008884 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 991905008885 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 991905008886 FMN-binding pocket [chemical binding]; other site 991905008887 flavin binding motif; other site 991905008888 phosphate binding motif [ion binding]; other site 991905008889 beta-alpha-beta structure motif; other site 991905008890 NAD binding pocket [chemical binding]; other site 991905008891 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 991905008892 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 991905008893 catalytic loop [active] 991905008894 iron binding site [ion binding]; other site 991905008895 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905008896 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905008897 DNA-binding site [nucleotide binding]; DNA binding site 991905008898 FCD domain; Region: FCD; pfam07729 991905008899 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 991905008900 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 991905008901 iron-sulfur cluster [ion binding]; other site 991905008902 [2Fe-2S] cluster binding site [ion binding]; other site 991905008903 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 991905008904 alpha subunit interface [polypeptide binding]; other site 991905008905 active site 991905008906 substrate binding site [chemical binding]; other site 991905008907 Fe binding site [ion binding]; other site 991905008908 DctM-like transporters; Region: DctM; pfam06808 991905008909 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905008910 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905008911 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905008912 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905008913 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 991905008914 active site 991905008915 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905008916 MarR family; Region: MarR; pfam01047 991905008917 MarR family; Region: MarR_2; cl17246 991905008918 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 991905008919 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 991905008920 substrate binding site [chemical binding]; other site 991905008921 oxyanion hole (OAH) forming residues; other site 991905008922 trimer interface [polypeptide binding]; other site 991905008923 feruloyl-CoA synthase; Reviewed; Region: PRK08180 991905008924 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 991905008925 acyl-activating enzyme (AAE) consensus motif; other site 991905008926 putative AMP binding site [chemical binding]; other site 991905008927 putative active site [active] 991905008928 putative CoA binding site [chemical binding]; other site 991905008929 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 991905008930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905008931 NAD(P) binding site [chemical binding]; other site 991905008932 active site 991905008933 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905008934 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905008935 active site 991905008936 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905008937 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 991905008938 Walker A/P-loop; other site 991905008939 ATP binding site [chemical binding]; other site 991905008940 Q-loop/lid; other site 991905008941 ABC transporter signature motif; other site 991905008942 Walker B; other site 991905008943 D-loop; other site 991905008944 H-loop/switch region; other site 991905008945 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 991905008946 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905008947 Walker A/P-loop; other site 991905008948 ATP binding site [chemical binding]; other site 991905008949 Q-loop/lid; other site 991905008950 ABC transporter signature motif; other site 991905008951 Walker B; other site 991905008952 D-loop; other site 991905008953 H-loop/switch region; other site 991905008954 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 991905008955 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 991905008956 tetrameric interface [polypeptide binding]; other site 991905008957 NAD binding site [chemical binding]; other site 991905008958 catalytic residues [active] 991905008959 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905008960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905008961 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 991905008962 dimerization interface [polypeptide binding]; other site 991905008963 Pirin-related protein [General function prediction only]; Region: COG1741 991905008964 Pirin; Region: Pirin; pfam02678 991905008965 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 991905008966 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13013 991905008967 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like6; cd08011 991905008968 metal binding site [ion binding]; metal-binding site 991905008969 putative dimer interface [polypeptide binding]; other site 991905008970 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 991905008971 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 991905008972 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 991905008973 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 991905008974 dimer interface [polypeptide binding]; other site 991905008975 conserved gate region; other site 991905008976 putative PBP binding loops; other site 991905008977 ABC-ATPase subunit interface; other site 991905008978 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 991905008979 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 991905008980 dimer interface [polypeptide binding]; other site 991905008981 conserved gate region; other site 991905008982 putative PBP binding loops; other site 991905008983 ABC-ATPase subunit interface; other site 991905008984 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905008985 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 991905008986 Walker A/P-loop; other site 991905008987 ATP binding site [chemical binding]; other site 991905008988 Q-loop/lid; other site 991905008989 ABC transporter signature motif; other site 991905008990 Walker B; other site 991905008991 D-loop; other site 991905008992 H-loop/switch region; other site 991905008993 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905008994 Walker A/P-loop; other site 991905008995 ATP binding site [chemical binding]; other site 991905008996 Q-loop/lid; other site 991905008997 ABC transporter signature motif; other site 991905008998 Walker B; other site 991905008999 D-loop; other site 991905009000 H-loop/switch region; other site 991905009001 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905009002 Methyltransferase domain; Region: Methyltransf_31; pfam13847 991905009003 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 991905009004 S-adenosylmethionine binding site [chemical binding]; other site 991905009005 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 991905009006 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 991905009007 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 991905009008 dimer interface [polypeptide binding]; other site 991905009009 conserved gate region; other site 991905009010 putative PBP binding loops; other site 991905009011 ABC-ATPase subunit interface; other site 991905009012 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 991905009013 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 991905009014 dimer interface [polypeptide binding]; other site 991905009015 conserved gate region; other site 991905009016 putative PBP binding loops; other site 991905009017 ABC-ATPase subunit interface; other site 991905009018 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 991905009019 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 991905009020 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 991905009021 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905009022 Walker A/P-loop; other site 991905009023 ATP binding site [chemical binding]; other site 991905009024 Q-loop/lid; other site 991905009025 ABC transporter signature motif; other site 991905009026 Walker B; other site 991905009027 D-loop; other site 991905009028 H-loop/switch region; other site 991905009029 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905009030 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905009031 Walker A/P-loop; other site 991905009032 ATP binding site [chemical binding]; other site 991905009033 Q-loop/lid; other site 991905009034 ABC transporter signature motif; other site 991905009035 Walker B; other site 991905009036 D-loop; other site 991905009037 H-loop/switch region; other site 991905009038 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905009039 HAMP domain; Region: HAMP; pfam00672 991905009040 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 991905009041 cyclase homology domain; Region: CHD; cd07302 991905009042 nucleotidyl binding site; other site 991905009043 metal binding site [ion binding]; metal-binding site 991905009044 dimer interface [polypeptide binding]; other site 991905009045 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 991905009046 CoA-transferase family III; Region: CoA_transf_3; pfam02515 991905009047 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 991905009048 aminopeptidase N; Provisional; Region: pepN; PRK14015 991905009049 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 991905009050 active site 991905009051 Zn binding site [ion binding]; other site 991905009052 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 991905009053 RES domain; Region: RES; pfam08808 991905009054 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905009055 PAS fold; Region: PAS_3; pfam08447 991905009056 putative active site [active] 991905009057 heme pocket [chemical binding]; other site 991905009058 PAS fold; Region: PAS_7; pfam12860 991905009059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905009060 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 991905009061 dimer interface [polypeptide binding]; other site 991905009062 phosphorylation site [posttranslational modification] 991905009063 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 991905009064 ATP binding site [chemical binding]; other site 991905009065 Mg2+ binding site [ion binding]; other site 991905009066 G-X-G motif; other site 991905009067 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 991905009068 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 991905009069 metal binding triad; other site 991905009070 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 991905009071 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 991905009072 metal binding triad; other site 991905009073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905009074 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 991905009075 dimerization interface [polypeptide binding]; other site 991905009076 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 991905009077 dimer interface [polypeptide binding]; other site 991905009078 phosphorylation site [posttranslational modification] 991905009079 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 991905009080 ATP binding site [chemical binding]; other site 991905009081 Mg2+ binding site [ion binding]; other site 991905009082 G-X-G motif; other site 991905009083 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905009084 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 991905009085 active site 991905009086 phosphorylation site [posttranslational modification] 991905009087 intermolecular recognition site; other site 991905009088 dimerization interface [polypeptide binding]; other site 991905009089 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 991905009090 DNA binding site [nucleotide binding] 991905009091 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 991905009092 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 991905009093 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 991905009094 protein binding site [polypeptide binding]; other site 991905009095 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 991905009096 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 991905009097 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 991905009098 gating phenylalanine in ion channel; other site 991905009099 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905009100 Acyl transferase domain; Region: Acyl_transf_1; cl08282 991905009101 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 991905009102 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 991905009103 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 991905009104 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 991905009105 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 991905009106 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 991905009107 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905009108 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 991905009109 ATP binding site [chemical binding]; other site 991905009110 Mg2+ binding site [ion binding]; other site 991905009111 G-X-G motif; other site 991905009112 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905009113 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 991905009114 active site 991905009115 phosphorylation site [posttranslational modification] 991905009116 intermolecular recognition site; other site 991905009117 dimerization interface [polypeptide binding]; other site 991905009118 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 991905009119 DNA binding site [nucleotide binding] 991905009120 Predicted membrane protein [Function unknown]; Region: COG3212 991905009121 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 991905009122 catalytic residue [active] 991905009123 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 991905009124 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905009125 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 991905009126 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 991905009127 Putative phage tail protein; Region: Phage-tail_3; pfam13550 991905009128 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 991905009129 NlpC/P60 family; Region: NLPC_P60; cl17555 991905009130 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 991905009131 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 991905009132 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 991905009133 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 991905009134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 991905009135 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 991905009136 Phage major tail protein 2; Region: Phage_tail_2; cl11463 991905009137 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 991905009138 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 991905009139 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 991905009140 oligomerization interface [polypeptide binding]; other site 991905009141 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 991905009142 Phage capsid family; Region: Phage_capsid; pfam05065 991905009143 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 991905009144 Phage-related protein [Function unknown]; Region: COG4695 991905009145 Phage portal protein; Region: Phage_portal; pfam04860 991905009146 Uncharacterized conserved protein [Function unknown]; Region: COG5323 991905009147 Terminase-like family; Region: Terminase_6; pfam03237 991905009148 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 991905009149 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 991905009150 active site 991905009151 FMN binding site [chemical binding]; other site 991905009152 substrate binding site [chemical binding]; other site 991905009153 3Fe-4S cluster binding site [ion binding]; other site 991905009154 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 991905009155 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 991905009156 Zn binding site [ion binding]; other site 991905009157 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 991905009158 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 991905009159 Zn binding site [ion binding]; other site 991905009160 Predicted esterase [General function prediction only]; Region: COG0400 991905009161 hypothetical protein; Provisional; Region: PRK05170 991905009162 Transglycosylase; Region: Transgly; pfam00912 991905009163 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 991905009164 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 991905009165 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 991905009166 Predicted integral membrane protein [Function unknown]; Region: COG5436 991905009167 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 991905009168 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 991905009169 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905009170 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905009171 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905009172 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 991905009173 dimer interface [polypeptide binding]; other site 991905009174 phosphorylation site [posttranslational modification] 991905009175 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 991905009176 ATP binding site [chemical binding]; other site 991905009177 Mg2+ binding site [ion binding]; other site 991905009178 G-X-G motif; other site 991905009179 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 991905009180 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 991905009181 DnaA box-binding interface [nucleotide binding]; other site 991905009182 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 991905009183 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 991905009184 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 991905009185 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 991905009186 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 991905009187 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 991905009188 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 991905009189 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 991905009190 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 991905009191 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 991905009192 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 991905009193 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 991905009194 Domain of unknown function DUF20; Region: UPF0118; pfam01594 991905009195 PAS domain S-box; Region: sensory_box; TIGR00229 991905009196 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905009197 putative active site [active] 991905009198 heme pocket [chemical binding]; other site 991905009199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905009200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905009201 metal binding site [ion binding]; metal-binding site 991905009202 active site 991905009203 I-site; other site 991905009204 methionine sulfoxide reductase B; Provisional; Region: PRK00222 991905009205 SelR domain; Region: SelR; pfam01641 991905009206 Predicted transcriptional regulators [Transcription]; Region: COG1733 991905009207 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 991905009208 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 991905009209 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 991905009210 NADP binding site [chemical binding]; other site 991905009211 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 991905009212 Major Facilitator Superfamily; Region: MFS_1; pfam07690 991905009213 putative substrate translocation pore; other site 991905009214 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 991905009215 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 991905009216 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 991905009217 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 991905009218 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 991905009219 ligand binding site [chemical binding]; other site 991905009220 flexible hinge region; other site 991905009221 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 991905009222 putative switch regulator; other site 991905009223 non-specific DNA interactions [nucleotide binding]; other site 991905009224 DNA binding site [nucleotide binding] 991905009225 sequence specific DNA binding site [nucleotide binding]; other site 991905009226 putative cAMP binding site [chemical binding]; other site 991905009227 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 991905009228 Cytochrome C' Region: Cytochrom_C_2; pfam01322 991905009229 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 991905009230 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 991905009231 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 991905009232 Staphylococcal nuclease homologues; Region: SNc; smart00318 991905009233 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 991905009234 Catalytic site; other site 991905009235 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 991905009236 aminotransferase; Provisional; Region: PRK13356 991905009237 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 991905009238 homodimer interface [polypeptide binding]; other site 991905009239 substrate-cofactor binding pocket; other site 991905009240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905009241 catalytic residue [active] 991905009242 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 991905009243 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_10; cd07251 991905009244 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 991905009245 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 991905009246 motif II; other site 991905009247 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 991905009248 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 991905009249 active site 991905009250 substrate binding site [chemical binding]; other site 991905009251 coenzyme B12 binding site [chemical binding]; other site 991905009252 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 991905009253 B12 binding site [chemical binding]; other site 991905009254 cobalt ligand [ion binding]; other site 991905009255 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 991905009256 heterodimer interface [polypeptide binding]; other site 991905009257 substrate interaction site [chemical binding]; other site 991905009258 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 991905009259 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 991905009260 DNA binding residues [nucleotide binding] 991905009261 dimerization interface [polypeptide binding]; other site 991905009262 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 991905009263 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 991905009264 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 991905009265 Walker A motif; other site 991905009266 ATP binding site [chemical binding]; other site 991905009267 hypothetical protein; Validated; Region: PRK09104 991905009268 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 991905009269 metal binding site [ion binding]; metal-binding site 991905009270 putative dimer interface [polypeptide binding]; other site 991905009271 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 991905009272 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 991905009273 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 991905009274 membrane ATPase/protein kinase; Provisional; Region: PRK09435 991905009275 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 991905009276 Walker A; other site 991905009277 Right handed beta helix region; Region: Beta_helix; pfam13229 991905009278 Right handed beta helix region; Region: Beta_helix; pfam13229 991905009279 L-asparaginase II; Region: Asparaginase_II; pfam06089 991905009280 hypothetical protein; Provisional; Region: PRK08912 991905009281 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 991905009282 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905009283 homodimer interface [polypeptide binding]; other site 991905009284 catalytic residue [active] 991905009285 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 991905009286 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 991905009287 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905009288 Coenzyme A binding pocket [chemical binding]; other site 991905009289 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 991905009290 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 991905009291 active site 991905009292 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 991905009293 dimer interface [polypeptide binding]; other site 991905009294 catalytic residues [active] 991905009295 substrate binding site [chemical binding]; other site 991905009296 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 991905009297 Ca2+ binding site [ion binding]; other site 991905009298 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 991905009299 Ca2+ binding site [ion binding]; other site 991905009300 EF hand; Region: EF_hand_3; pfam13202 991905009301 osmolarity response regulator; Provisional; Region: ompR; PRK09468 991905009302 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 991905009303 active site 991905009304 phosphorylation site [posttranslational modification] 991905009305 intermolecular recognition site; other site 991905009306 dimerization interface [polypeptide binding]; other site 991905009307 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 991905009308 DNA binding site [nucleotide binding] 991905009309 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 991905009310 dimer interface [polypeptide binding]; other site 991905009311 phosphorylation site [posttranslational modification] 991905009312 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 991905009313 ATP binding site [chemical binding]; other site 991905009314 Mg2+ binding site [ion binding]; other site 991905009315 G-X-G motif; other site 991905009316 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 991905009317 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 991905009318 non-specific DNA binding site [nucleotide binding]; other site 991905009319 salt bridge; other site 991905009320 sequence-specific DNA binding site [nucleotide binding]; other site 991905009321 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 991905009322 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 991905009323 Sulfate transporter family; Region: Sulfate_transp; pfam00916 991905009324 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 991905009325 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 991905009326 active site 991905009327 EamA-like transporter family; Region: EamA; pfam00892 991905009328 EamA-like transporter family; Region: EamA; pfam00892 991905009329 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 991905009330 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 991905009331 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 991905009332 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 991905009333 ligand binding site [chemical binding]; other site 991905009334 flexible hinge region; other site 991905009335 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 991905009336 putative hydrophobic ligand binding site [chemical binding]; other site 991905009337 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 991905009338 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 991905009339 XdhC Rossmann domain; Region: XdhC_C; pfam13478 991905009340 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 991905009341 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 991905009342 metal ion-dependent adhesion site (MIDAS); other site 991905009343 MoxR-like ATPases [General function prediction only]; Region: COG0714 991905009344 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 991905009345 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 991905009346 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 991905009347 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 991905009348 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 991905009349 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 991905009350 catalytic loop [active] 991905009351 iron binding site [ion binding]; other site 991905009352 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 991905009353 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 991905009354 FAD binding domain; Region: FAD_binding_4; pfam01565 991905009355 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 991905009356 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 991905009357 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 991905009358 LytTr DNA-binding domain; Region: LytTR; smart00850 991905009359 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 991905009360 classical (c) SDRs; Region: SDR_c; cd05233 991905009361 NAD(P) binding site [chemical binding]; other site 991905009362 active site 991905009363 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 991905009364 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 991905009365 active site 991905009366 metal binding site [ion binding]; metal-binding site 991905009367 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 991905009368 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 991905009369 Chain length determinant protein; Region: Wzz; cl15801 991905009370 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 991905009371 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 991905009372 P-loop; other site 991905009373 Magnesium ion binding site [ion binding]; other site 991905009374 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 991905009375 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 991905009376 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 991905009377 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 991905009378 NAD binding site [chemical binding]; other site 991905009379 homodimer interface [polypeptide binding]; other site 991905009380 active site 991905009381 substrate binding site [chemical binding]; other site 991905009382 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 991905009383 putative deacylase active site [active] 991905009384 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 991905009385 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 991905009386 Uncharacterized conserved protein [Function unknown]; Region: COG4121 991905009387 Transposase domain (DUF772); Region: DUF772; pfam05598 991905009388 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 991905009389 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 991905009390 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 991905009391 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905009392 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 991905009393 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 991905009394 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 991905009395 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 991905009396 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 991905009397 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 991905009398 putative ADP-binding pocket [chemical binding]; other site 991905009399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905009400 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 991905009401 NAD(P) binding site [chemical binding]; other site 991905009402 active site 991905009403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 991905009404 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 991905009405 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 991905009406 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 991905009407 CysD dimerization site [polypeptide binding]; other site 991905009408 G1 box; other site 991905009409 putative GEF interaction site [polypeptide binding]; other site 991905009410 GTP/Mg2+ binding site [chemical binding]; other site 991905009411 Switch I region; other site 991905009412 G2 box; other site 991905009413 G3 box; other site 991905009414 Switch II region; other site 991905009415 G4 box; other site 991905009416 G5 box; other site 991905009417 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 991905009418 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 991905009419 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 991905009420 ligand-binding site [chemical binding]; other site 991905009421 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 991905009422 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 991905009423 Active Sites [active] 991905009424 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 991905009425 active site 991905009426 Bacterial sugar transferase; Region: Bac_transf; pfam02397 991905009427 Transcriptional regulator; Region: Rrf2; cl17282 991905009428 Rrf2 family protein; Region: rrf2_super; TIGR00738 991905009429 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 991905009430 heme-binding site [chemical binding]; other site 991905009431 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 991905009432 heme-binding site [chemical binding]; other site 991905009433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905009434 dimer interface [polypeptide binding]; other site 991905009435 putative CheW interface [polypeptide binding]; other site 991905009436 GAF domain; Region: GAF; pfam01590 991905009437 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 991905009438 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905009439 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905009440 metal binding site [ion binding]; metal-binding site 991905009441 active site 991905009442 I-site; other site 991905009443 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 991905009444 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 991905009445 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 991905009446 Zn binding site [ion binding]; other site 991905009447 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 991905009448 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 991905009449 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 991905009450 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 991905009451 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 991905009452 putative active site [active] 991905009453 DinB family; Region: DinB; cl17821 991905009454 DinB superfamily; Region: DinB_2; pfam12867 991905009455 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 991905009456 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 991905009457 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 991905009458 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 991905009459 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 991905009460 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 991905009461 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 991905009462 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 991905009463 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 991905009464 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 991905009465 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 991905009466 S-adenosylmethionine binding site [chemical binding]; other site 991905009467 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 991905009468 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 991905009469 active site 991905009470 uracil binding [chemical binding]; other site 991905009471 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 991905009472 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 991905009473 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 991905009474 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905009475 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905009476 DNA-binding site [nucleotide binding]; DNA binding site 991905009477 FCD domain; Region: FCD; pfam07729 991905009478 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 991905009479 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 991905009480 active site 991905009481 dimer interface [polypeptide binding]; other site 991905009482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 991905009483 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905009484 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 991905009485 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 991905009486 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 991905009487 malonyl-CoA synthase; Validated; Region: PRK07514 991905009488 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 991905009489 acyl-activating enzyme (AAE) consensus motif; other site 991905009490 active site 991905009491 AMP binding site [chemical binding]; other site 991905009492 CoA binding site [chemical binding]; other site 991905009493 HerA helicase [Replication, recombination, and repair]; Region: COG0433 991905009494 AAA ATPase domain; Region: AAA_16; pfam13191 991905009495 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 991905009496 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905009497 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 991905009498 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 991905009499 active site 991905009500 FMN binding site [chemical binding]; other site 991905009501 substrate binding site [chemical binding]; other site 991905009502 homotetramer interface [polypeptide binding]; other site 991905009503 catalytic residue [active] 991905009504 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 991905009505 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 991905009506 G1 box; other site 991905009507 putative GEF interaction site [polypeptide binding]; other site 991905009508 GTP/Mg2+ binding site [chemical binding]; other site 991905009509 Switch I region; other site 991905009510 G2 box; other site 991905009511 G3 box; other site 991905009512 Switch II region; other site 991905009513 G4 box; other site 991905009514 G5 box; other site 991905009515 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 991905009516 Protein of unknown function (DUF2585); Region: DUF2585; cl07906 991905009517 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 991905009518 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 991905009519 P-loop; other site 991905009520 Magnesium ion binding site [ion binding]; other site 991905009521 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 991905009522 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 991905009523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905009524 Walker A/P-loop; other site 991905009525 ATP binding site [chemical binding]; other site 991905009526 Q-loop/lid; other site 991905009527 ABC transporter signature motif; other site 991905009528 Walker B; other site 991905009529 D-loop; other site 991905009530 H-loop/switch region; other site 991905009531 TOBE domain; Region: TOBE_2; pfam08402 991905009532 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 991905009533 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 991905009534 dimer interface [polypeptide binding]; other site 991905009535 conserved gate region; other site 991905009536 putative PBP binding loops; other site 991905009537 ABC-ATPase subunit interface; other site 991905009538 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 991905009539 dimer interface [polypeptide binding]; other site 991905009540 conserved gate region; other site 991905009541 putative PBP binding loops; other site 991905009542 ABC-ATPase subunit interface; other site 991905009543 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 991905009544 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 991905009545 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 991905009546 hydroxyglutarate oxidase; Provisional; Region: PRK11728 991905009547 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 991905009548 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 991905009549 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 991905009550 motif II; other site 991905009551 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 991905009552 Sulfatase; Region: Sulfatase; cl17466 991905009553 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905009554 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 991905009555 dimer interface [polypeptide binding]; other site 991905009556 conserved gate region; other site 991905009557 putative PBP binding loops; other site 991905009558 ABC-ATPase subunit interface; other site 991905009559 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 991905009560 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 991905009561 Walker A/P-loop; other site 991905009562 ATP binding site [chemical binding]; other site 991905009563 Q-loop/lid; other site 991905009564 ABC transporter signature motif; other site 991905009565 Walker B; other site 991905009566 D-loop; other site 991905009567 H-loop/switch region; other site 991905009568 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 991905009569 NMT1/THI5 like; Region: NMT1; pfam09084 991905009570 hypothetical protein; Provisional; Region: PRK07538 991905009571 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 991905009572 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 991905009573 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 991905009574 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 991905009575 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 991905009576 Soluble P-type ATPase [General function prediction only]; Region: COG4087 991905009577 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 991905009578 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 991905009579 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 991905009580 active site 991905009581 metal binding site [ion binding]; metal-binding site 991905009582 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 991905009583 Domain of unknown function (DUF329); Region: DUF329; cl01144 991905009584 Maf-like protein; Region: Maf; pfam02545 991905009585 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 991905009586 active site 991905009587 dimer interface [polypeptide binding]; other site 991905009588 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 991905009589 rRNA binding site [nucleotide binding]; other site 991905009590 predicted 30S ribosome binding site; other site 991905009591 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 991905009592 Low molecular weight phosphatase family; Region: LMWPc; cd00115 991905009593 active site 991905009594 Uncharacterized protein family (UPF0262); Region: UPF0262; pfam06793 991905009595 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 991905009596 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 991905009597 NAD binding site [chemical binding]; other site 991905009598 dimerization interface [polypeptide binding]; other site 991905009599 product binding site; other site 991905009600 substrate binding site [chemical binding]; other site 991905009601 zinc binding site [ion binding]; other site 991905009602 catalytic residues [active] 991905009603 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 991905009604 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 991905009605 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 991905009606 hinge; other site 991905009607 active site 991905009608 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 991905009609 homodimer interface [polypeptide binding]; other site 991905009610 homotetramer interface [polypeptide binding]; other site 991905009611 active site pocket [active] 991905009612 cleavage site 991905009613 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 991905009614 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 991905009615 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 991905009616 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 991905009617 Isochorismatase family; Region: Isochorismatase; pfam00857 991905009618 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 991905009619 catalytic triad [active] 991905009620 conserved cis-peptide bond; other site 991905009621 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 991905009622 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 991905009623 dimer interface [polypeptide binding]; other site 991905009624 conserved gate region; other site 991905009625 putative PBP binding loops; other site 991905009626 ABC-ATPase subunit interface; other site 991905009627 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 991905009628 dimer interface [polypeptide binding]; other site 991905009629 conserved gate region; other site 991905009630 putative PBP binding loops; other site 991905009631 ABC-ATPase subunit interface; other site 991905009632 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 991905009633 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905009634 Walker A/P-loop; other site 991905009635 ATP binding site [chemical binding]; other site 991905009636 Q-loop/lid; other site 991905009637 ABC transporter signature motif; other site 991905009638 Walker B; other site 991905009639 D-loop; other site 991905009640 H-loop/switch region; other site 991905009641 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 991905009642 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 991905009643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905009644 NAD(P) binding site [chemical binding]; other site 991905009645 active site 991905009646 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 991905009647 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 991905009648 inhibitor-cofactor binding pocket; inhibition site 991905009649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905009650 catalytic residue [active] 991905009651 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 991905009652 active site 991905009653 substrate binding site [chemical binding]; other site 991905009654 Phosphotransferase enzyme family; Region: APH; pfam01636 991905009655 ATP binding site [chemical binding]; other site 991905009656 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 991905009657 Transcriptional regulator [Transcription]; Region: IclR; COG1414 991905009658 Bacterial transcriptional regulator; Region: IclR; pfam01614 991905009659 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 991905009660 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 991905009661 PYR/PP interface [polypeptide binding]; other site 991905009662 dimer interface [polypeptide binding]; other site 991905009663 TPP binding site [chemical binding]; other site 991905009664 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 991905009665 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 991905009666 TPP-binding site [chemical binding]; other site 991905009667 dimer interface [polypeptide binding]; other site 991905009668 Cupin domain; Region: Cupin_2; cl17218 991905009669 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 991905009670 classical (c) SDRs; Region: SDR_c; cd05233 991905009671 NAD(P) binding site [chemical binding]; other site 991905009672 active site 991905009673 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905009674 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 991905009675 NAD(P) binding site [chemical binding]; other site 991905009676 catalytic residues [active] 991905009677 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905009678 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905009679 Walker A/P-loop; other site 991905009680 ATP binding site [chemical binding]; other site 991905009681 Q-loop/lid; other site 991905009682 ABC transporter signature motif; other site 991905009683 Walker B; other site 991905009684 D-loop; other site 991905009685 H-loop/switch region; other site 991905009686 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905009687 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905009688 Walker A/P-loop; other site 991905009689 ATP binding site [chemical binding]; other site 991905009690 Q-loop/lid; other site 991905009691 ABC transporter signature motif; other site 991905009692 Walker B; other site 991905009693 D-loop; other site 991905009694 H-loop/switch region; other site 991905009695 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905009696 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905009697 TM-ABC transporter signature motif; other site 991905009698 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905009699 TM-ABC transporter signature motif; other site 991905009700 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905009701 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 991905009702 putative ligand binding site [chemical binding]; other site 991905009703 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 991905009704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905009705 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905009706 Creatinine amidohydrolase; Region: Creatininase; pfam02633 991905009707 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905009708 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905009709 Walker A/P-loop; other site 991905009710 ATP binding site [chemical binding]; other site 991905009711 Q-loop/lid; other site 991905009712 ABC transporter signature motif; other site 991905009713 Walker B; other site 991905009714 D-loop; other site 991905009715 H-loop/switch region; other site 991905009716 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905009717 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905009718 Walker A/P-loop; other site 991905009719 ATP binding site [chemical binding]; other site 991905009720 Q-loop/lid; other site 991905009721 ABC transporter signature motif; other site 991905009722 Walker B; other site 991905009723 D-loop; other site 991905009724 H-loop/switch region; other site 991905009725 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905009726 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905009727 TM-ABC transporter signature motif; other site 991905009728 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905009729 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905009730 TM-ABC transporter signature motif; other site 991905009731 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905009732 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 991905009733 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 991905009734 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 991905009735 putative active site [active] 991905009736 Fe(II) binding site [ion binding]; other site 991905009737 putative dimer interface [polypeptide binding]; other site 991905009738 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 991905009739 dimer interface [polypeptide binding]; other site 991905009740 tetramer interface [polypeptide binding]; other site 991905009741 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 991905009742 Isochorismatase family; Region: Isochorismatase; pfam00857 991905009743 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 991905009744 catalytic triad [active] 991905009745 conserved cis-peptide bond; other site 991905009746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905009747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905009748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905009749 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 991905009750 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 991905009751 putative dimerization interface [polypeptide binding]; other site 991905009752 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 991905009753 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 991905009754 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 991905009755 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 991905009756 substrate binding pocket [chemical binding]; other site 991905009757 membrane-bound complex binding site; other site 991905009758 hinge residues; other site 991905009759 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 991905009760 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 991905009761 substrate binding pocket [chemical binding]; other site 991905009762 membrane-bound complex binding site; other site 991905009763 hinge residues; other site 991905009764 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 991905009765 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 991905009766 substrate binding pocket [chemical binding]; other site 991905009767 membrane-bound complex binding site; other site 991905009768 hinge residues; other site 991905009769 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905009770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905009771 metal binding site [ion binding]; metal-binding site 991905009772 active site 991905009773 I-site; other site 991905009774 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 991905009775 CoA-transferase family III; Region: CoA_transf_3; pfam02515 991905009776 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 991905009777 CoenzymeA binding site [chemical binding]; other site 991905009778 subunit interaction site [polypeptide binding]; other site 991905009779 PHB binding site; other site 991905009780 Transcriptional regulator [Transcription]; Region: IclR; COG1414 991905009781 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 991905009782 dimerization interface [polypeptide binding]; other site 991905009783 putative Zn2+ binding site [ion binding]; other site 991905009784 putative DNA binding site [nucleotide binding]; other site 991905009785 Bacterial transcriptional regulator; Region: IclR; pfam01614 991905009786 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 991905009787 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905009788 acyl-activating enzyme (AAE) consensus motif; other site 991905009789 AMP binding site [chemical binding]; other site 991905009790 active site 991905009791 CoA binding site [chemical binding]; other site 991905009792 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 991905009793 active site 991905009794 catalytic site [active] 991905009795 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 991905009796 active site 2 [active] 991905009797 active site 1 [active] 991905009798 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905009799 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905009800 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905009801 DctM-like transporters; Region: DctM; pfam06808 991905009802 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905009803 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 991905009804 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 991905009805 substrate binding pocket [chemical binding]; other site 991905009806 membrane-bound complex binding site; other site 991905009807 hinge residues; other site 991905009808 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 991905009809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905009810 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 991905009811 dimerization interface [polypeptide binding]; other site 991905009812 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 991905009813 hydroxyglutarate oxidase; Provisional; Region: PRK11728 991905009814 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 991905009815 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 991905009816 catalytic loop [active] 991905009817 iron binding site [ion binding]; other site 991905009818 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 991905009819 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 991905009820 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905009821 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 991905009822 NAD(P) binding site [chemical binding]; other site 991905009823 catalytic residues [active] 991905009824 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 991905009825 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 991905009826 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 991905009827 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 991905009828 dihydrodipicolinate synthase; Region: dapA; TIGR00674 991905009829 dimer interface [polypeptide binding]; other site 991905009830 active site 991905009831 catalytic residue [active] 991905009832 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 991905009833 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 991905009834 dimer interface [polypeptide binding]; other site 991905009835 conserved gate region; other site 991905009836 putative PBP binding loops; other site 991905009837 ABC-ATPase subunit interface; other site 991905009838 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 991905009839 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 991905009840 Walker A/P-loop; other site 991905009841 ATP binding site [chemical binding]; other site 991905009842 Q-loop/lid; other site 991905009843 ABC transporter signature motif; other site 991905009844 Walker B; other site 991905009845 D-loop; other site 991905009846 H-loop/switch region; other site 991905009847 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 991905009848 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 991905009849 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 991905009850 substrate binding site [chemical binding]; other site 991905009851 oxyanion hole (OAH) forming residues; other site 991905009852 trimer interface [polypeptide binding]; other site 991905009853 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 991905009854 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 991905009855 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 991905009856 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 991905009857 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905009858 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905009859 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 991905009860 substrate binding pocket [chemical binding]; other site 991905009861 dimerization interface [polypeptide binding]; other site 991905009862 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 991905009863 Cytochrome P450; Region: p450; cl12078 991905009864 hypothetical protein; Provisional; Region: PRK08266 991905009865 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 991905009866 PYR/PP interface [polypeptide binding]; other site 991905009867 dimer interface [polypeptide binding]; other site 991905009868 TPP binding site [chemical binding]; other site 991905009869 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 991905009870 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 991905009871 TPP-binding site [chemical binding]; other site 991905009872 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 991905009873 classical (c) SDRs; Region: SDR_c; cd05233 991905009874 NAD(P) binding site [chemical binding]; other site 991905009875 active site 991905009876 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 991905009877 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 991905009878 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 991905009879 phosphate binding site [ion binding]; other site 991905009880 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 991905009881 DctM-like transporters; Region: DctM; pfam06808 991905009882 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905009883 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905009884 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905009885 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905009886 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 991905009887 putative hydrophobic ligand binding site [chemical binding]; other site 991905009888 protein interface [polypeptide binding]; other site 991905009889 gate; other site 991905009890 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 991905009891 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905009892 NAD(P) binding site [chemical binding]; other site 991905009893 catalytic residues [active] 991905009894 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 991905009895 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 991905009896 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 991905009897 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 991905009898 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 991905009899 catalytic loop [active] 991905009900 iron binding site [ion binding]; other site 991905009901 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 991905009902 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905009903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905009904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905009905 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 991905009906 putative substrate binding pocket [chemical binding]; other site 991905009907 dimerization interface [polypeptide binding]; other site 991905009908 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905009909 Integrase core domain; Region: rve; pfam00665 991905009910 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 991905009911 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 991905009912 Walker A motif; other site 991905009913 ATP binding site [chemical binding]; other site 991905009914 Walker B motif; other site 991905009915 arginine finger; other site 991905009916 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 991905009917 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 991905009918 Sulfate transporter family; Region: Sulfate_transp; pfam00916 991905009919 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 991905009920 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 991905009921 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 991905009922 shikimate binding site; other site 991905009923 NAD(P) binding site [chemical binding]; other site 991905009924 DctM-like transporters; Region: DctM; pfam06808 991905009925 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905009926 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905009927 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905009928 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905009929 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905009930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905009931 DNA-binding site [nucleotide binding]; DNA binding site 991905009932 FCD domain; Region: FCD; pfam07729 991905009933 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 991905009934 active site 991905009935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905009936 NAD(P) binding site [chemical binding]; other site 991905009937 active site 991905009938 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 991905009939 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 991905009940 active site 991905009941 dimerization interface [polypeptide binding]; other site 991905009942 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 991905009943 Transcriptional regulators [Transcription]; Region: PurR; COG1609 991905009944 DNA binding site [nucleotide binding] 991905009945 domain linker motif; other site 991905009946 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 991905009947 putative dimerization interface [polypeptide binding]; other site 991905009948 putative ligand binding site [chemical binding]; other site 991905009949 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 991905009950 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 991905009951 dimer interface [polypeptide binding]; other site 991905009952 ABC-ATPase subunit interface; other site 991905009953 putative PBP binding loops; other site 991905009954 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 991905009955 dimer interface [polypeptide binding]; other site 991905009956 conserved gate region; other site 991905009957 putative PBP binding loops; other site 991905009958 ABC-ATPase subunit interface; other site 991905009959 hypothetical protein; Provisional; Region: PRK11622 991905009960 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905009961 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 991905009962 Walker A/P-loop; other site 991905009963 ATP binding site [chemical binding]; other site 991905009964 Q-loop/lid; other site 991905009965 ABC transporter signature motif; other site 991905009966 Walker B; other site 991905009967 D-loop; other site 991905009968 H-loop/switch region; other site 991905009969 mannonate dehydratase; Provisional; Region: PRK03906 991905009970 mannonate dehydratase; Region: uxuA; TIGR00695 991905009971 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 991905009972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905009973 DNA-binding site [nucleotide binding]; DNA binding site 991905009974 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 991905009975 beta-D-glucuronidase; Provisional; Region: PRK10150 991905009976 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 991905009977 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 991905009978 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 991905009979 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905009980 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 991905009981 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 991905009982 DctM-like transporters; Region: DctM; pfam06808 991905009983 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905009984 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 991905009985 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 991905009986 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 991905009987 putative active site [active] 991905009988 putative catalytic site [active] 991905009989 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 991905009990 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 991905009991 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 991905009992 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905009993 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905009994 TFIIE_beta_winged_helix domain, located at the central core region of TFIIE beta, with double-stranded DNA binding activity; Region: TFIIE_beta_winged_helix; cl02153 991905009995 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 991905009996 Response regulator receiver domain; Region: Response_reg; pfam00072 991905009997 active site 991905009998 phosphorylation site [posttranslational modification] 991905009999 intermolecular recognition site; other site 991905010000 dimerization interface [polypeptide binding]; other site 991905010001 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 991905010002 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 991905010003 metal-binding site [ion binding] 991905010004 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 991905010005 Soluble P-type ATPase [General function prediction only]; Region: COG4087 991905010006 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 991905010007 FixH; Region: FixH; pfam05751 991905010008 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 991905010009 4Fe-4S binding domain; Region: Fer4_5; pfam12801 991905010010 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 991905010011 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 991905010012 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 991905010013 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 991905010014 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 991905010015 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 991905010016 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 991905010017 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 991905010018 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 991905010019 Low-spin heme binding site [chemical binding]; other site 991905010020 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 991905010021 Putative water exit pathway; other site 991905010022 Binuclear center (active site) [active] 991905010023 Putative proton exit pathway; other site 991905010024 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 991905010025 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 991905010026 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 991905010027 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 991905010028 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 991905010029 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 991905010030 ligand binding site [chemical binding]; other site 991905010031 flexible hinge region; other site 991905010032 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 991905010033 putative switch regulator; other site 991905010034 non-specific DNA interactions [nucleotide binding]; other site 991905010035 DNA binding site [nucleotide binding] 991905010036 sequence specific DNA binding site [nucleotide binding]; other site 991905010037 putative cAMP binding site [chemical binding]; other site 991905010038 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 991905010039 active site 991905010040 phosphorylation site [posttranslational modification] 991905010041 intermolecular recognition site; other site 991905010042 dimerization interface [polypeptide binding]; other site 991905010043 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 991905010044 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 991905010045 active site 991905010046 phosphorylation site [posttranslational modification] 991905010047 intermolecular recognition site; other site 991905010048 dimerization interface [polypeptide binding]; other site 991905010049 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 991905010050 DNA binding residues [nucleotide binding] 991905010051 dimerization interface [polypeptide binding]; other site 991905010052 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 991905010053 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905010054 putative active site [active] 991905010055 heme pocket [chemical binding]; other site 991905010056 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 991905010057 dimer interface [polypeptide binding]; other site 991905010058 phosphorylation site [posttranslational modification] 991905010059 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 991905010060 ATP binding site [chemical binding]; other site 991905010061 Mg2+ binding site [ion binding]; other site 991905010062 G-X-G motif; other site 991905010063 aspartate aminotransferase; Provisional; Region: PRK06108 991905010064 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 991905010065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905010066 homodimer interface [polypeptide binding]; other site 991905010067 catalytic residue [active] 991905010068 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 991905010069 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 991905010070 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 991905010071 Na binding site [ion binding]; other site 991905010072 PAS fold; Region: PAS_7; pfam12860 991905010073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905010074 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 991905010075 dimer interface [polypeptide binding]; other site 991905010076 phosphorylation site [posttranslational modification] 991905010077 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 991905010078 ATP binding site [chemical binding]; other site 991905010079 Mg2+ binding site [ion binding]; other site 991905010080 G-X-G motif; other site 991905010081 Response regulator receiver domain; Region: Response_reg; pfam00072 991905010082 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 991905010083 active site 991905010084 phosphorylation site [posttranslational modification] 991905010085 intermolecular recognition site; other site 991905010086 dimerization interface [polypeptide binding]; other site 991905010087 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 991905010088 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 991905010089 active site 991905010090 phosphorylation site [posttranslational modification] 991905010091 intermolecular recognition site; other site 991905010092 dimerization interface [polypeptide binding]; other site 991905010093 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 991905010094 DNA binding residues [nucleotide binding] 991905010095 dimerization interface [polypeptide binding]; other site 991905010096 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 991905010097 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 991905010098 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 991905010099 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 991905010100 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 991905010101 active site 2 [active] 991905010102 active site 1 [active] 991905010103 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 991905010104 active site 2 [active] 991905010105 Septum formation initiator; Region: DivIC; cl17659 991905010106 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 991905010107 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 991905010108 putative catalytic residue [active] 991905010109 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 991905010110 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 991905010111 active site 991905010112 DNA binding site [nucleotide binding] 991905010113 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 991905010114 DNA binding site [nucleotide binding] 991905010115 DEAD-like helicases superfamily; Region: DEXDc; smart00487 991905010116 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 991905010117 ATP binding site [chemical binding]; other site 991905010118 putative Mg++ binding site [ion binding]; other site 991905010119 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 991905010120 nucleotide binding region [chemical binding]; other site 991905010121 ATP-binding site [chemical binding]; other site 991905010122 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 991905010123 RNA binding site [nucleotide binding]; other site 991905010124 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 991905010125 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 991905010126 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 991905010127 ATP binding site [chemical binding]; other site 991905010128 putative Mg++ binding site [ion binding]; other site 991905010129 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 991905010130 nucleotide binding region [chemical binding]; other site 991905010131 ATP-binding site [chemical binding]; other site 991905010132 DEAD/H associated; Region: DEAD_assoc; pfam08494 991905010133 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 991905010134 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 991905010135 putative active site [active] 991905010136 putative metal binding site [ion binding]; other site 991905010137 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 991905010138 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 991905010139 active site 991905010140 catalytic tetrad [active] 991905010141 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 991905010142 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 991905010143 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 991905010144 Sel1-like repeats; Region: SEL1; smart00671 991905010145 Sel1-like repeats; Region: SEL1; smart00671 991905010146 Sel1-like repeats; Region: SEL1; smart00671 991905010147 Sel1-like repeats; Region: SEL1; smart00671 991905010148 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905010149 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 991905010150 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 991905010151 DNA binding residues [nucleotide binding] 991905010152 putative dimer interface [polypeptide binding]; other site 991905010153 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 991905010154 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 991905010155 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905010156 active site 991905010157 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 991905010158 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905010159 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905010160 active site 991905010161 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 991905010162 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 991905010163 putative C-terminal domain interface [polypeptide binding]; other site 991905010164 putative GSH binding site (G-site) [chemical binding]; other site 991905010165 putative dimer interface [polypeptide binding]; other site 991905010166 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 991905010167 N-terminal domain interface [polypeptide binding]; other site 991905010168 dimer interface [polypeptide binding]; other site 991905010169 substrate binding pocket (H-site) [chemical binding]; other site 991905010170 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 991905010171 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 991905010172 dimer interface [polypeptide binding]; other site 991905010173 active site 991905010174 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 991905010175 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 991905010176 substrate binding site [chemical binding]; other site 991905010177 oxyanion hole (OAH) forming residues; other site 991905010178 trimer interface [polypeptide binding]; other site 991905010179 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 991905010180 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 991905010181 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 991905010182 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 991905010183 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905010184 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 991905010185 homodimer interface [polypeptide binding]; other site 991905010186 catalytic residues [active] 991905010187 NAD binding site [chemical binding]; other site 991905010188 substrate binding pocket [chemical binding]; other site 991905010189 flexible flap; other site 991905010190 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905010191 DctM-like transporters; Region: DctM; pfam06808 991905010192 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 991905010193 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 991905010194 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905010195 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905010196 DNA-binding site [nucleotide binding]; DNA binding site 991905010197 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 991905010198 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 991905010199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905010200 homodimer interface [polypeptide binding]; other site 991905010201 catalytic residue [active] 991905010202 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 991905010203 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 991905010204 SurA N-terminal domain; Region: SurA_N; pfam09312 991905010205 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905010206 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 991905010207 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 991905010208 trimer interface [polypeptide binding]; other site 991905010209 active site 991905010210 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 991905010211 trimer interface [polypeptide binding]; other site 991905010212 active site 991905010213 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 991905010214 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 991905010215 homodimer interface [polypeptide binding]; other site 991905010216 substrate-cofactor binding pocket; other site 991905010217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905010218 catalytic residue [active] 991905010219 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 991905010220 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 991905010221 tellurite resistance protein terB; Region: terB; cd07176 991905010222 putative metal binding site [ion binding]; other site 991905010223 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 991905010224 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 991905010225 active site 991905010226 nucleotide binding site [chemical binding]; other site 991905010227 HIGH motif; other site 991905010228 KMSKS motif; other site 991905010229 Catalytic site; other site 991905010230 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 991905010231 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 991905010232 Predicted transcriptional regulator [Transcription]; Region: COG2932 991905010233 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 991905010234 Catalytic site [active] 991905010235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 991905010236 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 991905010237 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 991905010238 active site 991905010239 catalytic residues [active] 991905010240 FMN binding site [chemical binding]; other site 991905010241 quinone interaction residues [chemical binding]; other site 991905010242 substrate binding site [chemical binding]; other site 991905010243 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 991905010244 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 991905010245 Ion transport protein; Region: Ion_trans; pfam00520 991905010246 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 991905010247 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 991905010248 DXD motif; other site 991905010249 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 991905010250 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 991905010251 substrate binding pocket [chemical binding]; other site 991905010252 membrane-bound complex binding site; other site 991905010253 hinge residues; other site 991905010254 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 991905010255 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 991905010256 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 991905010257 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 991905010258 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905010259 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 991905010260 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 991905010261 dimerization interface [polypeptide binding]; other site 991905010262 domain crossover interface; other site 991905010263 redox-dependent activation switch; other site 991905010264 ornithine carbamoyltransferase; Provisional; Region: PRK00779 991905010265 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 991905010266 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 991905010267 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 991905010268 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 991905010269 inhibitor-cofactor binding pocket; inhibition site 991905010270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905010271 catalytic residue [active] 991905010272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 991905010273 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 991905010274 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 991905010275 active site 991905010276 phosphorylation site [posttranslational modification] 991905010277 intermolecular recognition site; other site 991905010278 dimerization interface [polypeptide binding]; other site 991905010279 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 991905010280 DNA binding site [nucleotide binding] 991905010281 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 991905010282 PhoU domain; Region: PhoU; pfam01895 991905010283 PhoU domain; Region: PhoU; pfam01895 991905010284 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 991905010285 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 991905010286 Walker A/P-loop; other site 991905010287 ATP binding site [chemical binding]; other site 991905010288 Q-loop/lid; other site 991905010289 ABC transporter signature motif; other site 991905010290 Walker B; other site 991905010291 D-loop; other site 991905010292 H-loop/switch region; other site 991905010293 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 991905010294 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 991905010295 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 991905010296 dimer interface [polypeptide binding]; other site 991905010297 conserved gate region; other site 991905010298 putative PBP binding loops; other site 991905010299 ABC-ATPase subunit interface; other site 991905010300 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 991905010301 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 991905010302 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 991905010303 dimer interface [polypeptide binding]; other site 991905010304 conserved gate region; other site 991905010305 putative PBP binding loops; other site 991905010306 ABC-ATPase subunit interface; other site 991905010307 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 991905010308 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 991905010309 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 991905010310 dimer interface [polypeptide binding]; other site 991905010311 phosphorylation site [posttranslational modification] 991905010312 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 991905010313 ATP binding site [chemical binding]; other site 991905010314 Mg2+ binding site [ion binding]; other site 991905010315 G-X-G motif; other site 991905010316 Ligand-binding SRPBCC domain of Micromonospora echinospora CalC and related proteins; Region: SRPBCC_CalC; cd08891 991905010317 putative hydrophobic ligand binding site [chemical binding]; other site 991905010318 CLM binding site; other site 991905010319 L1 loop; other site 991905010320 DNA binding site [nucleotide binding] 991905010321 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 991905010322 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 991905010323 putative acyl-CoA synthetase; Provisional; Region: PRK06018 991905010324 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 991905010325 dimer interface [polypeptide binding]; other site 991905010326 acyl-activating enzyme (AAE) consensus motif; other site 991905010327 putative active site [active] 991905010328 AMP binding site [chemical binding]; other site 991905010329 putative CoA binding site [chemical binding]; other site 991905010330 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 991905010331 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 991905010332 motif II; other site 991905010333 aminotransferase; Provisional; Region: PRK06105 991905010334 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 991905010335 inhibitor-cofactor binding pocket; inhibition site 991905010336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905010337 catalytic residue [active] 991905010338 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 991905010339 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 991905010340 Cl binding site [ion binding]; other site 991905010341 oligomer interface [polypeptide binding]; other site 991905010342 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 991905010343 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 991905010344 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 991905010345 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 991905010346 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 991905010347 HSP70 interaction site [polypeptide binding]; other site 991905010348 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 991905010349 substrate binding site [polypeptide binding]; other site 991905010350 dimer interface [polypeptide binding]; other site 991905010351 enoyl-CoA hydratase; Provisional; Region: PRK06688 991905010352 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 991905010353 substrate binding site [chemical binding]; other site 991905010354 oxyanion hole (OAH) forming residues; other site 991905010355 trimer interface [polypeptide binding]; other site 991905010356 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 991905010357 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905010358 active site 991905010359 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 991905010360 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 991905010361 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 991905010362 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 991905010363 putative active site [active] 991905010364 Zn binding site [ion binding]; other site 991905010365 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 991905010366 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 991905010367 DNA binding residues [nucleotide binding] 991905010368 dimerization interface [polypeptide binding]; other site 991905010369 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 991905010370 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 991905010371 TPP-binding site; other site 991905010372 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 991905010373 PYR/PP interface [polypeptide binding]; other site 991905010374 dimer interface [polypeptide binding]; other site 991905010375 TPP binding site [chemical binding]; other site 991905010376 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 991905010377 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 991905010378 putative substrate translocation pore; other site 991905010379 Protein of unknown function (DUF461); Region: DUF461; pfam04314 991905010380 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 991905010381 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 991905010382 Cu(I) binding site [ion binding]; other site 991905010383 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 991905010384 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 991905010385 RNA binding surface [nucleotide binding]; other site 991905010386 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 991905010387 S-adenosylmethionine binding site [chemical binding]; other site 991905010388 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 991905010389 Methyltransferase domain; Region: Methyltransf_23; pfam13489 991905010390 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 991905010391 S-adenosylmethionine binding site [chemical binding]; other site 991905010392 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 991905010393 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 991905010394 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 991905010395 catalytic triad [active] 991905010396 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 991905010397 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 991905010398 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 991905010399 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 991905010400 dimerization interface [polypeptide binding]; other site 991905010401 active site 991905010402 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 991905010403 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 991905010404 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 991905010405 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 991905010406 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 991905010407 Tetramer interface [polypeptide binding]; other site 991905010408 active site 991905010409 FMN-binding site [chemical binding]; other site 991905010410 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 991905010411 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 991905010412 catalytic core [active] 991905010413 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 991905010414 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 991905010415 NAD binding site [chemical binding]; other site 991905010416 homotetramer interface [polypeptide binding]; other site 991905010417 homodimer interface [polypeptide binding]; other site 991905010418 substrate binding site [chemical binding]; other site 991905010419 active site 991905010420 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 991905010421 FAD binding domain; Region: FAD_binding_4; pfam01565 991905010422 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 991905010423 Tetratricopeptide repeat; Region: TPR_1; pfam00515 991905010424 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 991905010425 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 991905010426 S-adenosylmethionine binding site [chemical binding]; other site 991905010427 Uncharacterized conserved protein [Function unknown]; Region: COG2135 991905010428 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_15; cd04673 991905010429 nudix motif; other site 991905010430 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 991905010431 LysE type translocator; Region: LysE; cl00565 991905010432 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 991905010433 S-adenosylmethionine binding site [chemical binding]; other site 991905010434 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 991905010435 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905010436 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905010437 dihydroorotase; Validated; Region: PRK09060 991905010438 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 991905010439 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 991905010440 active site 991905010441 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 991905010442 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 991905010443 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 991905010444 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 991905010445 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 991905010446 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 991905010447 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 991905010448 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 991905010449 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 991905010450 putative substrate translocation pore; other site 991905010451 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 991905010452 quinolinate synthetase; Provisional; Region: PRK09375 991905010453 L-aspartate oxidase; Provisional; Region: PRK07512 991905010454 L-aspartate oxidase; Provisional; Region: PRK06175 991905010455 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 991905010456 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 991905010457 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 991905010458 dimerization interface [polypeptide binding]; other site 991905010459 active site 991905010460 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 991905010461 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 991905010462 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 991905010463 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 991905010464 dimer interface [polypeptide binding]; other site 991905010465 motif 1; other site 991905010466 active site 991905010467 motif 2; other site 991905010468 motif 3; other site 991905010469 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 991905010470 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 991905010471 tandem repeat interface [polypeptide binding]; other site 991905010472 oligomer interface [polypeptide binding]; other site 991905010473 active site residues [active] 991905010474 PilZ domain; Region: PilZ; pfam07238 991905010475 PilZ domain; Region: PilZ; pfam07238 991905010476 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 991905010477 Fe-S cluster binding site [ion binding]; other site 991905010478 active site 991905010479 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 991905010480 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 991905010481 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 991905010482 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 991905010483 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 991905010484 ATP binding site [chemical binding]; other site 991905010485 Mg++ binding site [ion binding]; other site 991905010486 motif III; other site 991905010487 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 991905010488 nucleotide binding region [chemical binding]; other site 991905010489 ATP-binding site [chemical binding]; other site 991905010490 malic enzyme; Reviewed; Region: PRK12862 991905010491 Malic enzyme, N-terminal domain; Region: malic; pfam00390 991905010492 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 991905010493 putative NAD(P) binding site [chemical binding]; other site 991905010494 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 991905010495 Ceramidase; Region: Ceramidase; pfam05875 991905010496 aminotransferase A; Validated; Region: PRK07683 991905010497 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 991905010498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905010499 homodimer interface [polypeptide binding]; other site 991905010500 catalytic residue [active] 991905010501 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 991905010502 MPT binding site; other site 991905010503 trimer interface [polypeptide binding]; other site 991905010504 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 991905010505 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 991905010506 active site 991905010507 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 991905010508 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 991905010509 FeS/SAM binding site; other site 991905010510 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 991905010511 RNA/DNA hybrid binding site [nucleotide binding]; other site 991905010512 active site 991905010513 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 991905010514 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 991905010515 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 991905010516 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 991905010517 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 991905010518 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 991905010519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 991905010520 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 991905010521 AAA domain; Region: AAA_23; pfam13476 991905010522 Walker A/P-loop; other site 991905010523 ATP binding site [chemical binding]; other site 991905010524 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 991905010525 ABC transporter signature motif; other site 991905010526 Walker B; other site 991905010527 D-loop; other site 991905010528 H-loop/switch region; other site 991905010529 Thioredoxin; Region: Thioredoxin_4; pfam13462 991905010530 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 991905010531 Protein of unknown function (DUF721); Region: DUF721; cl02324 991905010532 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 991905010533 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 991905010534 minor groove reading motif; other site 991905010535 helix-hairpin-helix signature motif; other site 991905010536 substrate binding pocket [chemical binding]; other site 991905010537 active site 991905010538 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 991905010539 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 991905010540 DNA binding and oxoG recognition site [nucleotide binding] 991905010541 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 991905010542 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 991905010543 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 991905010544 heme binding site [chemical binding]; other site 991905010545 ferroxidase pore; other site 991905010546 ferroxidase diiron center [ion binding]; other site 991905010547 AMP nucleosidase; Provisional; Region: PRK08292 991905010548 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 991905010549 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 991905010550 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 991905010551 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 991905010552 DNA methylase; Region: N6_N4_Mtase; pfam01555 991905010553 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 991905010554 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 991905010555 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 991905010556 active site 991905010557 HIGH motif; other site 991905010558 dimer interface [polypeptide binding]; other site 991905010559 KMSKS motif; other site 991905010560 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 991905010561 RNA binding surface [nucleotide binding]; other site 991905010562 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 991905010563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905010564 catalytic residue [active] 991905010565 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 991905010566 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 991905010567 tetramer interface [polypeptide binding]; other site 991905010568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905010569 catalytic residue [active] 991905010570 OsmC-like protein; Region: OsmC; pfam02566 991905010571 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 991905010572 lipoyl attachment site [posttranslational modification]; other site 991905010573 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 991905010574 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 991905010575 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 991905010576 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 991905010577 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 991905010578 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 991905010579 putative active site [active] 991905010580 putative substrate binding site [chemical binding]; other site 991905010581 ATP binding site [chemical binding]; other site 991905010582 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 991905010583 RNA/DNA hybrid binding site [nucleotide binding]; other site 991905010584 active site 991905010585 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 991905010586 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 991905010587 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 991905010588 PAS fold; Region: PAS_3; pfam08447 991905010589 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905010590 putative active site [active] 991905010591 heme pocket [chemical binding]; other site 991905010592 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905010593 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905010594 metal binding site [ion binding]; metal-binding site 991905010595 active site 991905010596 I-site; other site 991905010597 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 991905010598 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 991905010599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 991905010600 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 991905010601 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 991905010602 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 991905010603 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 991905010604 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 991905010605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905010606 catalytic residue [active] 991905010607 hypothetical protein; Validated; Region: PRK00228 991905010608 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 991905010609 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 991905010610 catalytic triad [active] 991905010611 dimer interface [polypeptide binding]; other site 991905010612 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 991905010613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 991905010614 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 991905010615 Subunit III/VIIa interface [polypeptide binding]; other site 991905010616 Phospholipid binding site [chemical binding]; other site 991905010617 Subunit I/III interface [polypeptide binding]; other site 991905010618 Subunit III/VIb interface [polypeptide binding]; other site 991905010619 Subunit III/VIa interface; other site 991905010620 Subunit III/Vb interface [polypeptide binding]; other site 991905010621 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 991905010622 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 991905010623 UbiA prenyltransferase family; Region: UbiA; pfam01040 991905010624 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 991905010625 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 991905010626 Subunit I/III interface [polypeptide binding]; other site 991905010627 D-pathway; other site 991905010628 Subunit I/VIIc interface [polypeptide binding]; other site 991905010629 Subunit I/IV interface [polypeptide binding]; other site 991905010630 Subunit I/II interface [polypeptide binding]; other site 991905010631 Low-spin heme (heme a) binding site [chemical binding]; other site 991905010632 Subunit I/VIIa interface [polypeptide binding]; other site 991905010633 Subunit I/VIa interface [polypeptide binding]; other site 991905010634 Dimer interface; other site 991905010635 Putative water exit pathway; other site 991905010636 Binuclear center (heme a3/CuB) [ion binding]; other site 991905010637 K-pathway; other site 991905010638 Subunit I/Vb interface [polypeptide binding]; other site 991905010639 Putative proton exit pathway; other site 991905010640 Subunit I/VIb interface; other site 991905010641 Subunit I/VIc interface [polypeptide binding]; other site 991905010642 Electron transfer pathway; other site 991905010643 Subunit I/VIIIb interface [polypeptide binding]; other site 991905010644 Subunit I/VIIb interface [polypeptide binding]; other site 991905010645 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 991905010646 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 991905010647 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 991905010648 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 991905010649 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 991905010650 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 991905010651 TrkA-N domain; Region: TrkA_N; pfam02254 991905010652 protease TldD; Provisional; Region: tldD; PRK10735 991905010653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 991905010654 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 991905010655 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905010656 MarR family; Region: MarR_2; pfam12802 991905010657 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 991905010658 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 991905010659 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 991905010660 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 991905010661 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 991905010662 putative acyl-acceptor binding pocket; other site 991905010663 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 991905010664 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 991905010665 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 991905010666 active site 991905010667 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 991905010668 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905010669 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905010670 metal binding site [ion binding]; metal-binding site 991905010671 active site 991905010672 I-site; other site 991905010673 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 991905010674 UbiA prenyltransferase family; Region: UbiA; pfam01040 991905010675 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905010676 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905010677 metal binding site [ion binding]; metal-binding site 991905010678 active site 991905010679 I-site; other site 991905010680 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 991905010681 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905010682 ATP-grasp domain; Region: ATP-grasp_4; cl17255 991905010683 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 991905010684 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905010685 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 991905010686 putative active site [active] 991905010687 putative substrate binding site [chemical binding]; other site 991905010688 ATP binding site [chemical binding]; other site 991905010689 PAS fold; Region: PAS_3; pfam08447 991905010690 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905010691 heme pocket [chemical binding]; other site 991905010692 putative active site [active] 991905010693 PAS domain S-box; Region: sensory_box; TIGR00229 991905010694 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905010695 putative active site [active] 991905010696 heme pocket [chemical binding]; other site 991905010697 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905010698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905010699 metal binding site [ion binding]; metal-binding site 991905010700 active site 991905010701 I-site; other site 991905010702 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 991905010703 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 991905010704 nucleophile elbow; other site 991905010705 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 991905010706 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 991905010707 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 991905010708 nucleoside/Zn binding site; other site 991905010709 dimer interface [polypeptide binding]; other site 991905010710 catalytic motif [active] 991905010711 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 991905010712 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 991905010713 RNA binding surface [nucleotide binding]; other site 991905010714 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 991905010715 active site 991905010716 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 991905010717 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 991905010718 S-adenosylmethionine binding site [chemical binding]; other site 991905010719 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 991905010720 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 991905010721 non-specific DNA binding site [nucleotide binding]; other site 991905010722 salt bridge; other site 991905010723 sequence-specific DNA binding site [nucleotide binding]; other site 991905010724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905010725 Coenzyme A binding pocket [chemical binding]; other site 991905010726 cationic amino acid transport permease; Region: 2A0303; TIGR00906 991905010727 cationic amino acid transport permease; Region: 2A0303; TIGR00906 991905010728 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 991905010729 PAS domain; Region: PAS_9; pfam13426 991905010730 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905010731 putative active site [active] 991905010732 heme pocket [chemical binding]; other site 991905010733 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905010734 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905010735 metal binding site [ion binding]; metal-binding site 991905010736 active site 991905010737 I-site; other site 991905010738 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 991905010739 Porin subfamily; Region: Porin_2; pfam02530 991905010740 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 991905010741 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 991905010742 ATP binding site [chemical binding]; other site 991905010743 Mg2+ binding site [ion binding]; other site 991905010744 G-X-G motif; other site 991905010745 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 991905010746 ATP binding site [chemical binding]; other site 991905010747 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 991905010748 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 991905010749 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 991905010750 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 991905010751 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 991905010752 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 991905010753 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 991905010754 active site 991905010755 phosphorylation site [posttranslational modification] 991905010756 intermolecular recognition site; other site 991905010757 dimerization interface [polypeptide binding]; other site 991905010758 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 991905010759 dimer interaction site [polypeptide binding]; other site 991905010760 substrate-binding tunnel; other site 991905010761 active site 991905010762 catalytic site [active] 991905010763 substrate binding site [chemical binding]; other site 991905010764 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 991905010765 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 991905010766 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 991905010767 active site 991905010768 Riboflavin kinase; Region: Flavokinase; smart00904 991905010769 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 991905010770 dimer interaction site [polypeptide binding]; other site 991905010771 substrate-binding tunnel; other site 991905010772 active site 991905010773 catalytic site [active] 991905010774 substrate binding site [chemical binding]; other site 991905010775 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 991905010776 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 991905010777 active site 991905010778 HIGH motif; other site 991905010779 nucleotide binding site [chemical binding]; other site 991905010780 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 991905010781 active site 991905010782 KMSKS motif; other site 991905010783 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 991905010784 tRNA binding surface [nucleotide binding]; other site 991905010785 anticodon binding site; other site 991905010786 lipoprotein signal peptidase; Provisional; Region: PRK14796 991905010787 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 991905010788 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 991905010789 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 991905010790 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 991905010791 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 991905010792 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 991905010793 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 991905010794 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 991905010795 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 991905010796 active site 991905010797 phosphorylation site [posttranslational modification] 991905010798 intermolecular recognition site; other site 991905010799 dimerization interface [polypeptide binding]; other site 991905010800 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 991905010801 Walker A motif; other site 991905010802 ATP binding site [chemical binding]; other site 991905010803 Walker B motif; other site 991905010804 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 991905010805 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 991905010806 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 991905010807 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 991905010808 oligomerisation interface [polypeptide binding]; other site 991905010809 mobile loop; other site 991905010810 roof hairpin; other site 991905010811 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 991905010812 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 991905010813 ring oligomerisation interface [polypeptide binding]; other site 991905010814 ATP/Mg binding site [chemical binding]; other site 991905010815 stacking interactions; other site 991905010816 hinge regions; other site 991905010817 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 991905010818 NAD(P) binding site [chemical binding]; other site 991905010819 catalytic residues [active] 991905010820 SlyX; Region: SlyX; pfam04102 991905010821 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 991905010822 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 991905010823 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 991905010824 ligand binding site [chemical binding]; other site 991905010825 flexible hinge region; other site 991905010826 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 991905010827 putative switch regulator; other site 991905010828 non-specific DNA interactions [nucleotide binding]; other site 991905010829 DNA binding site [nucleotide binding] 991905010830 sequence specific DNA binding site [nucleotide binding]; other site 991905010831 putative cAMP binding site [chemical binding]; other site 991905010832 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 991905010833 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 991905010834 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 991905010835 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 991905010836 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 991905010837 Ligand binding site; other site 991905010838 Putative Catalytic site; other site 991905010839 DXD motif; other site 991905010840 Predicted membrane protein [Function unknown]; Region: COG2246 991905010841 GtrA-like protein; Region: GtrA; pfam04138 991905010842 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 991905010843 heme-binding site [chemical binding]; other site 991905010844 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 991905010845 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 991905010846 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 991905010847 dimer interface [polypeptide binding]; other site 991905010848 motif 1; other site 991905010849 motif 2; other site 991905010850 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 991905010851 active site 991905010852 motif 3; other site 991905010853 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 991905010854 anticodon binding site; other site 991905010855 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 991905010856 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 991905010857 motif 1; other site 991905010858 dimer interface [polypeptide binding]; other site 991905010859 active site 991905010860 motif 2; other site 991905010861 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 991905010862 active site 991905010863 motif 3; other site 991905010864 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 991905010865 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 991905010866 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 991905010867 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 991905010868 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 991905010869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 991905010870 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 991905010871 Cytochrome c; Region: Cytochrom_C; pfam00034 991905010872 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 991905010873 Cysteine-rich domain; Region: CCG; pfam02754 991905010874 Cysteine-rich domain; Region: CCG; pfam02754 991905010875 Predicted membrane protein [Function unknown]; Region: COG3671 991905010876 FAD binding domain; Region: FAD_binding_4; pfam01565 991905010877 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 991905010878 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 991905010879 FAD binding domain; Region: FAD_binding_4; pfam01565 991905010880 transcriptional activator TtdR; Provisional; Region: PRK09801 991905010881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905010882 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 991905010883 putative effector binding pocket; other site 991905010884 dimerization interface [polypeptide binding]; other site 991905010885 Cytochrome c2 [Energy production and conversion]; Region: COG3474 991905010886 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 991905010887 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 991905010888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905010889 DNA-binding site [nucleotide binding]; DNA binding site 991905010890 FCD domain; Region: FCD; pfam07729 991905010891 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 991905010892 Cysteine-rich domain; Region: CCG; pfam02754 991905010893 Cysteine-rich domain; Region: CCG; pfam02754 991905010894 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 991905010895 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 991905010896 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 991905010897 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 991905010898 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 991905010899 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 991905010900 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 991905010901 catalytic triad [active] 991905010902 EamA-like transporter family; Region: EamA; pfam00892 991905010903 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 991905010904 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905010905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905010906 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 991905010907 dimerization interface [polypeptide binding]; other site 991905010908 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 991905010909 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 991905010910 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 991905010911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 991905010912 multidrug efflux protein; Reviewed; Region: PRK09579 991905010913 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 991905010914 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 991905010915 HlyD family secretion protein; Region: HlyD_3; pfam13437 991905010916 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905010917 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905010918 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 991905010919 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 991905010920 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 991905010921 generic binding surface II; other site 991905010922 generic binding surface I; other site 991905010923 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905010924 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905010925 active site 991905010926 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 991905010927 Fasciclin domain; Region: Fasciclin; pfam02469 991905010928 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905010929 Ligand Binding Site [chemical binding]; other site 991905010930 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905010931 Ligand Binding Site [chemical binding]; other site 991905010932 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 991905010933 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 991905010934 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 991905010935 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 991905010936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905010937 Coenzyme A binding pocket [chemical binding]; other site 991905010938 thiamine pyrophosphate protein; Validated; Region: PRK08199 991905010939 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 991905010940 PYR/PP interface [polypeptide binding]; other site 991905010941 dimer interface [polypeptide binding]; other site 991905010942 TPP binding site [chemical binding]; other site 991905010943 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 991905010944 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 991905010945 TPP-binding site [chemical binding]; other site 991905010946 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 991905010947 BON domain; Region: BON; pfam04972 991905010948 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 991905010949 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 991905010950 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 991905010951 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 991905010952 Predicted kinase [General function prediction only]; Region: COG0645 991905010953 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 991905010954 active site 991905010955 AzlC protein; Region: AzlC; cl00570 991905010956 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 991905010957 Bacterial SH3 domain; Region: SH3_3; pfam08239 991905010958 Phasin protein; Region: Phasin_2; cl11491 991905010959 Phasin protein; Region: Phasin_2; cl11491 991905010960 PAS domain; Region: PAS_8; pfam13188 991905010961 PAS domain S-box; Region: sensory_box; TIGR00229 991905010962 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905010963 putative active site [active] 991905010964 heme pocket [chemical binding]; other site 991905010965 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905010966 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 991905010967 dimer interface [polypeptide binding]; other site 991905010968 phosphorylation site [posttranslational modification] 991905010969 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 991905010970 ATP binding site [chemical binding]; other site 991905010971 Mg2+ binding site [ion binding]; other site 991905010972 G-X-G motif; other site 991905010973 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 991905010974 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 991905010975 tetramer interface [polypeptide binding]; other site 991905010976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905010977 catalytic residue [active] 991905010978 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 991905010979 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 991905010980 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 991905010981 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 991905010982 dimer interface [polypeptide binding]; other site 991905010983 conserved gate region; other site 991905010984 putative PBP binding loops; other site 991905010985 ABC-ATPase subunit interface; other site 991905010986 FtsH Extracellular; Region: FtsH_ext; pfam06480 991905010987 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 991905010988 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 991905010989 Walker A motif; other site 991905010990 ATP binding site [chemical binding]; other site 991905010991 Walker B motif; other site 991905010992 arginine finger; other site 991905010993 Peptidase family M41; Region: Peptidase_M41; pfam01434 991905010994 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 991905010995 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 991905010996 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 991905010997 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 991905010998 dimer interface [polypeptide binding]; other site 991905010999 conserved gate region; other site 991905011000 putative PBP binding loops; other site 991905011001 ABC-ATPase subunit interface; other site 991905011002 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 991905011003 dimer interface [polypeptide binding]; other site 991905011004 conserved gate region; other site 991905011005 putative PBP binding loops; other site 991905011006 ABC-ATPase subunit interface; other site 991905011007 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 991905011008 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 991905011009 Walker A/P-loop; other site 991905011010 ATP binding site [chemical binding]; other site 991905011011 Q-loop/lid; other site 991905011012 ABC transporter signature motif; other site 991905011013 Walker B; other site 991905011014 D-loop; other site 991905011015 H-loop/switch region; other site 991905011016 TOBE domain; Region: TOBE_2; pfam08402 991905011017 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 991905011018 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 991905011019 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 991905011020 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 991905011021 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905011022 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905011023 DNA-binding site [nucleotide binding]; DNA binding site 991905011024 FCD domain; Region: FCD; pfam07729 991905011025 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 991905011026 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 991905011027 putative aminotransferase; Validated; Region: PRK07480 991905011028 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 991905011029 inhibitor-cofactor binding pocket; inhibition site 991905011030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 991905011031 catalytic residue [active] 991905011032 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905011033 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 991905011034 NAD(P) binding site [chemical binding]; other site 991905011035 catalytic residues [active] 991905011036 catalytic residues [active] 991905011037 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 991905011038 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 991905011039 dimer interface [polypeptide binding]; other site 991905011040 ADP-ribose binding site [chemical binding]; other site 991905011041 active site 991905011042 nudix motif; other site 991905011043 metal binding site [ion binding]; metal-binding site 991905011044 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 991905011045 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 991905011046 dimer interface [polypeptide binding]; other site 991905011047 ADP-ribose binding site [chemical binding]; other site 991905011048 active site 991905011049 nudix motif; other site 991905011050 metal binding site [ion binding]; metal-binding site 991905011051 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 991905011052 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 991905011053 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 991905011054 Active Sites [active] 991905011055 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 991905011056 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 991905011057 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 991905011058 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 991905011059 siroheme synthase; Provisional; Region: cysG; PRK10637 991905011060 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 991905011061 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 991905011062 active site 991905011063 SAM binding site [chemical binding]; other site 991905011064 homodimer interface [polypeptide binding]; other site 991905011065 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 991905011066 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 991905011067 active site 991905011068 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 991905011069 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 991905011070 putative metal binding site; other site 991905011071 Response regulator receiver domain; Region: Response_reg; pfam00072 991905011072 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 991905011073 active site 991905011074 phosphorylation site [posttranslational modification] 991905011075 intermolecular recognition site; other site 991905011076 dimerization interface [polypeptide binding]; other site 991905011077 HD domain; Region: HD_5; pfam13487 991905011078 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 991905011079 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 991905011080 BA14K-like protein; Region: BA14K; pfam07886 991905011081 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905011082 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 991905011083 putative ligand binding site [chemical binding]; other site 991905011084 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905011085 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905011086 Walker A/P-loop; other site 991905011087 ATP binding site [chemical binding]; other site 991905011088 Q-loop/lid; other site 991905011089 ABC transporter signature motif; other site 991905011090 Walker B; other site 991905011091 D-loop; other site 991905011092 H-loop/switch region; other site 991905011093 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905011094 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905011095 Walker A/P-loop; other site 991905011096 ATP binding site [chemical binding]; other site 991905011097 Q-loop/lid; other site 991905011098 ABC transporter signature motif; other site 991905011099 Walker B; other site 991905011100 D-loop; other site 991905011101 H-loop/switch region; other site 991905011102 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905011103 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905011104 TM-ABC transporter signature motif; other site 991905011105 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905011106 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905011107 TM-ABC transporter signature motif; other site 991905011108 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 991905011109 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 991905011110 nucleophilic elbow; other site 991905011111 catalytic triad; other site 991905011112 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 991905011113 DNA-binding site [nucleotide binding]; DNA binding site 991905011114 RNA-binding motif; other site 991905011115 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 991905011116 active site 1 [active] 991905011117 active site 2 [active] 991905011118 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 991905011119 active site 2 [active] 991905011120 active site 1 [active] 991905011121 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 991905011122 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 991905011123 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 991905011124 acyl-activating enzyme (AAE) consensus motif; other site 991905011125 acyl-activating enzyme (AAE) consensus motif; other site 991905011126 putative AMP binding site [chemical binding]; other site 991905011127 putative active site [active] 991905011128 putative CoA binding site [chemical binding]; other site 991905011129 enoyl-CoA hydratase; Provisional; Region: PRK05870 991905011130 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 991905011131 substrate binding site [chemical binding]; other site 991905011132 oxyanion hole (OAH) forming residues; other site 991905011133 trimer interface [polypeptide binding]; other site 991905011134 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 991905011135 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905011136 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 991905011137 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 991905011138 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 991905011139 putative active site [active] 991905011140 N-formylglutamate amidohydrolase; Region: FGase; cl01522 991905011141 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 991905011142 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905011143 DctM-like transporters; Region: DctM; pfam06808 991905011144 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905011145 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 991905011146 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 991905011147 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 991905011148 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 991905011149 putative active site [active] 991905011150 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905011151 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 991905011152 NAD(P) binding site [chemical binding]; other site 991905011153 catalytic residues [active] 991905011154 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 991905011155 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 991905011156 putative active site [active] 991905011157 metal binding site [ion binding]; metal-binding site 991905011158 FecR protein; Region: FecR; pfam04773 991905011159 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 991905011160 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 991905011161 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011162 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011163 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011164 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 991905011165 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011166 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011167 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011168 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011169 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011170 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011171 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011172 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011173 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011174 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 991905011175 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 991905011176 dimerization interface [polypeptide binding]; other site 991905011177 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 991905011178 cyclase homology domain; Region: CHD; cd07302 991905011179 nucleotidyl binding site; other site 991905011180 metal binding site [ion binding]; metal-binding site 991905011181 dimer interface [polypeptide binding]; other site 991905011182 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 991905011183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905011184 Walker A/P-loop; other site 991905011185 ATP binding site [chemical binding]; other site 991905011186 Q-loop/lid; other site 991905011187 ABC transporter signature motif; other site 991905011188 Walker B; other site 991905011189 D-loop; other site 991905011190 H-loop/switch region; other site 991905011191 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 991905011192 dimer interface [polypeptide binding]; other site 991905011193 conserved gate region; other site 991905011194 putative PBP binding loops; other site 991905011195 ABC-ATPase subunit interface; other site 991905011196 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 991905011197 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 991905011198 transcriptional regulator BetI; Validated; Region: PRK00767 991905011199 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 991905011200 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 991905011201 choline dehydrogenase; Validated; Region: PRK02106 991905011202 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 991905011203 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 991905011204 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 991905011205 NAD(P) binding site [chemical binding]; other site 991905011206 catalytic residues [active] 991905011207 Predicted flavoproteins [General function prediction only]; Region: COG2081 991905011208 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 991905011209 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 991905011210 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 991905011211 DNA binding site [nucleotide binding] 991905011212 domain linker motif; other site 991905011213 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 991905011214 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 991905011215 putative ligand binding site [chemical binding]; other site 991905011216 Transcriptional regulator; Region: Rrf2; cl17282 991905011217 Predicted transcriptional regulator [Transcription]; Region: COG1959 991905011218 Protein of unknown function, DUF486; Region: DUF486; cl01236 991905011219 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 991905011220 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 991905011221 putative ligand binding site [chemical binding]; other site 991905011222 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905011223 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905011224 TM-ABC transporter signature motif; other site 991905011225 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905011226 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905011227 TM-ABC transporter signature motif; other site 991905011228 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905011229 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905011230 Walker A/P-loop; other site 991905011231 ATP binding site [chemical binding]; other site 991905011232 Q-loop/lid; other site 991905011233 ABC transporter signature motif; other site 991905011234 Walker B; other site 991905011235 D-loop; other site 991905011236 H-loop/switch region; other site 991905011237 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905011238 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905011239 Walker A/P-loop; other site 991905011240 ATP binding site [chemical binding]; other site 991905011241 Q-loop/lid; other site 991905011242 ABC transporter signature motif; other site 991905011243 Walker B; other site 991905011244 D-loop; other site 991905011245 H-loop/switch region; other site 991905011246 Putative cyclase; Region: Cyclase; cl00814 991905011247 PAS fold; Region: PAS_4; pfam08448 991905011248 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905011249 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905011250 metal binding site [ion binding]; metal-binding site 991905011251 active site 991905011252 I-site; other site 991905011253 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 991905011254 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 991905011255 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 991905011256 kynureninase; Region: kynureninase; TIGR01814 991905011257 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905011258 catalytic residue [active] 991905011259 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905011260 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905011261 DNA-binding site [nucleotide binding]; DNA binding site 991905011262 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 991905011263 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 991905011264 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 991905011265 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 991905011266 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905011267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905011268 Transcriptional regulators [Transcription]; Region: GntR; COG1802 991905011269 DNA-binding site [nucleotide binding]; DNA binding site 991905011270 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 991905011271 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 991905011272 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 991905011273 heme-binding site [chemical binding]; other site 991905011274 tyrosine decarboxylase; Region: PLN02880 991905011275 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 991905011276 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905011277 catalytic residue [active] 991905011278 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 991905011279 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 991905011280 5' RNA guide strand anchoring site; other site 991905011281 active site 991905011282 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 991905011283 SIR2-like domain; Region: SIR2_2; pfam13289 991905011284 Fic family protein [Function unknown]; Region: COG3177 991905011285 Fic/DOC family; Region: Fic; pfam02661 991905011286 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 991905011287 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 991905011288 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 991905011289 Helix-turn-helix domain; Region: HTH_36; pfam13730 991905011290 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 991905011291 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 991905011292 P-loop; other site 991905011293 Magnesium ion binding site [ion binding]; other site 991905011294 MobA/MobL family; Region: MobA_MobL; pfam03389 991905011295 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 991905011296 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 991905011297 Walker A motif; other site 991905011298 ATP binding site [chemical binding]; other site 991905011299 Walker B motif; other site 991905011300 FG-GAP repeat; Region: FG-GAP_2; pfam14312 991905011301 FG-GAP repeat; Region: FG-GAP_2; pfam14312 991905011302 FG-GAP repeat; Region: FG-GAP_2; pfam14312 991905011303 FG-GAP repeat; Region: FG-GAP_2; pfam14312 991905011304 FG-GAP repeat; Region: FG-GAP_2; pfam14312 991905011305 multiple promoter invertase; Provisional; Region: mpi; PRK13413 991905011306 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 991905011307 catalytic residues [active] 991905011308 catalytic nucleophile [active] 991905011309 Presynaptic Site I dimer interface [polypeptide binding]; other site 991905011310 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 991905011311 Synaptic Flat tetramer interface [polypeptide binding]; other site 991905011312 Synaptic Site I dimer interface [polypeptide binding]; other site 991905011313 DNA binding site [nucleotide binding] 991905011314 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 991905011315 DNA-binding interface [nucleotide binding]; DNA binding site 991905011316 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 991905011317 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07786 991905011318 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 991905011319 PIN domain; Region: PIN_3; pfam13470 991905011320 DNA binding domain, excisionase family; Region: excise; TIGR01764 991905011321 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 991905011322 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 991905011323 Protein of unknown function, DUF462; Region: DUF462; cl01190 991905011324 Abortive infection C-terminus; Region: Abi_C; pfam14355 991905011325 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 991905011326 Protein of unknown function (DUF499); Region: DUF499; pfam04465 991905011327 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 991905011328 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 991905011329 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 991905011330 TIGR02646 family protein; Region: TIGR02646 991905011331 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 991905011332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905011333 Walker A/P-loop; other site 991905011334 ATP binding site [chemical binding]; other site 991905011335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905011336 Q-loop/lid; other site 991905011337 Walker B; other site 991905011338 D-loop; other site 991905011339 H-loop/switch region; other site 991905011340 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 991905011341 ATP binding site [chemical binding]; other site 991905011342 putative Mg++ binding site [ion binding]; other site 991905011343 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 991905011344 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 991905011345 nucleotide binding region [chemical binding]; other site 991905011346 ATP-binding site [chemical binding]; other site 991905011347 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 991905011348 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 991905011349 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 991905011350 sequence-specific DNA binding site [nucleotide binding]; other site 991905011351 salt bridge; other site 991905011352 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 991905011353 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905011354 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 991905011355 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 991905011356 ATP binding site [chemical binding]; other site 991905011357 Mg2+ binding site [ion binding]; other site 991905011358 G-X-G motif; other site 991905011359 mercuric reductase; Validated; Region: PRK06370 991905011360 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905011361 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 991905011362 Uncharacterized conserved protein [Function unknown]; Region: COG0398 991905011363 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 991905011364 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 991905011365 Ribonuclease P; Region: Ribonuclease_P; pfam00825 991905011366 membrane protein insertase; Provisional; Region: PRK01318 991905011367 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 991905011368 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 991905011369 trimer interface [polypeptide binding]; other site 991905011370 active site 991905011371 substrate binding site [chemical binding]; other site 991905011372 CoA binding site [chemical binding]; other site 991905011373 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 991905011374 G1 box; other site 991905011375 GTP/Mg2+ binding site [chemical binding]; other site 991905011376 Switch I region; other site 991905011377 G2 box; other site 991905011378 G3 box; other site 991905011379 Switch II region; other site 991905011380 G4 box; other site 991905011381 G5 box; other site 991905011382 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 991905011383 feedback inhibition sensing region; other site 991905011384 homohexameric interface [polypeptide binding]; other site 991905011385 nucleotide binding site [chemical binding]; other site 991905011386 N-acetyl-L-glutamate binding site [chemical binding]; other site 991905011387 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 991905011388 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 991905011389 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 991905011390 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905011391 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 991905011392 dimerization interface [polypeptide binding]; other site 991905011393 substrate binding pocket [chemical binding]; other site 991905011394 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 991905011395 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 991905011396 heme-binding site [chemical binding]; other site 991905011397 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905011398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905011399 dimer interface [polypeptide binding]; other site 991905011400 putative CheW interface [polypeptide binding]; other site 991905011401 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 991905011402 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 991905011403 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 991905011404 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 991905011405 trimer interface [polypeptide binding]; other site 991905011406 active site 991905011407 substrate binding site [chemical binding]; other site 991905011408 CoA binding site [chemical binding]; other site 991905011409 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 991905011410 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 991905011411 metal binding site [ion binding]; metal-binding site 991905011412 dimer interface [polypeptide binding]; other site 991905011413 Protein of unknown function (DUF805); Region: DUF805; cl01224 991905011414 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 991905011415 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 991905011416 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 991905011417 dimerization interface 3.5A [polypeptide binding]; other site 991905011418 active site 991905011419 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 991905011420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905011421 Coenzyme A binding pocket [chemical binding]; other site 991905011422 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 991905011423 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 991905011424 putative active site [active] 991905011425 substrate binding site [chemical binding]; other site 991905011426 putative cosubstrate binding site; other site 991905011427 catalytic site [active] 991905011428 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 991905011429 substrate binding site [chemical binding]; other site 991905011430 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 991905011431 active site 991905011432 catalytic residues [active] 991905011433 metal binding site [ion binding]; metal-binding site 991905011434 RmuC family; Region: RmuC; pfam02646 991905011435 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 991905011436 NlpC/P60 family; Region: NLPC_P60; cl17555 991905011437 MarR family; Region: MarR; pfam01047 991905011438 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 991905011439 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 991905011440 interface (dimer of trimers) [polypeptide binding]; other site 991905011441 Substrate-binding/catalytic site; other site 991905011442 Zn-binding sites [ion binding]; other site 991905011443 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 991905011444 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 991905011445 binding surface 991905011446 TPR motif; other site 991905011447 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 991905011448 binding surface 991905011449 TPR motif; other site 991905011450 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 991905011451 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 991905011452 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 991905011453 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 991905011454 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 991905011455 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 991905011456 ATP binding site [chemical binding]; other site 991905011457 Walker A motif; other site 991905011458 hexamer interface [polypeptide binding]; other site 991905011459 Walker B motif; other site 991905011460 AAA domain; Region: AAA_31; pfam13614 991905011461 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 991905011462 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 991905011463 Type IV pili component [Cell motility and secretion]; Region: COG5461 991905011464 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 991905011465 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 991905011466 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 991905011467 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 991905011468 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 991905011469 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 991905011470 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 991905011471 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 991905011472 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 991905011473 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 991905011474 TadE-like protein; Region: TadE; pfam07811 991905011475 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 991905011476 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 991905011477 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 991905011478 dimer interaction site [polypeptide binding]; other site 991905011479 substrate-binding tunnel; other site 991905011480 active site 991905011481 catalytic site [active] 991905011482 substrate binding site [chemical binding]; other site 991905011483 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 991905011484 propionate/acetate kinase; Provisional; Region: PRK12379 991905011485 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 991905011486 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 991905011487 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 991905011488 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 991905011489 motif II; other site 991905011490 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 991905011491 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 991905011492 active site 991905011493 Zn binding site [ion binding]; other site 991905011494 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 991905011495 active site 991905011496 catalytic residues [active] 991905011497 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 991905011498 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 991905011499 active site 991905011500 substrate binding site [chemical binding]; other site 991905011501 metal binding site [ion binding]; metal-binding site 991905011502 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 991905011503 catalytic motif [active] 991905011504 Catalytic residue [active] 991905011505 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 991905011506 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 991905011507 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 991905011508 classical (c) SDRs; Region: SDR_c; cd05233 991905011509 NAD(P) binding site [chemical binding]; other site 991905011510 active site 991905011511 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 991905011512 active site 991905011513 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 991905011514 putative substrate translocation pore; other site 991905011515 adenosine deaminase; Provisional; Region: PRK09358 991905011516 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 991905011517 active site 991905011518 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 991905011519 phosphopentomutase; Provisional; Region: PRK05362 991905011520 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 991905011521 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 991905011522 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 991905011523 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 991905011524 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 991905011525 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 991905011526 intersubunit interface [polypeptide binding]; other site 991905011527 active site 991905011528 catalytic residue [active] 991905011529 purine nucleoside phosphorylase; Provisional; Region: PRK08202 991905011530 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 991905011531 active site 991905011532 catalytic motif [active] 991905011533 Zn binding site [ion binding]; other site 991905011534 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905011535 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905011536 TM-ABC transporter signature motif; other site 991905011537 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905011538 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905011539 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 991905011540 TM-ABC transporter signature motif; other site 991905011541 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 991905011542 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 991905011543 Walker A/P-loop; other site 991905011544 ATP binding site [chemical binding]; other site 991905011545 Q-loop/lid; other site 991905011546 ABC transporter signature motif; other site 991905011547 Walker B; other site 991905011548 D-loop; other site 991905011549 H-loop/switch region; other site 991905011550 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 991905011551 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 991905011552 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 991905011553 ligand binding site [chemical binding]; other site 991905011554 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 991905011555 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 991905011556 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 991905011557 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 991905011558 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 991905011559 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 991905011560 active site 991905011561 dimer interfaces [polypeptide binding]; other site 991905011562 catalytic residues [active] 991905011563 glucokinase; Provisional; Region: glk; PRK00292 991905011564 glucokinase, proteobacterial type; Region: glk; TIGR00749 991905011565 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 991905011566 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 991905011567 ATP binding site [chemical binding]; other site 991905011568 putative Mg++ binding site [ion binding]; other site 991905011569 helicase superfamily c-terminal domain; Region: HELICc; smart00490 991905011570 Helicase associated domain (HA2); Region: HA2; cl04503 991905011571 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 991905011572 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 991905011573 SEC-C motif; Region: SEC-C; pfam02810 991905011574 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 991905011575 Proline dehydrogenase; Region: Pro_dh; pfam01619 991905011576 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 991905011577 Glutamate binding site [chemical binding]; other site 991905011578 NAD binding site [chemical binding]; other site 991905011579 catalytic residues [active] 991905011580 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 991905011581 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 991905011582 putative DNA binding site [nucleotide binding]; other site 991905011583 putative Zn2+ binding site [ion binding]; other site 991905011584 AsnC family; Region: AsnC_trans_reg; pfam01037 991905011585 hypothetical protein; Provisional; Region: PRK11622 991905011586 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 991905011587 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 991905011588 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 991905011589 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 991905011590 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905011591 Walker A/P-loop; other site 991905011592 ATP binding site [chemical binding]; other site 991905011593 Q-loop/lid; other site 991905011594 ABC transporter signature motif; other site 991905011595 Walker B; other site 991905011596 D-loop; other site 991905011597 H-loop/switch region; other site 991905011598 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 991905011599 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 991905011600 heme binding site [chemical binding]; other site 991905011601 ferroxidase pore; other site 991905011602 ferroxidase diiron center [ion binding]; other site 991905011603 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 991905011604 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 991905011605 classical (c) SDRs; Region: SDR_c; cd05233 991905011606 NAD(P) binding site [chemical binding]; other site 991905011607 active site 991905011608 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 991905011609 dimerization interface [polypeptide binding]; other site 991905011610 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905011611 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905011612 dimer interface [polypeptide binding]; other site 991905011613 putative CheW interface [polypeptide binding]; other site 991905011614 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 991905011615 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 991905011616 dimerization interface [polypeptide binding]; other site 991905011617 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905011618 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905011619 dimer interface [polypeptide binding]; other site 991905011620 putative CheW interface [polypeptide binding]; other site 991905011621 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 991905011622 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 991905011623 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 991905011624 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 991905011625 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 991905011626 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 991905011627 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 991905011628 catalytic loop [active] 991905011629 iron binding site [ion binding]; other site 991905011630 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 991905011631 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 991905011632 putative hydrophobic ligand binding site [chemical binding]; other site 991905011633 GAF domain; Region: GAF; pfam01590 991905011634 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 991905011635 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 991905011636 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 991905011637 S-adenosylmethionine binding site [chemical binding]; other site 991905011638 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 991905011639 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 991905011640 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 991905011641 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 991905011642 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 991905011643 putative NAD(P) binding site [chemical binding]; other site 991905011644 CHASE3 domain; Region: CHASE3; pfam05227 991905011645 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905011646 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905011647 dimer interface [polypeptide binding]; other site 991905011648 putative CheW interface [polypeptide binding]; other site 991905011649 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 991905011650 DNA-binding site [nucleotide binding]; DNA binding site 991905011651 RNA-binding motif; other site 991905011652 B12 binding domain; Region: B12-binding; pfam02310 991905011653 B12 binding site [chemical binding]; other site 991905011654 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 991905011655 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 991905011656 FeS/SAM binding site; other site 991905011657 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 991905011658 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905011659 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905011660 dimer interface [polypeptide binding]; other site 991905011661 putative CheW interface [polypeptide binding]; other site 991905011662 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905011663 PAS fold; Region: PAS_3; pfam08447 991905011664 putative active site [active] 991905011665 heme pocket [chemical binding]; other site 991905011666 GTP-binding protein LepA; Provisional; Region: PRK05433 991905011667 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 991905011668 G1 box; other site 991905011669 putative GEF interaction site [polypeptide binding]; other site 991905011670 GTP/Mg2+ binding site [chemical binding]; other site 991905011671 Switch I region; other site 991905011672 G2 box; other site 991905011673 G3 box; other site 991905011674 Switch II region; other site 991905011675 G4 box; other site 991905011676 G5 box; other site 991905011677 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 991905011678 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 991905011679 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 991905011680 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 991905011681 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905011682 Coenzyme A binding pocket [chemical binding]; other site 991905011683 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 991905011684 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 991905011685 active site 991905011686 nucleophile elbow; other site 991905011687 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 991905011688 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 991905011689 oligomer interface [polypeptide binding]; other site 991905011690 active site 991905011691 metal binding site [ion binding]; metal-binding site 991905011692 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 991905011693 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 991905011694 [2Fe-2S] cluster binding site [ion binding]; other site 991905011695 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 991905011696 hydrophobic ligand binding site; other site 991905011697 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 991905011698 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 991905011699 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 991905011700 DctM-like transporters; Region: DctM; pfam06808 991905011701 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 991905011702 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 991905011703 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 991905011704 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 991905011705 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 991905011706 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 991905011707 putative active site [active] 991905011708 putative dimer interface [polypeptide binding]; other site 991905011709 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 991905011710 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 991905011711 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 991905011712 dimer interface [polypeptide binding]; other site 991905011713 motif 1; other site 991905011714 active site 991905011715 motif 2; other site 991905011716 motif 3; other site 991905011717 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 991905011718 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 991905011719 putative tRNA-binding site [nucleotide binding]; other site 991905011720 B3/4 domain; Region: B3_4; pfam03483 991905011721 tRNA synthetase B5 domain; Region: B5; smart00874 991905011722 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 991905011723 dimer interface [polypeptide binding]; other site 991905011724 motif 1; other site 991905011725 motif 3; other site 991905011726 motif 2; other site 991905011727 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 991905011728 Peptidase family M48; Region: Peptidase_M48; cl12018 991905011729 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 991905011730 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 991905011731 dimer interface [polypeptide binding]; other site 991905011732 putative CheW interface [polypeptide binding]; other site 991905011733 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 991905011734 Protein of unknown function DUF45; Region: DUF45; pfam01863 991905011735 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 991905011736 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 991905011737 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 991905011738 ATP binding site [chemical binding]; other site 991905011739 putative Mg++ binding site [ion binding]; other site 991905011740 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 991905011741 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 991905011742 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 991905011743 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 991905011744 HsdM N-terminal domain; Region: HsdM_N; pfam12161 991905011745 Methyltransferase domain; Region: Methyltransf_26; pfam13659 991905011746 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 991905011747 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 991905011748 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 991905011749 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 991905011750 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 991905011751 catalytic residues [active] 991905011752 catalytic nucleophile [active] 991905011753 Presynaptic Site I dimer interface [polypeptide binding]; other site 991905011754 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 991905011755 Synaptic Flat tetramer interface [polypeptide binding]; other site 991905011756 Synaptic Site I dimer interface [polypeptide binding]; other site 991905011757 DNA binding site [nucleotide binding] 991905011758 Recombinase; Region: Recombinase; pfam07508 991905011759 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 991905011760 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 991905011761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 991905011762 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 991905011763 active site 991905011764 metal binding site [ion binding]; metal-binding site 991905011765 interdomain interaction site; other site 991905011766 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 991905011767 ParB-like nuclease domain; Region: ParBc; pfam02195 991905011768 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 991905011769 DNA methylase; Region: N6_N4_Mtase; cl17433 991905011770 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 991905011771 Transposase; Region: DEDD_Tnp_IS110; pfam01548 991905011772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 991905011773 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 991905011774 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 991905011775 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 991905011776 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 991905011777 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 991905011778 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 991905011779 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 991905011780 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 991905011781 metal-binding site [ion binding] 991905011782 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 991905011783 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 991905011784 dimerization interface [polypeptide binding]; other site 991905011785 putative DNA binding site [nucleotide binding]; other site 991905011786 putative Zn2+ binding site [ion binding]; other site 991905011787 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 991905011788 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 991905011789 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 991905011790 catalytic residue [active] 991905011791 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 991905011792 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 991905011793 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 991905011794 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 991905011795 NlpC/P60 family; Region: NLPC_P60; cl17555 991905011796 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 991905011797 Putative phage tail protein; Region: Phage-tail_3; pfam13550 991905011798 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 991905011799 Domain of unknown function (DUF305); Region: DUF305; cl17794 991905011800 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 991905011801 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 991905011802 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 991905011803 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 991905011804 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 991905011805 Predicted metal-binding protein [General function prediction only]; Region: COG3019 991905011806 YHS domain; Region: YHS; pfam04945 991905011807 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 991905011808 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 991905011809 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 991905011810 motif II; other site 991905011811 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 991905011812 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 991905011813 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 991905011814 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 991905011815 Cytochrome c; Region: Cytochrom_C; pfam00034 991905011816 putative transposase OrfB; Reviewed; Region: PHA02517 991905011817 Integrase core domain; Region: rve_3; pfam13683 991905011818 enoyl-CoA hydratase; Provisional; Region: PRK05862 991905011819 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 991905011820 substrate binding site [chemical binding]; other site 991905011821 oxyanion hole (OAH) forming residues; other site 991905011822 trimer interface [polypeptide binding]; other site 991905011823 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905011824 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905011825 active site 991905011826 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 991905011827 MarR family; Region: MarR_2; cl17246 991905011828 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 991905011829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905011830 NAD(P) binding site [chemical binding]; other site 991905011831 active site 991905011832 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 991905011833 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 991905011834 substrate binding site [chemical binding]; other site 991905011835 oxyanion hole (OAH) forming residues; other site 991905011836 trimer interface [polypeptide binding]; other site 991905011837 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905011838 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 991905011839 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905011840 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905011841 TM-ABC transporter signature motif; other site 991905011842 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905011843 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905011844 TM-ABC transporter signature motif; other site 991905011845 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905011846 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905011847 Walker A/P-loop; other site 991905011848 ATP binding site [chemical binding]; other site 991905011849 Q-loop/lid; other site 991905011850 ABC transporter signature motif; other site 991905011851 Walker B; other site 991905011852 D-loop; other site 991905011853 H-loop/switch region; other site 991905011854 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905011855 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905011856 Walker A/P-loop; other site 991905011857 ATP binding site [chemical binding]; other site 991905011858 Q-loop/lid; other site 991905011859 ABC transporter signature motif; other site 991905011860 Walker B; other site 991905011861 D-loop; other site 991905011862 H-loop/switch region; other site 991905011863 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 991905011864 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905011865 active site 991905011866 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 991905011867 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 991905011868 acyl-activating enzyme (AAE) consensus motif; other site 991905011869 putative AMP binding site [chemical binding]; other site 991905011870 putative active site [active] 991905011871 putative CoA binding site [chemical binding]; other site 991905011872 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 991905011873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905011874 NAD(P) binding site [chemical binding]; other site 991905011875 active site 991905011876 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 991905011877 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 991905011878 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 991905011879 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 991905011880 dimer interface [polypeptide binding]; other site 991905011881 conserved gate region; other site 991905011882 putative PBP binding loops; other site 991905011883 ABC-ATPase subunit interface; other site 991905011884 dipeptide transporter; Provisional; Region: PRK10913 991905011885 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 991905011886 dimer interface [polypeptide binding]; other site 991905011887 conserved gate region; other site 991905011888 putative PBP binding loops; other site 991905011889 ABC-ATPase subunit interface; other site 991905011890 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 991905011891 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905011892 Walker A/P-loop; other site 991905011893 ATP binding site [chemical binding]; other site 991905011894 Q-loop/lid; other site 991905011895 ABC transporter signature motif; other site 991905011896 Walker B; other site 991905011897 D-loop; other site 991905011898 H-loop/switch region; other site 991905011899 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905011900 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 991905011901 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905011902 Walker A/P-loop; other site 991905011903 ATP binding site [chemical binding]; other site 991905011904 Q-loop/lid; other site 991905011905 ABC transporter signature motif; other site 991905011906 Walker B; other site 991905011907 D-loop; other site 991905011908 H-loop/switch region; other site 991905011909 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 991905011910 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 991905011911 active site 991905011912 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 991905011913 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 991905011914 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 991905011915 Walker A motif; other site 991905011916 ATP binding site [chemical binding]; other site 991905011917 Walker B motif; other site 991905011918 arginine finger; other site 991905011919 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 991905011920 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 991905011921 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 991905011922 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 991905011923 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 991905011924 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 991905011925 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 991905011926 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 991905011927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 991905011928 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 991905011929 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 991905011930 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 991905011931 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 991905011932 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 991905011933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 991905011934 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 991905011935 Predicted oxidoreductase [General function prediction only]; Region: COG3573 991905011936 Isochorismatase family; Region: Isochorismatase; pfam00857 991905011937 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 991905011938 catalytic triad [active] 991905011939 conserved cis-peptide bond; other site 991905011940 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 991905011941 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 991905011942 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 991905011943 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 991905011944 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 991905011945 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 991905011946 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 991905011947 tetramer interface [polypeptide binding]; other site 991905011948 active site 991905011949 Mg2+/Mn2+ binding site [ion binding]; other site 991905011950 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 991905011951 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 991905011952 substrate binding site [chemical binding]; other site 991905011953 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 991905011954 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 991905011955 substrate binding site [chemical binding]; other site 991905011956 ligand binding site [chemical binding]; other site 991905011957 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905011958 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905011959 Walker A/P-loop; other site 991905011960 ATP binding site [chemical binding]; other site 991905011961 Q-loop/lid; other site 991905011962 ABC transporter signature motif; other site 991905011963 Walker B; other site 991905011964 D-loop; other site 991905011965 H-loop/switch region; other site 991905011966 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905011967 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905011968 Walker A/P-loop; other site 991905011969 ATP binding site [chemical binding]; other site 991905011970 Q-loop/lid; other site 991905011971 ABC transporter signature motif; other site 991905011972 Walker B; other site 991905011973 D-loop; other site 991905011974 H-loop/switch region; other site 991905011975 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905011976 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905011977 TM-ABC transporter signature motif; other site 991905011978 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 991905011979 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905011980 TM-ABC transporter signature motif; other site 991905011981 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905011982 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 991905011983 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 991905011984 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 991905011985 DNA-binding site [nucleotide binding]; DNA binding site 991905011986 UTRA domain; Region: UTRA; pfam07702 991905011987 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 991905011988 active site 1 [active] 991905011989 dimer interface [polypeptide binding]; other site 991905011990 hexamer interface [polypeptide binding]; other site 991905011991 active site 2 [active] 991905011992 SnoaL-like domain; Region: SnoaL_2; pfam12680 991905011993 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 991905011994 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 991905011995 tetrameric interface [polypeptide binding]; other site 991905011996 NAD binding site [chemical binding]; other site 991905011997 catalytic residues [active] 991905011998 substrate binding site [chemical binding]; other site 991905011999 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 991905012000 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 991905012001 dimer interface [polypeptide binding]; other site 991905012002 conserved gate region; other site 991905012003 putative PBP binding loops; other site 991905012004 ABC-ATPase subunit interface; other site 991905012005 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 991905012006 dimer interface [polypeptide binding]; other site 991905012007 conserved gate region; other site 991905012008 putative PBP binding loops; other site 991905012009 ABC-ATPase subunit interface; other site 991905012010 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 991905012011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 991905012012 Walker A/P-loop; other site 991905012013 ATP binding site [chemical binding]; other site 991905012014 Q-loop/lid; other site 991905012015 ABC transporter signature motif; other site 991905012016 Walker B; other site 991905012017 D-loop; other site 991905012018 H-loop/switch region; other site 991905012019 TOBE domain; Region: TOBE_2; pfam08402 991905012020 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 991905012021 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 991905012022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905012023 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905012024 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 991905012025 putative substrate binding pocket [chemical binding]; other site 991905012026 dimerization interface [polypeptide binding]; other site 991905012027 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905012028 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 991905012029 active site 991905012030 phosphorylation site [posttranslational modification] 991905012031 intermolecular recognition site; other site 991905012032 dimerization interface [polypeptide binding]; other site 991905012033 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 991905012034 DNA binding site [nucleotide binding] 991905012035 Helix-turn-helix domain; Region: HTH_28; pfam13518 991905012036 Winged helix-turn helix; Region: HTH_29; pfam13551 991905012037 Homeodomain-like domain; Region: HTH_32; pfam13565 991905012038 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 991905012039 Integrase core domain; Region: rve; pfam00665 991905012040 Integrase core domain; Region: rve_3; pfam13683 991905012041 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 991905012042 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 991905012043 Walker A motif; other site 991905012044 ATP binding site [chemical binding]; other site 991905012045 Walker B motif; other site 991905012046 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 991905012047 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 991905012048 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 991905012049 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 991905012050 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 991905012051 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 991905012052 flagellar motor protein MotA; Validated; Region: PRK09110 991905012053 Flagellar motor switch protein FliM; Region: FliM; pfam02154 991905012054 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 991905012055 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 991905012056 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 991905012057 FliG C-terminal domain; Region: FliG_C; pfam01706 991905012058 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK13109 991905012059 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 991905012060 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 991905012061 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 991905012062 FHIPEP family; Region: FHIPEP; pfam00771 991905012063 Right handed beta helix region; Region: Beta_helix; pfam13229 991905012064 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 991905012065 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 991905012066 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 991905012067 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 991905012068 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 991905012069 Flagellar protein FlbT; Region: FlbT; cl11455 991905012070 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 991905012071 Flagellar protein FlaF; Region: FlaF; pfam07309 991905012072 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 991905012073 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 991905012074 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 991905012075 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 991905012076 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 991905012077 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 991905012078 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 991905012079 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 991905012080 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 991905012081 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 991905012082 N-acetyl-D-glucosamine binding site [chemical binding]; other site 991905012083 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 991905012084 chemotaxis protein; Reviewed; Region: PRK12798 991905012085 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 991905012086 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 991905012087 ligand binding site [chemical binding]; other site 991905012088 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 991905012089 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 991905012090 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 991905012091 flagellin; Reviewed; Region: PRK12687 991905012092 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 991905012093 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 991905012094 FliP family; Region: FliP; cl00593 991905012095 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 991905012096 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 991905012097 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 991905012098 Uncharacterized conserved protein [Function unknown]; Region: COG3334 991905012099 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 991905012100 Flagellar P-ring protein; Region: FlgI; pfam02119 991905012101 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 991905012102 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 991905012103 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12692 991905012104 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 991905012105 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 991905012106 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 991905012107 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 991905012108 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 991905012109 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 991905012110 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 991905012111 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 991905012112 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 991905012113 nucleotide binding site [chemical binding]; other site 991905012114 putative NEF/HSP70 interaction site [polypeptide binding]; other site 991905012115 SBD interface [polypeptide binding]; other site 991905012116 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 991905012117 ACT domain; Region: ACT_6; pfam13740 991905012118 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 991905012119 Uncharacterized conserved protein [Function unknown]; Region: COG2128 991905012120 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 991905012121 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 991905012122 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 991905012123 putative active site [active] 991905012124 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 991905012125 putative active site [active] 991905012126 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 991905012127 Precorrin-8X methylmutase; Region: CbiC; pfam02570 991905012128 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 991905012129 active site 991905012130 putative homodimer interface [polypeptide binding]; other site 991905012131 SAM binding site [chemical binding]; other site 991905012132 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 991905012133 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 991905012134 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 991905012135 active site 991905012136 SAM binding site [chemical binding]; other site 991905012137 homodimer interface [polypeptide binding]; other site 991905012138 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 991905012139 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 991905012140 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 991905012141 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 991905012142 active site 991905012143 SAM binding site [chemical binding]; other site 991905012144 homodimer interface [polypeptide binding]; other site 991905012145 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 991905012146 active site 991905012147 SAM binding site [chemical binding]; other site 991905012148 homodimer interface [polypeptide binding]; other site 991905012149 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 991905012150 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 991905012151 conserved cys residue [active] 991905012152 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 991905012153 homodimer interface [polypeptide binding]; other site 991905012154 active site 991905012155 SAM binding site [chemical binding]; other site 991905012156 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 991905012157 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 991905012158 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 991905012159 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 991905012160 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 991905012161 Chain length determinant protein; Region: Wzz; cl15801 991905012162 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905012163 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 991905012164 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 991905012165 putative active site [active] 991905012166 putative metal binding site [ion binding]; other site 991905012167 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905012168 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 991905012169 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 991905012170 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 991905012171 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 991905012172 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 991905012173 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 991905012174 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 991905012175 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 991905012176 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 991905012177 dimer interface [polypeptide binding]; other site 991905012178 motif 1; other site 991905012179 active site 991905012180 motif 2; other site 991905012181 motif 3; other site 991905012182 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905012183 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905012184 active site 991905012185 acyl carrier protein; Provisional; Region: PRK07081 991905012186 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 991905012187 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 991905012188 RibD C-terminal domain; Region: RibD_C; cl17279 991905012189 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 991905012190 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 991905012191 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 991905012192 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 991905012193 active site 991905012194 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 991905012195 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 991905012196 putative NAD(P) binding site [chemical binding]; other site 991905012197 glucosyltransferase MdoH; Provisional; Region: PRK05454 991905012198 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 991905012199 active site 991905012200 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 991905012201 active site 991905012202 phosphorylation site [posttranslational modification] 991905012203 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 991905012204 30S subunit binding site; other site 991905012205 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 991905012206 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 991905012207 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 991905012208 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 991905012209 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 991905012210 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 991905012211 Walker A/P-loop; other site 991905012212 ATP binding site [chemical binding]; other site 991905012213 Q-loop/lid; other site 991905012214 ABC transporter signature motif; other site 991905012215 Walker B; other site 991905012216 D-loop; other site 991905012217 H-loop/switch region; other site 991905012218 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 991905012219 OstA-like protein; Region: OstA; pfam03968 991905012220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 991905012221 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 991905012222 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 991905012223 catalytic site [active] 991905012224 putative active site [active] 991905012225 putative substrate binding site [chemical binding]; other site 991905012226 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 991905012227 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 991905012228 putative NAD(P) binding site [chemical binding]; other site 991905012229 active site 991905012230 Predicted transcriptional regulator [Transcription]; Region: COG2378 991905012231 HTH domain; Region: HTH_11; pfam08279 991905012232 WYL domain; Region: WYL; pfam13280 991905012233 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 991905012234 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 991905012235 DNA binding residues [nucleotide binding] 991905012236 dimerization interface [polypeptide binding]; other site 991905012237 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 991905012238 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 991905012239 non-specific DNA binding site [nucleotide binding]; other site 991905012240 salt bridge; other site 991905012241 sequence-specific DNA binding site [nucleotide binding]; other site 991905012242 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 991905012243 Domain of unknown function (DUF955); Region: DUF955; pfam06114 991905012244 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 991905012245 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 991905012246 homotrimer interaction site [polypeptide binding]; other site 991905012247 putative active site [active] 991905012248 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 991905012249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 991905012250 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 991905012251 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905012252 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 991905012253 NAD(P) binding site [chemical binding]; other site 991905012254 catalytic residues [active] 991905012255 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 991905012256 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 991905012257 Walker A/P-loop; other site 991905012258 ATP binding site [chemical binding]; other site 991905012259 Q-loop/lid; other site 991905012260 ABC transporter signature motif; other site 991905012261 Walker B; other site 991905012262 D-loop; other site 991905012263 H-loop/switch region; other site 991905012264 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 991905012265 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 991905012266 Walker A/P-loop; other site 991905012267 ATP binding site [chemical binding]; other site 991905012268 Q-loop/lid; other site 991905012269 ABC transporter signature motif; other site 991905012270 Walker B; other site 991905012271 D-loop; other site 991905012272 H-loop/switch region; other site 991905012273 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 991905012274 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 991905012275 TM-ABC transporter signature motif; other site 991905012276 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 991905012277 TM-ABC transporter signature motif; other site 991905012278 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 991905012279 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 991905012280 putative ligand binding site [chemical binding]; other site 991905012281 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 991905012282 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905012283 NAD(P) binding site [chemical binding]; other site 991905012284 catalytic residues [active] 991905012285 Helix-turn-helix domain; Region: HTH_18; pfam12833 991905012286 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 991905012287 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 991905012288 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 991905012289 ligand binding site [chemical binding]; other site 991905012290 flexible hinge region; other site 991905012291 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 991905012292 putative switch regulator; other site 991905012293 non-specific DNA interactions [nucleotide binding]; other site 991905012294 DNA binding site [nucleotide binding] 991905012295 sequence specific DNA binding site [nucleotide binding]; other site 991905012296 putative cAMP binding site [chemical binding]; other site 991905012297 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08913 991905012298 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 991905012299 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 991905012300 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 991905012301 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 991905012302 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 991905012303 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 991905012304 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 991905012305 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 991905012306 Flagellar protein FliS; Region: FliS; cl00654 991905012307 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 991905012308 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 991905012309 flagellin; Provisional; Region: PRK12804 991905012310 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 991905012311 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 991905012312 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 991905012313 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 991905012314 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 991905012315 DNA binding residues [nucleotide binding] 991905012316 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 991905012317 RES domain; Region: RES; cl02411 991905012318 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 991905012319 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 991905012320 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 991905012321 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 991905012322 Phage tail tube protein FII; Region: Phage_tube; cl01390 991905012323 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 991905012324 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 991905012325 Baseplate J-like protein; Region: Baseplate_J; cl01294 991905012326 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 991905012327 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 991905012328 Domain of unknown function (DUF1834); Region: DUF1834; cl02087 991905012329 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 991905012330 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 991905012331 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 991905012332 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 991905012333 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 991905012334 Protein of unknown function (DUF935); Region: DUF935; pfam06074 991905012335 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 991905012336 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 991905012337 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 991905012338 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 991905012339 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 991905012340 catalytic residue [active] 991905012341 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905012342 Mor transcription activator family; Region: Mor; cl02360 991905012343 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 991905012344 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 991905012345 SAM dependent carboxyl methyltransferase; Region: Methyltransf_7; cl04109 991905012346 AAA domain; Region: AAA_22; pfam13401 991905012347 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 991905012348 Integrase core domain; Region: rve; pfam00665 991905012349 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 991905012350 ParB-like nuclease domain; Region: ParBc; pfam02195 991905012351 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 991905012352 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 991905012353 non-specific DNA binding site [nucleotide binding]; other site 991905012354 salt bridge; other site 991905012355 sequence-specific DNA binding site [nucleotide binding]; other site 991905012356 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 991905012357 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 991905012358 Soluble P-type ATPase [General function prediction only]; Region: COG4087 991905012359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 991905012360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905012361 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 991905012362 dimerization interface [polypeptide binding]; other site 991905012363 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 991905012364 metal-binding site [ion binding] 991905012365 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 991905012366 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 991905012367 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 991905012368 motif II; other site 991905012369 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 991905012370 ApbE family; Region: ApbE; pfam02424 991905012371 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 991905012372 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 991905012373 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 991905012374 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 991905012375 FAD binding pocket [chemical binding]; other site 991905012376 FAD binding motif [chemical binding]; other site 991905012377 catalytic residues [active] 991905012378 NAD binding pocket [chemical binding]; other site 991905012379 phosphate binding motif [ion binding]; other site 991905012380 beta-alpha-beta structure motif; other site 991905012381 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 991905012382 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 991905012383 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 991905012384 FAD binding pocket [chemical binding]; other site 991905012385 FAD binding motif [chemical binding]; other site 991905012386 phosphate binding motif [ion binding]; other site 991905012387 beta-alpha-beta structure motif; other site 991905012388 NAD binding pocket [chemical binding]; other site 991905012389 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 991905012390 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905012391 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 991905012392 active site 991905012393 phosphorylation site [posttranslational modification] 991905012394 intermolecular recognition site; other site 991905012395 dimerization interface [polypeptide binding]; other site 991905012396 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 991905012397 DNA binding site [nucleotide binding] 991905012398 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 991905012399 phosphorylation site [posttranslational modification] 991905012400 dimer interface [polypeptide binding]; other site 991905012401 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 991905012402 ATP binding site [chemical binding]; other site 991905012403 Mg2+ binding site [ion binding]; other site 991905012404 G-X-G motif; other site 991905012405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 991905012406 Peptidase M15; Region: Peptidase_M15_3; cl01194 991905012407 Putative phage tail protein; Region: Phage-tail_3; pfam13550 991905012408 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 991905012409 NlpC/P60 family; Region: NLPC_P60; cl17555 991905012410 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 991905012411 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 991905012412 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 991905012413 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 991905012414 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 991905012415 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 991905012416 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 991905012417 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 991905012418 tandem repeat interface [polypeptide binding]; other site 991905012419 oligomer interface [polypeptide binding]; other site 991905012420 active site residues [active] 991905012421 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 991905012422 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 991905012423 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 991905012424 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 991905012425 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 991905012426 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 991905012427 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 991905012428 ParB-like nuclease domain; Region: ParBc; pfam02195 991905012429 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 991905012430 DNA methylase; Region: N6_N4_Mtase; cl17433 991905012431 Toprim domain; Region: Toprim_3; pfam13362 991905012432 AAA domain; Region: AAA_30; pfam13604 991905012433 Family description; Region: UvrD_C_2; pfam13538 991905012434 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 991905012435 AAA domain; Region: AAA_24; pfam13479 991905012436 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 991905012437 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 991905012438 Walker A motif; other site 991905012439 ATP binding site [chemical binding]; other site 991905012440 Walker B motif; other site 991905012441 arginine finger; other site 991905012442 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905012443 Integrase core domain; Region: rve; pfam00665 991905012444 Winged helix-turn helix; Region: HTH_29; pfam13551 991905012445 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 991905012446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 991905012447 Integrase core domain; Region: rve; pfam00665 991905012448 transposase/IS protein; Provisional; Region: PRK09183 991905012449 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 991905012450 Walker A motif; other site 991905012451 ATP binding site [chemical binding]; other site 991905012452 Walker B motif; other site 991905012453 HTH-like domain; Region: HTH_21; pfam13276 991905012454 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 991905012455 Integrase core domain; Region: rve; pfam00665 991905012456 Integrase core domain; Region: rve_3; pfam13683 991905012457 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 991905012458 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 991905012459 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905012460 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 991905012461 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 991905012462 active site 991905012463 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 991905012464 active site 991905012465 metal binding site [ion binding]; metal-binding site 991905012466 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 991905012467 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 991905012468 putative catalytic residue [active] 991905012469 Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA); Region: CHBPH_aldolase; cd00952 991905012470 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 991905012471 putative active site [active] 991905012472 catalytic residue [active] 991905012473 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 991905012474 Cupin domain; Region: Cupin_2; cl17218 991905012475 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 991905012476 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 991905012477 catalytic loop [active] 991905012478 iron binding site [ion binding]; other site 991905012479 Transposase, Mutator family; Region: Transposase_mut; pfam00872 991905012480 MULE transposase domain; Region: MULE; pfam10551 991905012481 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 991905012482 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 991905012483 Transposase [DNA replication, recombination, and repair]; Region: COG5433 991905012484 Transposase [DNA replication, recombination, and repair]; Region: COG5433 991905012485 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 991905012486 active site 991905012487 catalytic residues [active] 991905012488 metal binding site [ion binding]; metal-binding site 991905012489 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 991905012490 CoA-transferase family III; Region: CoA_transf_3; pfam02515 991905012491 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 991905012492 TPP-binding site [chemical binding]; other site 991905012493 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 991905012494 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 991905012495 PYR/PP interface [polypeptide binding]; other site 991905012496 dimer interface [polypeptide binding]; other site 991905012497 TPP binding site [chemical binding]; other site 991905012498 maleylacetoacetate isomerase; Region: maiA; TIGR01262 991905012499 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 991905012500 C-terminal domain interface [polypeptide binding]; other site 991905012501 GSH binding site (G-site) [chemical binding]; other site 991905012502 putative dimer interface [polypeptide binding]; other site 991905012503 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 991905012504 dimer interface [polypeptide binding]; other site 991905012505 N-terminal domain interface [polypeptide binding]; other site 991905012506 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 991905012507 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 991905012508 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 991905012509 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 991905012510 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 991905012511 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 991905012512 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 991905012513 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 991905012514 iron-sulfur cluster [ion binding]; other site 991905012515 [2Fe-2S] cluster binding site [ion binding]; other site 991905012516 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 991905012517 beta subunit interface [polypeptide binding]; other site 991905012518 alpha subunit interface [polypeptide binding]; other site 991905012519 active site 991905012520 substrate binding site [chemical binding]; other site 991905012521 Fe binding site [ion binding]; other site 991905012522 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 991905012523 inter-subunit interface; other site 991905012524 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 991905012525 iron-sulfur cluster [ion binding]; other site 991905012526 [2Fe-2S] cluster binding site [ion binding]; other site 991905012527 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 991905012528 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 991905012529 NAD binding site [chemical binding]; other site 991905012530 active site 991905012531 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 991905012532 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 991905012533 NAD(P) binding site [chemical binding]; other site 991905012534 catalytic residues [active] 991905012535 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 991905012536 Cytochrome P450; Region: p450; cl12078 991905012537 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 991905012538 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 991905012539 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 991905012540 MarR family; Region: MarR; pfam01047 991905012541 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 991905012542 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 991905012543 catalytic loop [active] 991905012544 iron binding site [ion binding]; other site 991905012545 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 991905012546 Cupin domain; Region: Cupin_2; pfam07883 991905012547 Cupin domain; Region: Cupin_2; cl17218 991905012548 Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA); Region: CHBPH_aldolase; cd00952 991905012549 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 991905012550 putative active site [active] 991905012551 catalytic residue [active] 991905012552 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 991905012553 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 991905012554 putative catalytic residue [active] 991905012555 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 991905012556 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 991905012557 active site 991905012558 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 991905012559 active site 991905012560 metal binding site [ion binding]; metal-binding site 991905012561 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 991905012562 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905012563 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 991905012564 glutathionine S-transferase; Provisional; Region: PRK10542 991905012565 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 991905012566 C-terminal domain interface [polypeptide binding]; other site 991905012567 GSH binding site (G-site) [chemical binding]; other site 991905012568 dimer interface [polypeptide binding]; other site 991905012569 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 991905012570 dimer interface [polypeptide binding]; other site 991905012571 N-terminal domain interface [polypeptide binding]; other site 991905012572 substrate binding pocket (H-site) [chemical binding]; other site 991905012573 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 991905012574 Transposase; Region: HTH_Tnp_1; cl17663 991905012575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 991905012576 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 991905012577 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 991905012578 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 991905012579 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 991905012580 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 991905012581 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 991905012582 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 991905012583 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 991905012584 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 991905012585 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 991905012586 cofactor binding site; other site 991905012587 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 991905012588 DNA binding site [nucleotide binding] 991905012589 substrate interaction site [chemical binding]; other site 991905012590 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 991905012591 ParB-like nuclease domain; Region: ParBc; pfam02195 991905012592 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 991905012593 DNA methylase; Region: N6_N4_Mtase; cl17433 991905012594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 991905012595 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 991905012596 active site 991905012597 metal binding site [ion binding]; metal-binding site 991905012598 interdomain interaction site; other site 991905012599 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 991905012600 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 991905012601 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 991905012602 catalytic residues [active] 991905012603 catalytic nucleophile [active] 991905012604 Presynaptic Site I dimer interface [polypeptide binding]; other site 991905012605 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 991905012606 Synaptic Flat tetramer interface [polypeptide binding]; other site 991905012607 Synaptic Site I dimer interface [polypeptide binding]; other site 991905012608 DNA binding site [nucleotide binding] 991905012609 Recombinase; Region: Recombinase; pfam07508 991905012610 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 991905012611 PAS fold; Region: PAS_7; pfam12860 991905012612 PAS fold; Region: PAS_7; pfam12860 991905012613 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 991905012614 putative active site [active] 991905012615 heme pocket [chemical binding]; other site 991905012616 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905012617 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905012618 metal binding site [ion binding]; metal-binding site 991905012619 active site 991905012620 I-site; other site 991905012621 Winged helix-turn helix; Region: HTH_29; pfam13551 991905012622 Helix-turn-helix domain; Region: HTH_28; pfam13518 991905012623 Integrase core domain; Region: rve; pfam00665 991905012624 Integrase core domain; Region: rve_3; pfam13683 991905012625 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 991905012626 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905012627 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 991905012628 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 991905012629 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 991905012630 ABC-ATPase subunit interface; other site 991905012631 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 991905012632 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 991905012633 Walker A/P-loop; other site 991905012634 ATP binding site [chemical binding]; other site 991905012635 Q-loop/lid; other site 991905012636 ABC transporter signature motif; other site 991905012637 Walker B; other site 991905012638 D-loop; other site 991905012639 H-loop/switch region; other site 991905012640 NMT1/THI5 like; Region: NMT1; pfam09084 991905012641 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 991905012642 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 991905012643 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 991905012644 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 991905012645 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 991905012646 putative active site [active] 991905012647 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 991905012648 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 991905012649 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 991905012650 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 991905012651 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 991905012652 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 991905012653 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 991905012654 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 991905012655 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 991905012656 GTPase CgtA; Reviewed; Region: obgE; PRK12299 991905012657 GTP1/OBG; Region: GTP1_OBG; pfam01018 991905012658 Obg GTPase; Region: Obg; cd01898 991905012659 G1 box; other site 991905012660 GTP/Mg2+ binding site [chemical binding]; other site 991905012661 Switch I region; other site 991905012662 G2 box; other site 991905012663 G3 box; other site 991905012664 Switch II region; other site 991905012665 G4 box; other site 991905012666 G5 box; other site 991905012667 gamma-glutamyl kinase; Provisional; Region: PRK05429 991905012668 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 991905012669 nucleotide binding site [chemical binding]; other site 991905012670 homotetrameric interface [polypeptide binding]; other site 991905012671 putative phosphate binding site [ion binding]; other site 991905012672 putative allosteric binding site; other site 991905012673 PUA domain; Region: PUA; pfam01472 991905012674 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 991905012675 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 991905012676 putative catalytic cysteine [active] 991905012677 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 991905012678 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 991905012679 active site 991905012680 (T/H)XGH motif; other site 991905012681 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 991905012682 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 991905012683 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 991905012684 Peptidase family M23; Region: Peptidase_M23; pfam01551 991905012685 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 991905012686 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 991905012687 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 991905012688 protein binding site [polypeptide binding]; other site 991905012689 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 991905012690 Catalytic dyad [active] 991905012691 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 991905012692 NodB motif; other site 991905012693 putative active site [active] 991905012694 putative catalytic site [active] 991905012695 Zn binding site [ion binding]; other site 991905012696 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 991905012697 putative active site [active] 991905012698 Ap4A binding site [chemical binding]; other site 991905012699 nudix motif; other site 991905012700 putative metal binding site [ion binding]; other site 991905012701 short chain dehydrogenase; Provisional; Region: PRK06949 991905012702 classical (c) SDRs; Region: SDR_c; cd05233 991905012703 NAD(P) binding site [chemical binding]; other site 991905012704 active site 991905012705 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905012706 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 991905012707 active site 991905012708 epoxyqueuosine reductase; Region: TIGR00276 991905012709 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 991905012710 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 991905012711 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 991905012712 C-terminal domain interface [polypeptide binding]; other site 991905012713 GSH binding site (G-site) [chemical binding]; other site 991905012714 dimer interface [polypeptide binding]; other site 991905012715 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 991905012716 N-terminal domain interface [polypeptide binding]; other site 991905012717 dimer interface [polypeptide binding]; other site 991905012718 substrate binding pocket (H-site) [chemical binding]; other site 991905012719 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 991905012720 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 991905012721 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 991905012722 maleylacetoacetate isomerase; Region: maiA; TIGR01262 991905012723 C-terminal domain interface [polypeptide binding]; other site 991905012724 GSH binding site (G-site) [chemical binding]; other site 991905012725 putative dimer interface [polypeptide binding]; other site 991905012726 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 991905012727 dimer interface [polypeptide binding]; other site 991905012728 N-terminal domain interface [polypeptide binding]; other site 991905012729 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 991905012730 lytic murein transglycosylase; Region: MltB_2; TIGR02283 991905012731 murein hydrolase B; Provisional; Region: PRK10760; cl17906 991905012732 CHASE domain; Region: CHASE; pfam03924 991905012733 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 991905012734 HWE histidine kinase; Region: HWE_HK; smart00911 991905012735 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 991905012736 dimerization interface [polypeptide binding]; other site 991905012737 metal binding site [ion binding]; metal-binding site 991905012738 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 991905012739 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 991905012740 PYR/PP interface [polypeptide binding]; other site 991905012741 dimer interface [polypeptide binding]; other site 991905012742 TPP binding site [chemical binding]; other site 991905012743 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 991905012744 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 991905012745 TPP-binding site [chemical binding]; other site 991905012746 Sulphur transport; Region: Sulf_transp; pfam04143 991905012747 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 991905012748 OpgC protein; Region: OpgC_C; pfam10129 991905012749 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 991905012750 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 991905012751 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 991905012752 putative dimer interface [polypeptide binding]; other site 991905012753 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 991905012754 EamA-like transporter family; Region: EamA; cl17759 991905012755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 991905012756 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 991905012757 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 991905012758 Walker A/P-loop; other site 991905012759 ATP binding site [chemical binding]; other site 991905012760 Q-loop/lid; other site 991905012761 ABC transporter signature motif; other site 991905012762 Walker B; other site 991905012763 D-loop; other site 991905012764 H-loop/switch region; other site 991905012765 TOBE domain; Region: TOBE_2; pfam08402 991905012766 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 991905012767 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 991905012768 dimer interface [polypeptide binding]; other site 991905012769 conserved gate region; other site 991905012770 putative PBP binding loops; other site 991905012771 ABC-ATPase subunit interface; other site 991905012772 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 991905012773 dimer interface [polypeptide binding]; other site 991905012774 conserved gate region; other site 991905012775 putative PBP binding loops; other site 991905012776 ABC-ATPase subunit interface; other site 991905012777 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 991905012778 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 991905012779 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 991905012780 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 991905012781 TIGR02300 family protein; Region: FYDLN_acid 991905012782 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 991905012783 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 991905012784 hinge; other site 991905012785 active site 991905012786 cytidylate kinase; Provisional; Region: cmk; PRK00023 991905012787 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 991905012788 CMP-binding site; other site 991905012789 The sites determining sugar specificity; other site 991905012790 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 991905012791 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 991905012792 RNA binding site [nucleotide binding]; other site 991905012793 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 991905012794 RNA binding site [nucleotide binding]; other site 991905012795 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 991905012796 RNA binding site [nucleotide binding]; other site 991905012797 S1_RPS1_repeat_ec4: 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_ec4; cd05689 991905012798 RNA binding site [nucleotide binding]; other site 991905012799 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 991905012800 RNA binding site [nucleotide binding]; other site 991905012801 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 991905012802 RNA binding site [nucleotide binding]; other site 991905012803 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 991905012804 substrate binding site [chemical binding]; other site 991905012805 THF binding site; other site 991905012806 zinc-binding site [ion binding]; other site 991905012807 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 991905012808 oligomerization interface [polypeptide binding]; other site 991905012809 active site 991905012810 metal binding site [ion binding]; metal-binding site 991905012811 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 991905012812 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 991905012813 tandem repeat interface [polypeptide binding]; other site 991905012814 oligomer interface [polypeptide binding]; other site 991905012815 active site residues [active] 991905012816 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 991905012817 IHF dimer interface [polypeptide binding]; other site 991905012818 IHF - DNA interface [nucleotide binding]; other site 991905012819 Predicted membrane protein [Function unknown]; Region: COG2860 991905012820 UPF0126 domain; Region: UPF0126; pfam03458 991905012821 UPF0126 domain; Region: UPF0126; pfam03458 991905012822 heat shock protein GrpE; Provisional; Region: PRK14141 991905012823 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 991905012824 dimer interface [polypeptide binding]; other site 991905012825 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 991905012826 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 991905012827 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 991905012828 catalytic residues [active] 991905012829 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 991905012830 Family description; Region: UvrD_C_2; pfam13538 991905012831 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 991905012832 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 991905012833 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 991905012834 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 991905012835 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 991905012836 Substrate binding site; other site 991905012837 metal-binding site 991905012838 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 991905012839 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 991905012840 Phosphotransferase enzyme family; Region: APH; pfam01636 991905012841 PAS fold; Region: PAS_7; pfam12860 991905012842 PAS fold; Region: PAS_7; pfam12860 991905012843 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905012844 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 991905012845 dimer interface [polypeptide binding]; other site 991905012846 phosphorylation site [posttranslational modification] 991905012847 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 991905012848 ATP binding site [chemical binding]; other site 991905012849 Mg2+ binding site [ion binding]; other site 991905012850 G-X-G motif; other site 991905012851 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 991905012852 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 991905012853 homotetramer interface [polypeptide binding]; other site 991905012854 ligand binding site [chemical binding]; other site 991905012855 catalytic site [active] 991905012856 NAD binding site [chemical binding]; other site 991905012857 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 991905012858 regulatory protein interface [polypeptide binding]; other site 991905012859 active site 991905012860 regulatory phosphorylation site [posttranslational modification]; other site 991905012861 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 991905012862 active pocket/dimerization site; other site 991905012863 active site 991905012864 phosphorylation site [posttranslational modification] 991905012865 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 991905012866 Hpr binding site; other site 991905012867 active site 991905012868 homohexamer subunit interaction site [polypeptide binding]; other site 991905012869 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 991905012870 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 991905012871 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 991905012872 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 991905012873 dimer interface [polypeptide binding]; other site 991905012874 phosphorylation site [posttranslational modification] 991905012875 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 991905012876 ATP binding site [chemical binding]; other site 991905012877 Mg2+ binding site [ion binding]; other site 991905012878 G-X-G motif; other site 991905012879 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 991905012880 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 991905012881 active site 991905012882 phosphorylation site [posttranslational modification] 991905012883 intermolecular recognition site; other site 991905012884 dimerization interface [polypeptide binding]; other site 991905012885 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 991905012886 DNA binding site [nucleotide binding] 991905012887 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 991905012888 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 991905012889 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 991905012890 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 991905012891 active site 991905012892 substrate-binding site [chemical binding]; other site 991905012893 metal-binding site [ion binding] 991905012894 ATP binding site [chemical binding]; other site 991905012895 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 991905012896 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 991905012897 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 991905012898 XdhC Rossmann domain; Region: XdhC_C; pfam13478 991905012899 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 991905012900 putative MPT binding site; other site 991905012901 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 991905012902 metal-binding site 991905012903 GcrA cell cycle regulator; Region: GcrA; cl11564 991905012904 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK14736 991905012905 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 991905012906 gamma subunit interface [polypeptide binding]; other site 991905012907 epsilon subunit interface [polypeptide binding]; other site 991905012908 LBP interface [polypeptide binding]; other site 991905012909 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 991905012910 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 991905012911 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 991905012912 alpha subunit interaction interface [polypeptide binding]; other site 991905012913 Walker A motif; other site 991905012914 ATP binding site [chemical binding]; other site 991905012915 Walker B motif; other site 991905012916 inhibitor binding site; inhibition site 991905012917 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 991905012918 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 991905012919 core domain interface [polypeptide binding]; other site 991905012920 delta subunit interface [polypeptide binding]; other site 991905012921 epsilon subunit interface [polypeptide binding]; other site 991905012922 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 991905012923 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 991905012924 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 991905012925 beta subunit interaction interface [polypeptide binding]; other site 991905012926 Walker A motif; other site 991905012927 ATP binding site [chemical binding]; other site 991905012928 Walker B motif; other site 991905012929 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 991905012930 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 991905012931 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 991905012932 primosome assembly protein PriA; Validated; Region: PRK05580 991905012933 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 991905012934 ATP binding site [chemical binding]; other site 991905012935 putative Mg++ binding site [ion binding]; other site 991905012936 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 991905012937 active site 991905012938 intersubunit interactions; other site 991905012939 catalytic residue [active] 991905012940 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 991905012941 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 991905012942 active site 991905012943 DNA binding site [nucleotide binding] 991905012944 Int/Topo IB signature motif; other site 991905012945 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 991905012946 DNA-binding site [nucleotide binding]; DNA binding site 991905012947 RNA-binding motif; other site 991905012948 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 991905012949 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 991905012950 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 991905012951 DNA binding residues [nucleotide binding] 991905012952 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 991905012953 dimer interface [polypeptide binding]; other site 991905012954 putative metal binding site [ion binding]; other site 991905012955 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 991905012956 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 991905012957 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 991905012958 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 991905012959 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 991905012960 E3 interaction surface; other site 991905012961 lipoyl attachment site [posttranslational modification]; other site 991905012962 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 991905012963 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 991905012964 E3 interaction surface; other site 991905012965 lipoyl attachment site [posttranslational modification]; other site 991905012966 e3 binding domain; Region: E3_binding; pfam02817 991905012967 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 991905012968 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 991905012969 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 991905012970 TPP-binding site [chemical binding]; other site 991905012971 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 991905012972 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 991905012973 CoA binding domain; Region: CoA_binding; smart00881 991905012974 CoA-ligase; Region: Ligase_CoA; pfam00549 991905012975 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 991905012976 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 991905012977 CoA-ligase; Region: Ligase_CoA; pfam00549 991905012978 malate dehydrogenase; Reviewed; Region: PRK06223 991905012979 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 991905012980 NAD(P) binding site [chemical binding]; other site 991905012981 dimer interface [polypeptide binding]; other site 991905012982 tetramer (dimer of dimers) interface [polypeptide binding]; other site 991905012983 substrate binding site [chemical binding]; other site 991905012984 Predicted ATPase [General function prediction only]; Region: COG1485 991905012985 Protease inhibitor Inh; Region: Inh; pfam02974 991905012986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905012987 Coenzyme A binding pocket [chemical binding]; other site 991905012988 Low molecular weight phosphatase family; Region: LMWPc; cl00105 991905012989 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 991905012990 active site 991905012991 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 991905012992 active site residue [active] 991905012993 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 991905012994 MAPEG family; Region: MAPEG; cl09190 991905012995 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 991905012996 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 991905012997 putative acyl-acceptor binding pocket; other site 991905012998 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 991905012999 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 991905013000 ATP binding site [chemical binding]; other site 991905013001 putative Mg++ binding site [ion binding]; other site 991905013002 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 991905013003 nucleotide binding region [chemical binding]; other site 991905013004 ATP-binding site [chemical binding]; other site 991905013005 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 991905013006 HRDC domain; Region: HRDC; pfam00570 991905013007 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 991905013008 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 991905013009 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 991905013010 active site 991905013011 HIGH motif; other site 991905013012 dimer interface [polypeptide binding]; other site 991905013013 KMSKS motif; other site 991905013014 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 991905013015 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 991905013016 PII uridylyl-transferase; Provisional; Region: PRK05092 991905013017 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 991905013018 metal binding triad; other site 991905013019 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 991905013020 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 991905013021 Zn2+ binding site [ion binding]; other site 991905013022 Mg2+ binding site [ion binding]; other site 991905013023 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 991905013024 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 991905013025 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 991905013026 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 991905013027 non-specific DNA binding site [nucleotide binding]; other site 991905013028 salt bridge; other site 991905013029 sequence-specific DNA binding site [nucleotide binding]; other site 991905013030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 991905013031 Smr domain; Region: Smr; pfam01713 991905013032 MltA specific insert domain; Region: MltA; smart00925 991905013033 3D domain; Region: 3D; pfam06725 991905013034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 991905013035 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 991905013036 Predicted membrane protein [Function unknown]; Region: COG4763 991905013037 Acyltransferase family; Region: Acyl_transf_3; pfam01757 991905013038 Predicted membrane protein [Function unknown]; Region: COG4763 991905013039 DNA polymerase I; Region: pola; TIGR00593 991905013040 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 991905013041 active site 991905013042 metal binding site 1 [ion binding]; metal-binding site 991905013043 putative 5' ssDNA interaction site; other site 991905013044 metal binding site 3; metal-binding site 991905013045 metal binding site 2 [ion binding]; metal-binding site 991905013046 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 991905013047 putative DNA binding site [nucleotide binding]; other site 991905013048 putative metal binding site [ion binding]; other site 991905013049 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 991905013050 active site 991905013051 catalytic site [active] 991905013052 substrate binding site [chemical binding]; other site 991905013053 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 991905013054 active site 991905013055 DNA binding site [nucleotide binding] 991905013056 catalytic site [active] 991905013057 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 991905013058 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 991905013059 high affinity sulphate transporter 1; Region: sulP; TIGR00815 991905013060 Sulfate transporter family; Region: Sulfate_transp; pfam00916 991905013061 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 991905013062 Putative phosphatase (DUF442); Region: DUF442; cl17385 991905013063 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 991905013064 Predicted transporter component [General function prediction only]; Region: COG2391 991905013065 Sulphur transport; Region: Sulf_transp; pfam04143 991905013066 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 991905013067 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 991905013068 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 991905013069 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 991905013070 active site 991905013071 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 991905013072 LssY C-terminus; Region: LssY_C; pfam14067 991905013073 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 991905013074 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 991905013075 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 991905013076 Methyltransferase domain; Region: Methyltransf_24; pfam13578 991905013077 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 991905013078 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 991905013079 lipid kinase; Reviewed; Region: PRK13054 991905013080 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 991905013081 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 991905013082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 991905013083 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 991905013084 dimerization interface [polypeptide binding]; other site 991905013085 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 991905013086 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 991905013087 FAD binding site [chemical binding]; other site 991905013088 substrate binding pocket [chemical binding]; other site 991905013089 catalytic base [active] 991905013090 N-formylglutamate amidohydrolase; Region: FGase; cl01522 991905013091 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 991905013092 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 991905013093 catalytic residue [active] 991905013094 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 991905013095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 991905013096 NAD(P) binding site [chemical binding]; other site 991905013097 active site 991905013098 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 991905013099 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 991905013100 substrate binding site; other site 991905013101 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 991905013102 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 991905013103 active site 991905013104 Cephalosporin hydroxylase; Region: CmcI; pfam04989 991905013105 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 991905013106 extended (e) SDRs; Region: SDR_e; cd08946 991905013107 NAD(P) binding site [chemical binding]; other site 991905013108 substrate binding site [chemical binding]; other site 991905013109 active site 991905013110 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 991905013111 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 991905013112 trimer interface [polypeptide binding]; other site 991905013113 active site 991905013114 substrate binding site [chemical binding]; other site 991905013115 CoA binding site [chemical binding]; other site 991905013116 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 991905013117 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 991905013118 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 991905013119 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 991905013120 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 991905013121 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 991905013122 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 991905013123 putative NADH binding site [chemical binding]; other site 991905013124 putative active site [active] 991905013125 nudix motif; other site 991905013126 putative metal binding site [ion binding]; other site 991905013127 Transglycosylase SLT domain; Region: SLT_2; pfam13406 991905013128 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 991905013129 N-acetyl-D-glucosamine binding site [chemical binding]; other site 991905013130 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 991905013131 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 991905013132 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905013133 Walker A/P-loop; other site 991905013134 ATP binding site [chemical binding]; other site 991905013135 Q-loop/lid; other site 991905013136 ABC transporter signature motif; other site 991905013137 Walker B; other site 991905013138 D-loop; other site 991905013139 H-loop/switch region; other site 991905013140 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 991905013141 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 991905013142 Walker A/P-loop; other site 991905013143 ATP binding site [chemical binding]; other site 991905013144 Q-loop/lid; other site 991905013145 ABC transporter signature motif; other site 991905013146 Walker B; other site 991905013147 D-loop; other site 991905013148 H-loop/switch region; other site 991905013149 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 991905013150 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 991905013151 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 991905013152 dimer interface [polypeptide binding]; other site 991905013153 conserved gate region; other site 991905013154 putative PBP binding loops; other site 991905013155 ABC-ATPase subunit interface; other site 991905013156 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 991905013157 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 991905013158 dimer interface [polypeptide binding]; other site 991905013159 conserved gate region; other site 991905013160 putative PBP binding loops; other site 991905013161 ABC-ATPase subunit interface; other site 991905013162 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 991905013163 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 991905013164 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 991905013165 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 991905013166 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 991905013167 CHASE domain; Region: CHASE; cl01369 991905013168 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 991905013169 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 991905013170 metal binding site [ion binding]; metal-binding site 991905013171 active site 991905013172 I-site; other site 991905013173 Cytochrome c2 [Energy production and conversion]; Region: COG3474 991905013174 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 991905013175 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 991905013176 Ligand binding site; other site 991905013177 oligomer interface; other site 991905013178 prephenate dehydratase; Provisional; Region: PRK11899 991905013179 Prephenate dehydratase; Region: PDT; pfam00800 991905013180 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 991905013181 putative L-Phe binding site [chemical binding]; other site 991905013182 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 991905013183 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 991905013184 substrate binding site [chemical binding]; other site 991905013185 ATP binding site [chemical binding]; other site 991905013186 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 991905013187 catalytic core [active] 991905013188 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 991905013189 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 991905013190 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 991905013191 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 991905013192 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 991905013193 RNase E interface [polypeptide binding]; other site 991905013194 trimer interface [polypeptide binding]; other site 991905013195 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 991905013196 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 991905013197 RNase E interface [polypeptide binding]; other site 991905013198 trimer interface [polypeptide binding]; other site 991905013199 active site 991905013200 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 991905013201 putative nucleic acid binding region [nucleotide binding]; other site 991905013202 G-X-X-G motif; other site 991905013203 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 991905013204 RNA binding site [nucleotide binding]; other site 991905013205 domain interface; other site 991905013206 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 991905013207 16S/18S rRNA binding site [nucleotide binding]; other site 991905013208 S13e-L30e interaction site [polypeptide binding]; other site 991905013209 25S rRNA binding site [nucleotide binding]; other site 991905013210 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 991905013211 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 991905013212 RNA binding site [nucleotide binding]; other site 991905013213 active site 991905013214 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 991905013215 translation initiation factor IF-2; Region: IF-2; TIGR00487 991905013216 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 991905013217 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 991905013218 G1 box; other site 991905013219 putative GEF interaction site [polypeptide binding]; other site 991905013220 GTP/Mg2+ binding site [chemical binding]; other site 991905013221 Switch I region; other site 991905013222 G2 box; other site 991905013223 G3 box; other site 991905013224 Switch II region; other site 991905013225 G4 box; other site 991905013226 G5 box; other site 991905013227 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 991905013228 Translation-initiation factor 2; Region: IF-2; pfam11987 991905013229 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 991905013230 hypothetical protein; Provisional; Region: PRK09190 991905013231 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 991905013232 putative RNA binding cleft [nucleotide binding]; other site 991905013233 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 991905013234 NusA N-terminal domain; Region: NusA_N; pfam08529 991905013235 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 991905013236 RNA binding site [nucleotide binding]; other site 991905013237 homodimer interface [polypeptide binding]; other site 991905013238 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 991905013239 G-X-X-G motif; other site 991905013240 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 991905013241 G-X-X-G motif; other site 991905013242 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 991905013243 Sm and related proteins; Region: Sm_like; cl00259 991905013244 ribosome maturation protein RimP; Reviewed; Region: PRK00092 991905013245 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 991905013246 putative oligomer interface [polypeptide binding]; other site 991905013247 putative RNA binding site [nucleotide binding]; other site 991905013248 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 991905013249 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 991905013250 S-adenosylmethionine synthetase; Validated; Region: PRK05250 991905013251 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 991905013252 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 991905013253 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 991905013254 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 991905013255 sequence-specific DNA binding site [nucleotide binding]; other site 991905013256 salt bridge; other site 991905013257 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 991905013258 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 991905013259 putative active site [active] 991905013260 catalytic triad [active] 991905013261 putative dimer interface [polypeptide binding]; other site 991905013262 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 991905013263 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 991905013264 Transporter associated domain; Region: CorC_HlyC; smart01091 991905013265 metal-binding heat shock protein; Provisional; Region: PRK00016 991905013266 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 991905013267 PhoH-like protein; Region: PhoH; pfam02562 991905013268 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 991905013269 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 991905013270 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 991905013271 FeS/SAM binding site; other site 991905013272 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 991905013273 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 991905013274 putative acyl-acceptor binding pocket; other site 991905013275 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 991905013276 metal binding site 2 [ion binding]; metal-binding site 991905013277 putative DNA binding helix; other site 991905013278 metal binding site 1 [ion binding]; metal-binding site 991905013279 dimer interface [polypeptide binding]; other site 991905013280 structural Zn2+ binding site [ion binding]; other site 991905013281 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 991905013282 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 991905013283 Coenzyme A binding pocket [chemical binding]; other site 991905013284 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 991905013285 Glycoprotease family; Region: Peptidase_M22; pfam00814 991905013286 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 991905013287 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 991905013288 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 991905013289 Ligand Binding Site [chemical binding]; other site 991905013290 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 991905013291 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 991905013292 Walker A motif; other site 991905013293 ATP binding site [chemical binding]; other site 991905013294 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 991905013295 Walker B motif; other site 991905013296 arginine finger; other site 991905013297 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 991905013298 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 991905013299 active site 991905013300 HslU subunit interaction site [polypeptide binding]; other site 991905013301 Predicted flavoprotein [General function prediction only]; Region: COG0431 991905013302 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 991905013303 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 991905013304 S-adenosylmethionine binding site [chemical binding]; other site 991905013305 chaperone protein DnaJ; Provisional; Region: PRK10767 991905013306 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 991905013307 HSP70 interaction site [polypeptide binding]; other site 991905013308 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 991905013309 substrate binding site [polypeptide binding]; other site 991905013310 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 991905013311 Zn binding sites [ion binding]; other site 991905013312 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 991905013313 dimer interface [polypeptide binding]; other site 991905013314 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 991905013315 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 991905013316 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 991905013317 nucleotide binding site [chemical binding]; other site 991905013318 NEF interaction site [polypeptide binding]; other site 991905013319 SBD interface [polypeptide binding]; other site 991905013320 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 991905013321 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 991905013322 ABC1 family; Region: ABC1; pfam03109 991905013323 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 991905013324 active site 991905013325 ATP binding site [chemical binding]; other site 991905013326 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 991905013327 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 991905013328 S-adenosylmethionine binding site [chemical binding]; other site 991905013329 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 991905013330 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 991905013331 DNA binding site [nucleotide binding] 991905013332 putative catalytic residues [active] 991905013333 turnover-facilitating residue; other site 991905013334 intercalation triad [nucleotide binding]; other site 991905013335 8OG recognition residue [nucleotide binding]; other site 991905013336 putative reading head residues; other site 991905013337 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 991905013338 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 991905013339 enoyl-CoA hydratase; Provisional; Region: PRK05862 991905013340 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 991905013341 substrate binding site [chemical binding]; other site 991905013342 oxyanion hole (OAH) forming residues; other site 991905013343 trimer interface [polypeptide binding]; other site 991905013344 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 991905013345 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 991905013346 active site residue [active]