-- dump date 20140619_232645 -- class Genbank::misc_feature -- table misc_feature_note -- id note 485917000001 Aspartyl protease; Region: Asp_protease_2; pfam13650 485917000002 inhibitor binding site; inhibition site 485917000003 catalytic motif [active] 485917000004 Catalytic residue [active] 485917000005 Active site flap [active] 485917000006 Aspartyl protease; Region: Asp_protease_2; pfam13650 485917000007 inhibitor binding site; inhibition site 485917000008 catalytic motif [active] 485917000009 Catalytic residue [active] 485917000010 Active site flap [active] 485917000011 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 485917000012 protein binding site [polypeptide binding]; other site 485917000013 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 485917000014 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 485917000015 DNA-binding site [nucleotide binding]; DNA binding site 485917000016 RNA-binding motif; other site 485917000017 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 485917000018 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 485917000019 active site 485917000020 catalytic site [active] 485917000021 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 485917000022 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485917000023 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485917000024 Walker A/P-loop; other site 485917000025 ATP binding site [chemical binding]; other site 485917000026 Q-loop/lid; other site 485917000027 ABC transporter signature motif; other site 485917000028 Walker B; other site 485917000029 D-loop; other site 485917000030 H-loop/switch region; other site 485917000031 ABC transporter; Region: ABC_tran_2; pfam12848 485917000032 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485917000033 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 485917000034 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 485917000035 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 485917000036 Bacterial Ig-like domain; Region: Big_5; pfam13205 485917000037 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917000038 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 485917000039 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 485917000040 trimer interface [polypeptide binding]; other site 485917000041 putative metal binding site [ion binding]; other site 485917000042 L-aspartate oxidase; Provisional; Region: PRK06175 485917000043 L-aspartate oxidase; Provisional; Region: PRK09077 485917000044 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 485917000045 quinolinate synthetase; Provisional; Region: PRK09375 485917000046 thiamine monophosphate kinase; Provisional; Region: PRK05731 485917000047 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 485917000048 ATP binding site [chemical binding]; other site 485917000049 dimerization interface [polypeptide binding]; other site 485917000050 RmuC family; Region: RmuC; pfam02646 485917000051 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 485917000052 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 485917000053 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 485917000054 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 485917000055 FMN binding site [chemical binding]; other site 485917000056 active site 485917000057 catalytic residues [active] 485917000058 substrate binding site [chemical binding]; other site 485917000059 CAAX protease self-immunity; Region: Abi; pfam02517 485917000060 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 485917000061 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 485917000062 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 485917000063 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 485917000064 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 485917000065 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 485917000066 ATP binding site [chemical binding]; other site 485917000067 putative Mg++ binding site [ion binding]; other site 485917000068 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 485917000069 nucleotide binding region [chemical binding]; other site 485917000070 ATP-binding site [chemical binding]; other site 485917000071 TRCF domain; Region: TRCF; pfam03461 485917000072 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 485917000073 TM2 domain; Region: TM2; pfam05154 485917000074 Uncharacterized conserved protein [Function unknown]; Region: COG0327 485917000075 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 485917000076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 485917000077 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 485917000078 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 485917000079 Putative zinc ribbon domain; Region: DUF164; pfam02591 485917000080 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 485917000081 binding surface 485917000082 TPR motif; other site 485917000083 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917000084 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 485917000085 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 485917000086 dimer interface [polypeptide binding]; other site 485917000087 active site 485917000088 CoA binding pocket [chemical binding]; other site 485917000089 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 485917000090 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 485917000091 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 485917000092 Walker A motif; other site 485917000093 ATP binding site [chemical binding]; other site 485917000094 Walker B motif; other site 485917000095 arginine finger; other site 485917000096 Peptidase family M41; Region: Peptidase_M41; pfam01434 485917000097 Oligomerisation domain; Region: Oligomerisation; pfam02410 485917000098 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 485917000099 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 485917000100 6-phosphofructokinase; Provisional; Region: PRK03202 485917000101 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 485917000102 active site 485917000103 ADP/pyrophosphate binding site [chemical binding]; other site 485917000104 dimerization interface [polypeptide binding]; other site 485917000105 allosteric effector site; other site 485917000106 fructose-1,6-bisphosphate binding site; other site 485917000107 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 485917000108 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 485917000109 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 485917000110 RimM N-terminal domain; Region: RimM; pfam01782 485917000111 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 485917000112 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 485917000113 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 485917000114 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 485917000115 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 485917000116 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 485917000117 Mechanosensitive ion channel; Region: MS_channel; pfam00924 485917000118 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 485917000119 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485917000120 active site 485917000121 Transglycosylase; Region: Transgly; pfam00912 485917000122 antiporter inner membrane protein; Provisional; Region: PRK11670 485917000123 Domain of unknown function DUF59; Region: DUF59; pfam01883 485917000124 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 485917000125 Walker A motif; other site 485917000126 NifU-like domain; Region: NifU; cl00484 485917000127 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000128 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 485917000129 active site 485917000130 catalytic residues [active] 485917000131 metal binding site [ion binding]; metal-binding site 485917000132 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917000133 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485917000134 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917000135 heat shock protein 90; Provisional; Region: PRK05218 485917000136 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 485917000137 ATP binding site [chemical binding]; other site 485917000138 Mg2+ binding site [ion binding]; other site 485917000139 G-X-G motif; other site 485917000140 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 485917000141 metal binding site [ion binding]; metal-binding site 485917000142 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 485917000143 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 485917000144 RNA polymerase sigma factor; Provisional; Region: PRK11924 485917000145 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917000146 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 485917000147 DNA binding residues [nucleotide binding] 485917000148 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917000149 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917000150 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485917000151 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917000152 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917000153 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917000154 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917000155 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917000156 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917000157 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000158 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917000159 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000160 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917000161 FecR protein; Region: FecR; pfam04773 485917000162 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917000163 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 485917000164 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 485917000165 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917000166 catalytic residues [active] 485917000167 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 485917000168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 485917000169 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 485917000170 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 485917000171 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 485917000172 Walker A motif; other site 485917000173 ATP binding site [chemical binding]; other site 485917000174 Walker B motif; other site 485917000175 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 485917000176 signal recognition particle protein; Provisional; Region: PRK10867 485917000177 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 485917000178 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 485917000179 P loop; other site 485917000180 GTP binding site [chemical binding]; other site 485917000181 Signal peptide binding domain; Region: SRP_SPB; pfam02978 485917000182 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 485917000183 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000184 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 485917000185 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485917000186 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 485917000187 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485917000188 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 485917000189 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 485917000190 S-adenosylmethionine binding site [chemical binding]; other site 485917000191 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 485917000192 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 485917000193 DNA polymerase III subunit delta'; Validated; Region: PRK08485 485917000194 PSP1 C-terminal conserved region; Region: PSP1; cl00770 485917000195 GldH lipoprotein; Region: GldH_lipo; pfam14109 485917000196 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485917000197 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 485917000198 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485917000199 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 485917000200 putative active site [active] 485917000201 Zn binding site [ion binding]; other site 485917000202 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917000203 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000204 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917000205 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000206 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 485917000207 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917000208 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 485917000209 dimer interface [polypeptide binding]; other site 485917000210 catalytic triad [active] 485917000211 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 485917000212 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 485917000213 active site 485917000214 HIGH motif; other site 485917000215 KMSKS motif; other site 485917000216 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 485917000217 tRNA binding surface [nucleotide binding]; other site 485917000218 anticodon binding site; other site 485917000219 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 485917000220 dimer interface [polypeptide binding]; other site 485917000221 putative tRNA-binding site [nucleotide binding]; other site 485917000222 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917000223 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917000224 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917000225 TROVE domain; Region: TROVE; pfam05731 485917000226 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 485917000227 hypothetical protein; Reviewed; Region: PRK09588 485917000228 WYL domain; Region: WYL; pfam13280 485917000229 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 485917000230 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917000231 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 485917000232 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 485917000233 active site 485917000234 motif I; other site 485917000235 motif II; other site 485917000236 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 485917000237 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485917000238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917000239 Coenzyme A binding pocket [chemical binding]; other site 485917000240 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 485917000241 Peptidase family M28; Region: Peptidase_M28; pfam04389 485917000242 metal binding site [ion binding]; metal-binding site 485917000243 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 485917000244 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 485917000245 active site residue [active] 485917000246 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 485917000247 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 485917000248 active site 485917000249 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 485917000250 peptidase T; Region: peptidase-T; TIGR01882 485917000251 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 485917000252 metal binding site [ion binding]; metal-binding site 485917000253 dimer interface [polypeptide binding]; other site 485917000254 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 485917000255 S-adenosylmethionine binding site [chemical binding]; other site 485917000256 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 485917000257 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485917000258 Beta-Casp domain; Region: Beta-Casp; smart01027 485917000259 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 485917000260 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 485917000261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917000262 legume lectins; Region: lectin_L-type; cl14058 485917000263 homotetramer interaction site [polypeptide binding]; other site 485917000264 homodimer interaction site [polypeptide binding]; other site 485917000265 carbohydrate binding site [chemical binding]; other site 485917000266 metal binding site [ion binding]; metal-binding site 485917000267 conserved repeat domain; Region: B_ant_repeat; TIGR01451 485917000268 Domain of unknown function DUF11; Region: DUF11; cl17728 485917000269 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917000270 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 485917000271 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 485917000272 TPR motif; other site 485917000273 binding surface 485917000274 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917000275 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917000276 ligand binding site [chemical binding]; other site 485917000277 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 485917000278 23S rRNA interface [nucleotide binding]; other site 485917000279 L3 interface [polypeptide binding]; other site 485917000280 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 485917000281 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 485917000282 rRNA interaction site [nucleotide binding]; other site 485917000283 S8 interaction site; other site 485917000284 putative laminin-1 binding site; other site 485917000285 elongation factor Ts; Provisional; Region: tsf; PRK09377 485917000286 UBA/TS-N domain; Region: UBA; pfam00627 485917000287 Elongation factor TS; Region: EF_TS; pfam00889 485917000288 Elongation factor TS; Region: EF_TS; pfam00889 485917000289 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 485917000290 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 485917000291 active site 485917000292 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 485917000293 putative nucleotide binding site [chemical binding]; other site 485917000294 uridine monophosphate binding site [chemical binding]; other site 485917000295 homohexameric interface [polypeptide binding]; other site 485917000296 ribosome recycling factor; Reviewed; Region: frr; PRK00083 485917000297 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 485917000298 hinge region; other site 485917000299 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485917000300 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485917000301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917000302 Walker A/P-loop; other site 485917000303 ATP binding site [chemical binding]; other site 485917000304 Q-loop/lid; other site 485917000305 ABC transporter signature motif; other site 485917000306 Walker B; other site 485917000307 D-loop; other site 485917000308 H-loop/switch region; other site 485917000309 enterobactin exporter EntS; Provisional; Region: PRK10489 485917000310 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 485917000311 putative substrate translocation pore; other site 485917000312 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 485917000313 thiamine phosphate binding site [chemical binding]; other site 485917000314 active site 485917000315 pyrophosphate binding site [ion binding]; other site 485917000316 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917000317 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917000318 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000319 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 485917000320 AAA domain; Region: AAA_28; pfam13521 485917000321 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 485917000322 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485917000323 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 485917000324 ATP-grasp domain; Region: ATP-grasp_4; cl17255 485917000325 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 485917000326 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 485917000327 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485917000328 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 485917000329 ATP-grasp domain; Region: ATP-grasp_4; cl17255 485917000330 DNA repair protein RadA; Provisional; Region: PRK11823 485917000331 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 485917000332 Walker A motif/ATP binding site; other site 485917000333 ATP binding site [chemical binding]; other site 485917000334 Walker B motif; other site 485917000335 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 485917000336 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 485917000337 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 485917000338 homodimer interface [polypeptide binding]; other site 485917000339 oligonucleotide binding site [chemical binding]; other site 485917000340 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 485917000341 TPR motif; other site 485917000342 TPR repeat; Region: TPR_11; pfam13414 485917000343 binding surface 485917000344 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 485917000345 IHF dimer interface [polypeptide binding]; other site 485917000346 IHF - DNA interface [nucleotide binding]; other site 485917000347 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 485917000348 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 485917000349 minor groove reading motif; other site 485917000350 helix-hairpin-helix signature motif; other site 485917000351 substrate binding pocket [chemical binding]; other site 485917000352 active site 485917000353 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 485917000354 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 485917000355 DNA binding and oxoG recognition site [nucleotide binding] 485917000356 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 485917000357 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 485917000358 dimer interface [polypeptide binding]; other site 485917000359 ssDNA binding site [nucleotide binding]; other site 485917000360 tetramer (dimer of dimers) interface [polypeptide binding]; other site 485917000361 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 485917000362 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 485917000363 glutaminase active site [active] 485917000364 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 485917000365 dimer interface [polypeptide binding]; other site 485917000366 active site 485917000367 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 485917000368 dimer interface [polypeptide binding]; other site 485917000369 active site 485917000370 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 485917000371 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 485917000372 pantoate--beta-alanine ligase; Region: panC; TIGR00018 485917000373 Pantoate-beta-alanine ligase; Region: PanC; cd00560 485917000374 active site 485917000375 ATP-binding site [chemical binding]; other site 485917000376 pantoate-binding site; other site 485917000377 HXXH motif; other site 485917000378 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 485917000379 tetramerization interface [polypeptide binding]; other site 485917000380 active site 485917000381 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 485917000382 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 485917000383 active site 485917000384 Membrane protein of unknown function; Region: DUF360; pfam04020 485917000385 ribosome maturation protein RimP; Reviewed; Region: PRK00092 485917000386 Sm and related proteins; Region: Sm_like; cl00259 485917000387 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 485917000388 putative oligomer interface [polypeptide binding]; other site 485917000389 putative RNA binding site [nucleotide binding]; other site 485917000390 transcription termination factor NusA; Region: NusA; TIGR01953 485917000391 NusA N-terminal domain; Region: NusA_N; pfam08529 485917000392 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 485917000393 RNA binding site [nucleotide binding]; other site 485917000394 homodimer interface [polypeptide binding]; other site 485917000395 NusA-like KH domain; Region: KH_5; pfam13184 485917000396 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 485917000397 G-X-X-G motif; other site 485917000398 translation initiation factor IF-2; Region: IF-2; TIGR00487 485917000399 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 485917000400 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 485917000401 G1 box; other site 485917000402 putative GEF interaction site [polypeptide binding]; other site 485917000403 GTP/Mg2+ binding site [chemical binding]; other site 485917000404 Switch I region; other site 485917000405 G2 box; other site 485917000406 G3 box; other site 485917000407 Switch II region; other site 485917000408 G4 box; other site 485917000409 G5 box; other site 485917000410 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 485917000411 Translation-initiation factor 2; Region: IF-2; pfam11987 485917000412 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 485917000413 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917000414 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 485917000415 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 485917000416 active site 485917000417 oxyanion hole [active] 485917000418 catalytic triad [active] 485917000419 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 485917000420 Acyltransferase family; Region: Acyl_transf_3; pfam01757 485917000421 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 485917000422 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 485917000423 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 485917000424 GDP-Fucose binding site [chemical binding]; other site 485917000425 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485917000426 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 485917000427 active site 485917000428 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917000429 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 485917000430 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 485917000431 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 485917000432 active site 485917000433 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 485917000434 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 485917000435 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485917000436 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 485917000437 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 485917000438 Walker A/P-loop; other site 485917000439 ATP binding site [chemical binding]; other site 485917000440 Q-loop/lid; other site 485917000441 ABC transporter signature motif; other site 485917000442 Walker B; other site 485917000443 D-loop; other site 485917000444 H-loop/switch region; other site 485917000445 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 485917000446 AAA domain; Region: AAA_31; pfam13614 485917000447 Walker A; other site 485917000448 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 485917000449 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917000450 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917000451 ligand binding site [chemical binding]; other site 485917000452 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 485917000453 homotrimer interaction site [polypeptide binding]; other site 485917000454 putative active site [active] 485917000455 Predicted permeases [General function prediction only]; Region: RarD; COG2962 485917000456 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 485917000457 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 485917000458 generic binding surface II; other site 485917000459 ssDNA binding site; other site 485917000460 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 485917000461 ATP binding site [chemical binding]; other site 485917000462 putative Mg++ binding site [ion binding]; other site 485917000463 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 485917000464 nucleotide binding region [chemical binding]; other site 485917000465 ATP-binding site [chemical binding]; other site 485917000466 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917000467 Beta-lactamase; Region: Beta-lactamase; pfam00144 485917000468 fumarate hydratase; Reviewed; Region: fumC; PRK00485 485917000469 Class II fumarases; Region: Fumarase_classII; cd01362 485917000470 active site 485917000471 tetramer interface [polypeptide binding]; other site 485917000472 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 485917000473 active site 485917000474 Zn binding site [ion binding]; other site 485917000475 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 485917000476 Low molecular weight phosphatase family; Region: LMWPc; cd00115 485917000477 active site 485917000478 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 485917000479 carboxy-terminal protease; Provisional; Region: PRK11186 485917000480 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 485917000481 protein binding site [polypeptide binding]; other site 485917000482 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 485917000483 Catalytic dyad [active] 485917000484 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 485917000485 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 485917000486 SPFH domain / Band 7 family; Region: Band_7; pfam01145 485917000487 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 485917000488 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 485917000489 putative active site [active] 485917000490 putative metal binding site [ion binding]; other site 485917000491 NlpC/P60 family; Region: NLPC_P60; pfam00877 485917000492 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 485917000493 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 485917000494 tetramer interface [polypeptide binding]; other site 485917000495 TPP-binding site [chemical binding]; other site 485917000496 heterodimer interface [polypeptide binding]; other site 485917000497 phosphorylation loop region [posttranslational modification] 485917000498 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 485917000499 E3 interaction surface; other site 485917000500 lipoyl attachment site [posttranslational modification]; other site 485917000501 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 485917000502 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 485917000503 E3 interaction surface; other site 485917000504 lipoyl attachment site [posttranslational modification]; other site 485917000505 e3 binding domain; Region: E3_binding; pfam02817 485917000506 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 485917000507 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 485917000508 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 485917000509 dimer interface [polypeptide binding]; other site 485917000510 motif 1; other site 485917000511 active site 485917000512 motif 2; other site 485917000513 motif 3; other site 485917000514 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 485917000515 anticodon binding site; other site 485917000516 Response regulator receiver domain; Region: Response_reg; pfam00072 485917000517 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 485917000518 active site 485917000519 phosphorylation site [posttranslational modification] 485917000520 intermolecular recognition site; other site 485917000521 dimerization interface [polypeptide binding]; other site 485917000522 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000523 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 485917000524 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 485917000525 N-terminal plug; other site 485917000526 ligand-binding site [chemical binding]; other site 485917000527 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 485917000528 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917000529 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 485917000530 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 485917000531 putative oxidoreductase; Provisional; Region: PRK11579 485917000532 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917000533 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 485917000534 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917000535 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917000536 ligand binding site [chemical binding]; other site 485917000537 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 485917000538 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 485917000539 Walker A/P-loop; other site 485917000540 ATP binding site [chemical binding]; other site 485917000541 Q-loop/lid; other site 485917000542 ABC transporter signature motif; other site 485917000543 Walker B; other site 485917000544 D-loop; other site 485917000545 H-loop/switch region; other site 485917000546 recombination factor protein RarA; Reviewed; Region: PRK13342 485917000547 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 485917000548 Walker A motif; other site 485917000549 ATP binding site [chemical binding]; other site 485917000550 Walker B motif; other site 485917000551 arginine finger; other site 485917000552 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 485917000553 helicase 45; Provisional; Region: PTZ00424 485917000554 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 485917000555 ATP binding site [chemical binding]; other site 485917000556 Mg++ binding site [ion binding]; other site 485917000557 motif III; other site 485917000558 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 485917000559 nucleotide binding region [chemical binding]; other site 485917000560 ATP-binding site [chemical binding]; other site 485917000561 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 485917000562 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000563 von Willebrand factor; Region: vWF_A; pfam12450 485917000564 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 485917000565 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 485917000566 metal ion-dependent adhesion site (MIDAS); other site 485917000567 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 485917000568 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917000569 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917000570 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 485917000571 DNA binding residues [nucleotide binding] 485917000572 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000573 Gram-negative bacterial tonB protein; Region: TonB; cl10048 485917000574 Phosphate transporter family; Region: PHO4; pfam01384 485917000575 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 485917000576 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 485917000577 dimer interface [polypeptide binding]; other site 485917000578 phosphorylation site [posttranslational modification] 485917000579 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 485917000580 ATP binding site [chemical binding]; other site 485917000581 Mg2+ binding site [ion binding]; other site 485917000582 G-X-G motif; other site 485917000583 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 485917000584 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 485917000585 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 485917000586 FeS/SAM binding site; other site 485917000587 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 485917000588 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 485917000589 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 485917000590 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 485917000591 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 485917000592 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000593 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 485917000594 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 485917000595 N-terminal plug; other site 485917000596 ligand-binding site [chemical binding]; other site 485917000597 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 485917000598 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 485917000599 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 485917000600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917000601 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 485917000602 dimer interface [polypeptide binding]; other site 485917000603 phosphorylation site [posttranslational modification] 485917000604 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 485917000605 ATP binding site [chemical binding]; other site 485917000606 Mg2+ binding site [ion binding]; other site 485917000607 G-X-G motif; other site 485917000608 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917000609 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 485917000610 active site 485917000611 phosphorylation site [posttranslational modification] 485917000612 intermolecular recognition site; other site 485917000613 dimerization interface [polypeptide binding]; other site 485917000614 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 485917000615 DNA binding site [nucleotide binding] 485917000616 GLPGLI family protein; Region: GLPGLI; TIGR01200 485917000617 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917000618 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000619 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 485917000620 PIF1-like helicase; Region: PIF1; pfam05970 485917000621 AAA domain; Region: AAA_30; pfam13604 485917000622 Family description; Region: UvrD_C_2; pfam13538 485917000623 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 485917000624 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 485917000625 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 485917000626 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 485917000627 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 485917000628 protein binding site [polypeptide binding]; other site 485917000629 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 485917000630 protein binding site [polypeptide binding]; other site 485917000631 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 485917000632 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 485917000633 proximal heme binding site [chemical binding]; other site 485917000634 distal heme binding site [chemical binding]; other site 485917000635 putative dimer interface [polypeptide binding]; other site 485917000636 putative Iron-sulfur protein interface [polypeptide binding]; other site 485917000637 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 485917000638 L-aspartate oxidase; Provisional; Region: PRK06175 485917000639 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 485917000640 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 485917000641 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 485917000642 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 485917000643 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 485917000644 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 485917000645 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917000646 Penicillinase repressor; Region: Pencillinase_R; pfam03965 485917000647 Histidine kinase; Region: His_kinase; pfam06580 485917000648 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 485917000649 Response regulator receiver domain; Region: Response_reg; pfam00072 485917000650 active site 485917000651 phosphorylation site [posttranslational modification] 485917000652 intermolecular recognition site; other site 485917000653 dimerization interface [polypeptide binding]; other site 485917000654 LytTr DNA-binding domain; Region: LytTR; smart00850 485917000655 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 485917000656 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 485917000657 putative acyl-acceptor binding pocket; other site 485917000658 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 485917000659 ADP-ribose binding site [chemical binding]; other site 485917000660 dimer interface [polypeptide binding]; other site 485917000661 active site 485917000662 nudix motif; other site 485917000663 metal binding site [ion binding]; metal-binding site 485917000664 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917000665 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917000666 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000667 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917000668 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 485917000669 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000670 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 485917000671 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 485917000672 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 485917000673 dimer interface [polypeptide binding]; other site 485917000674 active site 485917000675 CoA binding pocket [chemical binding]; other site 485917000676 short chain dehydrogenase; Provisional; Region: PRK07677 485917000677 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 485917000678 NAD(P) binding site [chemical binding]; other site 485917000679 substrate binding site [chemical binding]; other site 485917000680 homotetramer interface [polypeptide binding]; other site 485917000681 active site 485917000682 homodimer interface [polypeptide binding]; other site 485917000683 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 485917000684 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 485917000685 substrate binding site [chemical binding]; other site 485917000686 oxyanion hole (OAH) forming residues; other site 485917000687 trimer interface [polypeptide binding]; other site 485917000688 MG2 domain; Region: A2M_N; pfam01835 485917000689 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917000690 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917000691 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 485917000692 trimer interface [polypeptide binding]; other site 485917000693 active site 485917000694 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 485917000695 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 485917000696 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 485917000697 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 485917000698 RDD family; Region: RDD; pfam06271 485917000699 Integral membrane protein DUF95; Region: DUF95; pfam01944 485917000700 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 485917000701 MoxR-like ATPases [General function prediction only]; Region: COG0714 485917000702 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 485917000703 Walker A motif; other site 485917000704 ATP binding site [chemical binding]; other site 485917000705 Walker B motif; other site 485917000706 arginine finger; other site 485917000707 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 485917000708 Protein of unknown function DUF58; Region: DUF58; pfam01882 485917000709 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 485917000710 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 485917000711 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 485917000712 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 485917000713 MgtC family; Region: MgtC; pfam02308 485917000714 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 485917000715 FOG: PKD repeat [General function prediction only]; Region: COG3291 485917000716 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 485917000717 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 485917000718 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 485917000719 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 485917000720 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 485917000721 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 485917000722 ring oligomerisation interface [polypeptide binding]; other site 485917000723 ATP/Mg binding site [chemical binding]; other site 485917000724 stacking interactions; other site 485917000725 hinge regions; other site 485917000726 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 485917000727 oligomerisation interface [polypeptide binding]; other site 485917000728 mobile loop; other site 485917000729 roof hairpin; other site 485917000730 Preprotein translocase SecG subunit; Region: SecG; pfam03840 485917000731 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485917000732 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 485917000733 Walker A motif; other site 485917000734 ATP binding site [chemical binding]; other site 485917000735 Walker B motif; other site 485917000736 arginine finger; other site 485917000737 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 485917000738 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 485917000739 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 485917000740 FeS/SAM binding site; other site 485917000741 TRAM domain; Region: TRAM; pfam01938 485917000742 WxcM-like, C-terminal; Region: FdtA; pfam05523 485917000743 CHRD domain; Region: CHRD; pfam07452 485917000744 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917000745 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917000746 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 485917000747 DNA binding residues [nucleotide binding] 485917000748 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917000749 FecR protein; Region: FecR; pfam04773 485917000750 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917000751 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000752 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 485917000753 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000754 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 485917000755 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 485917000756 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 485917000757 homodimer interface [polypeptide binding]; other site 485917000758 substrate-cofactor binding pocket; other site 485917000759 catalytic residue [active] 485917000760 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 485917000761 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 485917000762 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 485917000763 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 485917000764 L-serine binding site [chemical binding]; other site 485917000765 ACT domain interface; other site 485917000766 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 485917000767 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 485917000768 putative NADP binding site [chemical binding]; other site 485917000769 putative substrate binding site [chemical binding]; other site 485917000770 active site 485917000771 formimidoylglutamase; Provisional; Region: PRK13775 485917000772 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 485917000773 putative active site [active] 485917000774 putative metal binding site [ion binding]; other site 485917000775 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 485917000776 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 485917000777 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917000778 catalytic residues [active] 485917000779 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 485917000780 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 485917000781 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 485917000782 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 485917000783 Predicted membrane protein [Function unknown]; Region: COG2855 485917000784 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 485917000785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485917000786 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 485917000787 putative dimerization interface [polypeptide binding]; other site 485917000788 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 485917000789 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 485917000790 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 485917000791 nucleotide binding region [chemical binding]; other site 485917000792 ATP-binding site [chemical binding]; other site 485917000793 SEC-C motif; Region: SEC-C; pfam02810 485917000794 Sporulation related domain; Region: SPOR; pfam05036 485917000795 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 485917000796 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 485917000797 metal binding site [ion binding]; metal-binding site 485917000798 dimer interface [polypeptide binding]; other site 485917000799 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 485917000800 active site 485917000801 catalytic triad [active] 485917000802 oxyanion hole [active] 485917000803 DNA primase, catalytic core; Region: dnaG; TIGR01391 485917000804 CHC2 zinc finger; Region: zf-CHC2; pfam01807 485917000805 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 485917000806 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 485917000807 active site 485917000808 metal binding site [ion binding]; metal-binding site 485917000809 interdomain interaction site; other site 485917000810 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 485917000811 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 485917000812 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 485917000813 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 485917000814 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 485917000815 active site 485917000816 dimer interface [polypeptide binding]; other site 485917000817 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 485917000818 dimer interface [polypeptide binding]; other site 485917000819 active site 485917000820 peptide chain release factor 2; Validated; Region: prfB; PRK00578 485917000821 PCRF domain; Region: PCRF; pfam03462 485917000822 RF-1 domain; Region: RF-1; pfam00472 485917000823 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 485917000824 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917000825 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 485917000826 Methyltransferase domain; Region: Methyltransf_24; pfam13578 485917000827 Surface antigen; Region: Bac_surface_Ag; pfam01103 485917000828 deoxyhypusine synthase; Region: dhys; TIGR00321 485917000829 Deoxyhypusine synthase; Region: DS; cl00826 485917000830 Deoxyhypusine synthase; Region: DS; cl00826 485917000831 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 485917000832 Cytochrome c; Region: Cytochrom_C; pfam00034 485917000833 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 485917000834 heme-binding residues [chemical binding]; other site 485917000835 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 485917000836 molybdopterin cofactor binding site; other site 485917000837 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 485917000838 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 485917000839 4Fe-4S binding domain; Region: Fer4_2; pfam12797 485917000840 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 485917000841 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 485917000842 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 485917000843 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 485917000844 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 485917000845 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 485917000846 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 485917000847 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 485917000848 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 485917000849 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 485917000850 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 485917000851 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 485917000852 UbiA prenyltransferase family; Region: UbiA; pfam01040 485917000853 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 485917000854 Subunit I/III interface [polypeptide binding]; other site 485917000855 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 485917000856 Subunit I/III interface [polypeptide binding]; other site 485917000857 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 485917000858 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 485917000859 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 485917000860 Protein of unknown function (DUF420); Region: DUF420; pfam04238 485917000861 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917000862 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917000863 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 485917000864 DNA binding residues [nucleotide binding] 485917000865 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917000866 FecR protein; Region: FecR; pfam04773 485917000867 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917000868 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000869 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917000870 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000871 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917000872 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917000873 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 485917000874 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917000875 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 485917000876 putative substrate translocation pore; other site 485917000877 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 485917000878 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 485917000879 potential catalytic triad [active] 485917000880 conserved cys residue [active] 485917000881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917000882 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485917000883 NAD(P) binding site [chemical binding]; other site 485917000884 active site 485917000885 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917000886 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917000887 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917000888 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917000889 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 485917000890 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 485917000891 DNA binding site [nucleotide binding] 485917000892 active site 485917000893 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; cl17606 485917000894 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 485917000895 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 485917000896 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 485917000897 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 485917000898 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 485917000899 minor groove reading motif; other site 485917000900 helix-hairpin-helix signature motif; other site 485917000901 substrate binding pocket [chemical binding]; other site 485917000902 active site 485917000903 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 485917000904 SnoaL-like domain; Region: SnoaL_4; pfam13577 485917000905 HEAT repeats; Region: HEAT_2; pfam13646 485917000906 HEAT repeats; Region: HEAT_2; pfam13646 485917000907 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 485917000908 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 485917000909 hypothetical protein; Validated; Region: PRK09039 485917000910 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917000911 ligand binding site [chemical binding]; other site 485917000912 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917000913 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 485917000914 DNA binding residues [nucleotide binding] 485917000915 FecR protein; Region: FecR; pfam04773 485917000916 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917000917 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917000918 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000919 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917000920 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000921 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 485917000922 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917000923 Family description; Region: VCBS; pfam13517 485917000924 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 485917000925 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 485917000926 HEAT repeats; Region: HEAT_2; pfam13646 485917000927 High potential iron-sulfur protein; Region: HIPIP; pfam01355 485917000928 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 485917000929 homotrimer interaction site [polypeptide binding]; other site 485917000930 putative active site [active] 485917000931 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 485917000932 homotrimer interaction site [polypeptide binding]; other site 485917000933 putative active site [active] 485917000934 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 485917000935 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 485917000936 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 485917000937 Amidohydrolase; Region: Amidohydro_2; pfam04909 485917000938 Amidohydrolase; Region: Amidohydro_2; pfam04909 485917000939 active site 485917000940 Amidohydrolase; Region: Amidohydro_2; pfam04909 485917000941 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 485917000942 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 485917000943 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917000944 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917000945 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917000946 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917000947 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917000948 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917000949 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917000950 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917000951 SusD family; Region: SusD; pfam07980 485917000952 SusD family; Region: SusD; pfam07980 485917000953 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 485917000954 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917000955 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917000956 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 485917000957 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 485917000958 Na binding site [ion binding]; other site 485917000959 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 485917000960 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 485917000961 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 485917000962 inhibitor-cofactor binding pocket; inhibition site 485917000963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917000964 catalytic residue [active] 485917000965 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 485917000966 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 485917000967 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 485917000968 inhibitor-cofactor binding pocket; inhibition site 485917000969 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917000970 catalytic residue [active] 485917000971 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 485917000972 Amidohydrolase; Region: Amidohydro_2; pfam04909 485917000973 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 485917000974 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 485917000975 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 485917000976 active site 485917000977 dimer interface [polypeptide binding]; other site 485917000978 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 485917000979 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 485917000980 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 485917000981 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 485917000982 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485917000983 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 485917000984 PAS fold; Region: PAS_3; pfam08447 485917000985 putative active site [active] 485917000986 heme pocket [chemical binding]; other site 485917000987 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 485917000988 PAS fold; Region: PAS_3; pfam08447 485917000989 putative active site [active] 485917000990 heme pocket [chemical binding]; other site 485917000991 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 485917000992 dimer interface [polypeptide binding]; other site 485917000993 phosphorylation site [posttranslational modification] 485917000994 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 485917000995 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917000996 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917000997 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 485917000998 dimer interface [polypeptide binding]; other site 485917000999 phosphorylation site [posttranslational modification] 485917001000 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 485917001001 ATP binding site [chemical binding]; other site 485917001002 Mg2+ binding site [ion binding]; other site 485917001003 G-X-G motif; other site 485917001004 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917001005 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 485917001006 active site 485917001007 phosphorylation site [posttranslational modification] 485917001008 intermolecular recognition site; other site 485917001009 dimerization interface [polypeptide binding]; other site 485917001010 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 485917001011 DNA binding site [nucleotide binding] 485917001012 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 485917001013 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 485917001014 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 485917001015 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917001016 putative active site [active] 485917001017 putative metal binding site [ion binding]; other site 485917001018 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 485917001019 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 485917001020 metal ion-dependent adhesion site (MIDAS); other site 485917001021 Cupin-like domain; Region: Cupin_8; pfam13621 485917001022 Cupin-like domain; Region: Cupin_8; pfam13621 485917001023 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 485917001024 Fasciclin domain; Region: Fasciclin; pfam02469 485917001025 Melibiase; Region: Melibiase; pfam02065 485917001026 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 485917001027 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 485917001028 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 485917001029 metal ion-dependent adhesion site (MIDAS); other site 485917001030 Uncharacterized conserved protein [Function unknown]; Region: COG1262 485917001031 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 485917001032 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 485917001033 short chain dehydrogenase; Provisional; Region: PRK06181 485917001034 NADP binding site [chemical binding]; other site 485917001035 homodimer interface [polypeptide binding]; other site 485917001036 substrate binding site [chemical binding]; other site 485917001037 active site 485917001038 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 485917001039 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 485917001040 FeS/SAM binding site; other site 485917001041 HemN C-terminal domain; Region: HemN_C; pfam06969 485917001042 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 485917001043 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 485917001044 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 485917001045 active site 485917001046 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 485917001047 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 485917001048 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 485917001049 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 485917001050 GldM N-terminal domain; Region: GldM_N; pfam12081 485917001051 GldM C-terminal domain; Region: GldM_C; pfam12080 485917001052 gliding motility associated protien GldN; Region: GldN; TIGR03523 485917001053 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 485917001054 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 485917001055 GIY-YIG motif/motif A; other site 485917001056 active site 485917001057 catalytic site [active] 485917001058 putative DNA binding site [nucleotide binding]; other site 485917001059 metal binding site [ion binding]; metal-binding site 485917001060 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 485917001061 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 485917001062 Transglycosylase; Region: Transgly; pfam00912 485917001063 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 485917001064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 485917001065 tetratricopeptide repeat protein; Provisional; Region: PRK11788 485917001066 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 485917001067 ATP synthase A chain; Region: ATP-synt_A; cl00413 485917001068 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 485917001069 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 485917001070 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 485917001071 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 485917001072 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 485917001073 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 485917001074 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 485917001075 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 485917001076 beta subunit interaction interface [polypeptide binding]; other site 485917001077 Walker A motif; other site 485917001078 ATP binding site [chemical binding]; other site 485917001079 Walker B motif; other site 485917001080 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 485917001081 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 485917001082 core domain interface [polypeptide binding]; other site 485917001083 delta subunit interface [polypeptide binding]; other site 485917001084 epsilon subunit interface [polypeptide binding]; other site 485917001085 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 485917001086 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 485917001087 active site 485917001088 putative DNA-binding cleft [nucleotide binding]; other site 485917001089 dimer interface [polypeptide binding]; other site 485917001090 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 485917001091 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 485917001092 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_e; cd04192 485917001093 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 485917001094 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 485917001095 dimer interface [polypeptide binding]; other site 485917001096 conserved gate region; other site 485917001097 putative PBP binding loops; other site 485917001098 ABC-ATPase subunit interface; other site 485917001099 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 485917001100 RNA/DNA hybrid binding site [nucleotide binding]; other site 485917001101 active site 485917001102 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 485917001103 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 485917001104 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 485917001105 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 485917001106 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 485917001107 2-phosphosulfolactate phosphatase; Provisional; Region: PRK14100 485917001108 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 485917001109 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 485917001110 active site 485917001111 nucleophile elbow; other site 485917001112 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 485917001113 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917001114 NAD synthetase; Provisional; Region: PRK13981 485917001115 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 485917001116 multimer interface [polypeptide binding]; other site 485917001117 active site 485917001118 catalytic triad [active] 485917001119 protein interface 1 [polypeptide binding]; other site 485917001120 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 485917001121 homodimer interface [polypeptide binding]; other site 485917001122 NAD binding pocket [chemical binding]; other site 485917001123 ATP binding pocket [chemical binding]; other site 485917001124 Mg binding site [ion binding]; other site 485917001125 active-site loop [active] 485917001126 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 485917001127 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 485917001128 putative active site [active] 485917001129 catalytic triad [active] 485917001130 putative dimer interface [polypeptide binding]; other site 485917001131 Short C-terminal domain; Region: SHOCT; pfam09851 485917001132 Predicted methyltransferases [General function prediction only]; Region: COG0313 485917001133 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 485917001134 putative SAM binding site [chemical binding]; other site 485917001135 putative homodimer interface [polypeptide binding]; other site 485917001136 seryl-tRNA synthetase; Provisional; Region: PRK05431 485917001137 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 485917001138 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 485917001139 dimer interface [polypeptide binding]; other site 485917001140 active site 485917001141 motif 1; other site 485917001142 motif 2; other site 485917001143 motif 3; other site 485917001144 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 485917001145 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 485917001146 lipoprotein signal peptidase; Provisional; Region: PRK14787 485917001147 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 485917001148 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 485917001149 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917001150 active site 485917001151 HIGH motif; other site 485917001152 nucleotide binding site [chemical binding]; other site 485917001153 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917001154 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917001155 active site 485917001156 KMSKS motif; other site 485917001157 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 485917001158 tRNA binding surface [nucleotide binding]; other site 485917001159 anticodon binding site; other site 485917001160 Predicted flavoprotein [General function prediction only]; Region: COG0431 485917001161 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485917001162 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 485917001163 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 485917001164 dimer interface [polypeptide binding]; other site 485917001165 active site 485917001166 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485917001167 substrate binding site [chemical binding]; other site 485917001168 catalytic residue [active] 485917001169 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 485917001170 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917001171 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917001172 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 485917001173 DNA binding residues [nucleotide binding] 485917001174 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 485917001175 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 485917001176 active site 485917001177 metal binding site [ion binding]; metal-binding site 485917001178 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 485917001179 UbiA prenyltransferase family; Region: UbiA; pfam01040 485917001180 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 485917001181 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 485917001182 active site 485917001183 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 485917001184 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 485917001185 ATP binding site [chemical binding]; other site 485917001186 putative Mg++ binding site [ion binding]; other site 485917001187 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 485917001188 nucleotide binding region [chemical binding]; other site 485917001189 ATP-binding site [chemical binding]; other site 485917001190 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 485917001191 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 485917001192 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917001193 active site 485917001194 Fn3 associated; Region: Fn3_assoc; pfam13287 485917001195 PIF1-like helicase; Region: PIF1; pfam05970 485917001196 AAA domain; Region: AAA_30; pfam13604 485917001197 Family description; Region: UvrD_C_2; pfam13538 485917001198 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 485917001199 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917001200 active site 485917001201 metal binding site [ion binding]; metal-binding site 485917001202 Cortical protein marker for cell polarity; Region: Rax2; pfam12768 485917001203 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917001204 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485917001205 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917001206 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917001207 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917001208 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917001209 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917001210 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917001211 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917001212 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001213 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917001214 FecR protein; Region: FecR; pfam04773 485917001215 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917001216 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917001217 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 485917001218 DNA binding residues [nucleotide binding] 485917001219 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917001220 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001221 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917001222 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917001223 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917001224 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917001225 Fasciclin domain; Region: Fasciclin; cl02663 485917001226 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917001227 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 485917001228 Cytochrome c; Region: Cytochrom_C; pfam00034 485917001229 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 485917001230 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917001231 Phosphoesterase family; Region: Phosphoesterase; pfam04185 485917001232 Phosphoesterase family; Region: Phosphoesterase; pfam04185 485917001233 Domain of unknown function (DUF756); Region: DUF756; pfam05506 485917001234 Domain of unknown function (DUF756); Region: DUF756; pfam05506 485917001235 OsmC-like protein; Region: OsmC; cl00767 485917001236 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 485917001237 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917001238 putative substrate translocation pore; other site 485917001239 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 485917001240 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485917001241 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 485917001242 putative catalytic site [active] 485917001243 putative metal binding site [ion binding]; other site 485917001244 putative phosphate binding site [ion binding]; other site 485917001245 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 485917001246 Recombination protein O N terminal; Region: RecO_N; pfam11967 485917001247 Recombination protein O C terminal; Region: RecO_C; pfam02565 485917001248 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 485917001249 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 485917001250 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 485917001251 S-adenosylmethionine binding site [chemical binding]; other site 485917001252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 485917001253 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 485917001254 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 485917001255 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 485917001256 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 485917001257 FeoA domain; Region: FeoA; pfam04023 485917001258 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917001259 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 485917001260 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917001261 Predicted transcriptional regulators [Transcription]; Region: COG1695 485917001262 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 485917001263 PspC domain; Region: PspC; pfam04024 485917001264 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 485917001265 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 485917001266 catalytic triad [active] 485917001267 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 485917001268 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917001269 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 485917001270 dimer interface [polypeptide binding]; other site 485917001271 phosphorylation site [posttranslational modification] 485917001272 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 485917001273 ATP binding site [chemical binding]; other site 485917001274 Mg2+ binding site [ion binding]; other site 485917001275 G-X-G motif; other site 485917001276 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485917001277 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 485917001278 active site 485917001279 phosphorylation site [posttranslational modification] 485917001280 intermolecular recognition site; other site 485917001281 dimerization interface [polypeptide binding]; other site 485917001282 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001283 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917001284 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 485917001285 N-terminal plug; other site 485917001286 ligand-binding site [chemical binding]; other site 485917001287 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; cl00942 485917001288 aromatic arch; other site 485917001289 DCoH dimer interaction site [polypeptide binding]; other site 485917001290 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 485917001291 DCoH tetramer interaction site [polypeptide binding]; other site 485917001292 substrate binding site [chemical binding]; other site 485917001293 methionine sulfoxide reductase A; Provisional; Region: PRK14054 485917001294 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 485917001295 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 485917001296 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 485917001297 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485917001298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917001299 Walker A/P-loop; other site 485917001300 ATP binding site [chemical binding]; other site 485917001301 Q-loop/lid; other site 485917001302 ABC transporter signature motif; other site 485917001303 Walker B; other site 485917001304 D-loop; other site 485917001305 H-loop/switch region; other site 485917001306 Beta-lactamase; Region: Beta-lactamase; cl17358 485917001307 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917001308 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 485917001309 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 485917001310 active site 485917001311 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 485917001312 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 485917001313 ATP binding site [chemical binding]; other site 485917001314 Mg2+ binding site [ion binding]; other site 485917001315 G-X-G motif; other site 485917001316 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 485917001317 ATP binding site [chemical binding]; other site 485917001318 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 485917001319 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 485917001320 Rhomboid family; Region: Rhomboid; cl11446 485917001321 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 485917001322 putative catalytic site [active] 485917001323 putative metal binding site [ion binding]; other site 485917001324 putative phosphate binding site [ion binding]; other site 485917001325 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 485917001326 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 485917001327 active site 485917001328 HIGH motif; other site 485917001329 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 485917001330 KMSKS motif; other site 485917001331 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 485917001332 tRNA binding surface [nucleotide binding]; other site 485917001333 anticodon binding site; other site 485917001334 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 485917001335 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 485917001336 active site 485917001337 catalytic site [active] 485917001338 MoxR-like ATPases [General function prediction only]; Region: COG0714 485917001339 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 485917001340 Walker A motif; other site 485917001341 ATP binding site [chemical binding]; other site 485917001342 Walker B motif; other site 485917001343 arginine finger; other site 485917001344 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 485917001345 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 485917001346 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 485917001347 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 485917001348 active site 485917001349 dimerization interface [polypeptide binding]; other site 485917001350 OstA-like protein; Region: OstA_2; pfam13100 485917001351 OstA-like protein; Region: OstA; cl00844 485917001352 OstA-like protein; Region: OstA; cl00844 485917001353 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 485917001354 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 485917001355 Ligand Binding Site [chemical binding]; other site 485917001356 TilS substrate C-terminal domain; Region: TilS_C; smart00977 485917001357 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 485917001358 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_5; cd04962 485917001359 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 485917001360 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 485917001361 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 485917001362 active site 485917001363 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 485917001364 N-acetyl-D-glucosamine binding site [chemical binding]; other site 485917001365 catalytic residue [active] 485917001366 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917001367 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001368 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917001369 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917001370 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917001371 SusD family; Region: SusD; pfam07980 485917001372 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917001373 Two component regulator propeller; Region: Reg_prop; pfam07494 485917001374 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917001375 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917001376 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 485917001377 dimer interface [polypeptide binding]; other site 485917001378 phosphorylation site [posttranslational modification] 485917001379 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 485917001380 ATP binding site [chemical binding]; other site 485917001381 Mg2+ binding site [ion binding]; other site 485917001382 G-X-G motif; other site 485917001383 Response regulator receiver domain; Region: Response_reg; pfam00072 485917001384 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 485917001385 active site 485917001386 phosphorylation site [posttranslational modification] 485917001387 intermolecular recognition site; other site 485917001388 dimerization interface [polypeptide binding]; other site 485917001389 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 485917001390 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917001391 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 485917001392 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 485917001393 putative substrate binding site [chemical binding]; other site 485917001394 active site 485917001395 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 485917001396 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 485917001397 FAD binding pocket [chemical binding]; other site 485917001398 FAD binding motif [chemical binding]; other site 485917001399 phosphate binding motif [ion binding]; other site 485917001400 beta-alpha-beta structure motif; other site 485917001401 NAD(p) ribose binding residues [chemical binding]; other site 485917001402 NAD binding pocket [chemical binding]; other site 485917001403 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 485917001404 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 485917001405 catalytic loop [active] 485917001406 iron binding site [ion binding]; other site 485917001407 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 485917001408 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 485917001409 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 485917001410 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 485917001411 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 485917001412 putative substrate binding site [chemical binding]; other site 485917001413 putative ATP binding site [chemical binding]; other site 485917001414 Anti-sigma-K factor rskA; Region: RskA; pfam10099 485917001415 putative RNA polymerase sigma E protein; Provisional; Region: PRK13919 485917001416 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917001417 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 485917001418 DNA binding residues [nucleotide binding] 485917001419 lipoyl synthase; Provisional; Region: PRK05481 485917001420 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 485917001421 FeS/SAM binding site; other site 485917001422 META domain; Region: META; pfam03724 485917001423 OsmC-like protein; Region: OsmC; pfam02566 485917001424 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917001425 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001426 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917001427 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917001428 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917001429 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917001430 BNR repeat-like domain; Region: BNR_2; pfam13088 485917001431 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917001432 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917001433 DNA binding site [nucleotide binding] 485917001434 domain linker motif; other site 485917001435 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 485917001436 dimerization interface [polypeptide binding]; other site 485917001437 ligand binding site [chemical binding]; other site 485917001438 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 485917001439 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 485917001440 active site 485917001441 NAD binding site [chemical binding]; other site 485917001442 metal binding site [ion binding]; metal-binding site 485917001443 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 485917001444 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 485917001445 inhibitor site; inhibition site 485917001446 active site 485917001447 dimer interface [polypeptide binding]; other site 485917001448 catalytic residue [active] 485917001449 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 485917001450 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 485917001451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 485917001452 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 485917001453 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 485917001454 Na binding site [ion binding]; other site 485917001455 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 485917001456 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 485917001457 homopentamer interface [polypeptide binding]; other site 485917001458 active site 485917001459 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 485917001460 dimer interface [polypeptide binding]; other site 485917001461 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917001462 catalytic triad [active] 485917001463 Thioredoxin; Region: Thioredoxin_4; pfam13462 485917001464 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 485917001465 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 485917001466 DNA-binding site [nucleotide binding]; DNA binding site 485917001467 RNA-binding motif; other site 485917001468 NAD-dependent deacetylase; Provisional; Region: PRK00481 485917001469 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 485917001470 NAD+ binding site [chemical binding]; other site 485917001471 substrate binding site [chemical binding]; other site 485917001472 Zn binding site [ion binding]; other site 485917001473 recombination protein F; Reviewed; Region: recF; PRK00064 485917001474 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917001475 Walker A/P-loop; other site 485917001476 ATP binding site [chemical binding]; other site 485917001477 Q-loop/lid; other site 485917001478 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917001479 ABC transporter signature motif; other site 485917001480 Walker B; other site 485917001481 D-loop; other site 485917001482 H-loop/switch region; other site 485917001483 Protein of unknown function (DUF721); Region: DUF721; pfam05258 485917001484 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 485917001485 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 485917001486 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 485917001487 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 485917001488 active site 485917001489 multimer interface [polypeptide binding]; other site 485917001490 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 485917001491 DHH family; Region: DHH; pfam01368 485917001492 DHHA1 domain; Region: DHHA1; pfam02272 485917001493 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 485917001494 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 485917001495 active site 485917001496 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 485917001497 active site 485917001498 homodimer interface [polypeptide binding]; other site 485917001499 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 485917001500 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 485917001501 active site residue [active] 485917001502 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 485917001503 active site residue [active] 485917001504 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917001505 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 485917001506 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 485917001507 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 485917001508 substrate binding pocket [chemical binding]; other site 485917001509 chain length determination region; other site 485917001510 substrate-Mg2+ binding site; other site 485917001511 catalytic residues [active] 485917001512 aspartate-rich region 1; other site 485917001513 active site lid residues [active] 485917001514 aspartate-rich region 2; other site 485917001515 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 485917001516 transcriptional activator RfaH; Region: RfaH; TIGR01955 485917001517 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 485917001518 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 485917001519 active site 485917001520 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485917001521 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 485917001522 inhibitor-cofactor binding pocket; inhibition site 485917001523 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917001524 catalytic residue [active] 485917001525 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 485917001526 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 485917001527 putative trimer interface [polypeptide binding]; other site 485917001528 putative active site [active] 485917001529 putative substrate binding site [chemical binding]; other site 485917001530 putative CoA binding site [chemical binding]; other site 485917001531 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917001532 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917001533 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 485917001534 MG2 domain; Region: A2M_N; pfam01835 485917001535 Alpha-2-macroglobulin family; Region: A2M; pfam00207 485917001536 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 485917001537 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 485917001538 active site 485917001539 zinc binding site [ion binding]; other site 485917001540 potential frameshift: common BLAST hit: gi|56965321|ref|YP_177053.1| lantibiotic biosynthesis protein 485917001541 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 485917001542 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 485917001543 thiopeptide-type bacteriocin biosynthesis domain; Region: thiopep_ocin; TIGR03891 485917001544 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 485917001545 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 485917001546 putative active site [active] 485917001547 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485917001548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917001549 Walker A/P-loop; other site 485917001550 ATP binding site [chemical binding]; other site 485917001551 Q-loop/lid; other site 485917001552 ABC transporter signature motif; other site 485917001553 Walker B; other site 485917001554 D-loop; other site 485917001555 H-loop/switch region; other site 485917001556 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 485917001557 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917001558 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917001559 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 485917001560 active site 485917001561 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 485917001562 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 485917001563 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917001564 SusD family; Region: SusD; pfam07980 485917001565 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917001566 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001567 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917001568 IPT/TIG domain; Region: TIG; pfam01833 485917001569 NHL repeat; Region: NHL; pfam01436 485917001570 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917001571 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 485917001572 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917001573 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 485917001574 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917001575 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001576 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917001577 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917001578 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 485917001579 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917001580 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001581 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 485917001582 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917001583 active site 485917001584 metal binding site [ion binding]; metal-binding site 485917001585 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 485917001586 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 485917001587 active site 485917001588 catalytic site [active] 485917001589 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 485917001590 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 485917001591 putative substrate translocation pore; other site 485917001592 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 485917001593 active site 485917001594 catalytic triad [active] 485917001595 oxyanion hole [active] 485917001596 Fatty acid desaturase; Region: FA_desaturase; pfam00487 485917001597 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 485917001598 putative di-iron ligands [ion binding]; other site 485917001599 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 485917001600 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 485917001601 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 485917001602 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 485917001603 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 485917001604 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485917001605 active site 485917001606 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 485917001607 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 485917001608 5S rRNA interface [nucleotide binding]; other site 485917001609 CTC domain interface [polypeptide binding]; other site 485917001610 L16 interface [polypeptide binding]; other site 485917001611 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 485917001612 putative active site [active] 485917001613 catalytic residue [active] 485917001614 Response regulator receiver domain; Region: Response_reg; pfam00072 485917001615 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 485917001616 active site 485917001617 phosphorylation site [posttranslational modification] 485917001618 intermolecular recognition site; other site 485917001619 dimerization interface [polypeptide binding]; other site 485917001620 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 485917001621 dimer interface [polypeptide binding]; other site 485917001622 phosphorylation site [posttranslational modification] 485917001623 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 485917001624 ATP binding site [chemical binding]; other site 485917001625 Mg2+ binding site [ion binding]; other site 485917001626 G-X-G motif; other site 485917001627 Response regulator receiver domain; Region: Response_reg; pfam00072 485917001628 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 485917001629 active site 485917001630 phosphorylation site [posttranslational modification] 485917001631 intermolecular recognition site; other site 485917001632 dimerization interface [polypeptide binding]; other site 485917001633 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485917001634 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485917001635 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 485917001636 CHASE3 domain; Region: CHASE3; pfam05227 485917001637 GAF domain; Region: GAF; cl17456 485917001638 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917001639 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 485917001640 dimer interface [polypeptide binding]; other site 485917001641 phosphorylation site [posttranslational modification] 485917001642 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 485917001643 ATP binding site [chemical binding]; other site 485917001644 Mg2+ binding site [ion binding]; other site 485917001645 G-X-G motif; other site 485917001646 Response regulator receiver domain; Region: Response_reg; pfam00072 485917001647 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 485917001648 active site 485917001649 phosphorylation site [posttranslational modification] 485917001650 intermolecular recognition site; other site 485917001651 dimerization interface [polypeptide binding]; other site 485917001652 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917001653 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 485917001654 active site 485917001655 phosphorylation site [posttranslational modification] 485917001656 intermolecular recognition site; other site 485917001657 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485917001658 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 485917001659 active site 485917001660 phosphorylation site [posttranslational modification] 485917001661 intermolecular recognition site; other site 485917001662 dimerization interface [polypeptide binding]; other site 485917001663 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485917001664 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 485917001665 active site 485917001666 phosphorylation site [posttranslational modification] 485917001667 intermolecular recognition site; other site 485917001668 dimerization interface [polypeptide binding]; other site 485917001669 LytTr DNA-binding domain; Region: LytTR; smart00850 485917001670 Histidine kinase; Region: His_kinase; pfam06580 485917001671 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 485917001672 ArsC family; Region: ArsC; pfam03960 485917001673 putative catalytic residues [active] 485917001674 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001675 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 485917001676 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 485917001677 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 485917001678 S17 interaction site [polypeptide binding]; other site 485917001679 S8 interaction site; other site 485917001680 16S rRNA interaction site [nucleotide binding]; other site 485917001681 streptomycin interaction site [chemical binding]; other site 485917001682 23S rRNA interaction site [nucleotide binding]; other site 485917001683 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 485917001684 30S ribosomal protein S7; Validated; Region: PRK05302 485917001685 elongation factor G; Reviewed; Region: PRK12739 485917001686 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 485917001687 G1 box; other site 485917001688 putative GEF interaction site [polypeptide binding]; other site 485917001689 GTP/Mg2+ binding site [chemical binding]; other site 485917001690 Switch I region; other site 485917001691 G2 box; other site 485917001692 G3 box; other site 485917001693 Switch II region; other site 485917001694 G4 box; other site 485917001695 G5 box; other site 485917001696 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 485917001697 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 485917001698 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 485917001699 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 485917001700 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485917001701 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 485917001702 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 485917001703 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 485917001704 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 485917001705 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 485917001706 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 485917001707 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 485917001708 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 485917001709 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 485917001710 putative translocon binding site; other site 485917001711 protein-rRNA interface [nucleotide binding]; other site 485917001712 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 485917001713 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 485917001714 G-X-X-G motif; other site 485917001715 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 485917001716 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 485917001717 23S rRNA interface [nucleotide binding]; other site 485917001718 5S rRNA interface [nucleotide binding]; other site 485917001719 putative antibiotic binding site [chemical binding]; other site 485917001720 L25 interface [polypeptide binding]; other site 485917001721 L27 interface [polypeptide binding]; other site 485917001722 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 485917001723 23S rRNA interface [nucleotide binding]; other site 485917001724 putative translocon interaction site; other site 485917001725 signal recognition particle (SRP54) interaction site; other site 485917001726 L23 interface [polypeptide binding]; other site 485917001727 trigger factor interaction site; other site 485917001728 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 485917001729 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 485917001730 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 485917001731 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 485917001732 RNA binding site [nucleotide binding]; other site 485917001733 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 485917001734 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 485917001735 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 485917001736 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 485917001737 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 485917001738 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 485917001739 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 485917001740 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 485917001741 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 485917001742 23S rRNA interface [nucleotide binding]; other site 485917001743 5S rRNA interface [nucleotide binding]; other site 485917001744 L27 interface [polypeptide binding]; other site 485917001745 L5 interface [polypeptide binding]; other site 485917001746 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 485917001747 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 485917001748 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 485917001749 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 485917001750 23S rRNA binding site [nucleotide binding]; other site 485917001751 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 485917001752 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 485917001753 SecY translocase; Region: SecY; pfam00344 485917001754 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 485917001755 active site 485917001756 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 485917001757 rRNA binding site [nucleotide binding]; other site 485917001758 predicted 30S ribosome binding site; other site 485917001759 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 485917001760 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 485917001761 30S ribosomal protein S13; Region: bact_S13; TIGR03631 485917001762 30S ribosomal protein S11; Validated; Region: PRK05309 485917001763 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 485917001764 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 485917001765 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 485917001766 RNA binding surface [nucleotide binding]; other site 485917001767 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 485917001768 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 485917001769 alphaNTD homodimer interface [polypeptide binding]; other site 485917001770 alphaNTD - beta interaction site [polypeptide binding]; other site 485917001771 alphaNTD - beta' interaction site [polypeptide binding]; other site 485917001772 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 485917001773 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 485917001774 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 485917001775 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485917001776 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 485917001777 S-adenosylmethionine binding site [chemical binding]; other site 485917001778 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 485917001779 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 485917001780 nucleotide binding site [chemical binding]; other site 485917001781 NEF interaction site [polypeptide binding]; other site 485917001782 SBD interface [polypeptide binding]; other site 485917001783 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 485917001784 active site 485917001785 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 485917001786 Domain of unknown function DUF87; Region: DUF87; pfam01935 485917001787 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 485917001788 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 485917001789 oligomer interface [polypeptide binding]; other site 485917001790 active site 485917001791 metal binding site [ion binding]; metal-binding site 485917001792 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917001793 Coenzyme A binding pocket [chemical binding]; other site 485917001794 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 485917001795 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917001796 putative substrate translocation pore; other site 485917001797 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 485917001798 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 485917001799 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 485917001800 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 485917001801 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 485917001802 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 485917001803 Sulfate transporter family; Region: Sulfate_transp; pfam00916 485917001804 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_cladeA; cd00883 485917001805 active site clefts [active] 485917001806 zinc binding site [ion binding]; other site 485917001807 dimer interface [polypeptide binding]; other site 485917001808 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 485917001809 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 485917001810 Glutamate binding site [chemical binding]; other site 485917001811 NAD binding site [chemical binding]; other site 485917001812 catalytic residues [active] 485917001813 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 485917001814 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 485917001815 purine nucleoside phosphorylase; Provisional; Region: PRK08202 485917001816 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 485917001817 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 485917001818 nudix motif; other site 485917001819 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 485917001820 active site 485917001821 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 485917001822 MutS domain III; Region: MutS_III; pfam05192 485917001823 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917001824 Walker A/P-loop; other site 485917001825 ATP binding site [chemical binding]; other site 485917001826 Q-loop/lid; other site 485917001827 ABC transporter signature motif; other site 485917001828 Walker B; other site 485917001829 D-loop; other site 485917001830 H-loop/switch region; other site 485917001831 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 485917001832 beta-galactosidase; Region: BGL; TIGR03356 485917001833 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 485917001834 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 485917001835 aconitate hydratase; Validated; Region: PRK07229 485917001836 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 485917001837 substrate binding site [chemical binding]; other site 485917001838 ligand binding site [chemical binding]; other site 485917001839 Mitochondrial aconitase A swivel domain. Aconitase (also known as aconitate hydratase and citrate hydro-lyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes...; Region: AcnA_Mitochon_Swivel; cd01578 485917001840 substrate binding site [chemical binding]; other site 485917001841 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 485917001842 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 485917001843 NodB motif; other site 485917001844 active site 485917001845 catalytic site [active] 485917001846 metal binding site [ion binding]; metal-binding site 485917001847 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 485917001848 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917001849 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917001850 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917001851 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 485917001852 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 485917001853 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 485917001854 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 485917001855 DEAD-like helicases superfamily; Region: DEXDc; smart00487 485917001856 ATP binding site [chemical binding]; other site 485917001857 Mg++ binding site [ion binding]; other site 485917001858 motif III; other site 485917001859 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 485917001860 nucleotide binding region [chemical binding]; other site 485917001861 ATP-binding site [chemical binding]; other site 485917001862 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 485917001863 RNA binding site [nucleotide binding]; other site 485917001864 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 485917001865 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 485917001866 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 485917001867 dimerization interface 3.5A [polypeptide binding]; other site 485917001868 active site 485917001869 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485917001870 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485917001871 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 485917001872 Walker A/P-loop; other site 485917001873 ATP binding site [chemical binding]; other site 485917001874 Q-loop/lid; other site 485917001875 ABC transporter signature motif; other site 485917001876 Walker B; other site 485917001877 D-loop; other site 485917001878 H-loop/switch region; other site 485917001879 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 485917001880 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 485917001881 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 485917001882 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 485917001883 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 485917001884 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 485917001885 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 485917001886 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 485917001887 NodB motif; other site 485917001888 active site 485917001889 catalytic site [active] 485917001890 metal binding site [ion binding]; metal-binding site 485917001891 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917001892 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917001893 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917001894 RibD C-terminal domain; Region: RibD_C; cl17279 485917001895 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 485917001896 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917001897 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 485917001898 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917001899 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 485917001900 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917001901 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 485917001902 putative substrate translocation pore; other site 485917001903 hypothetical protein; Provisional; Region: PRK02947 485917001904 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 485917001905 putative active site [active] 485917001906 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917001907 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 485917001908 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917001909 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 485917001910 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 485917001911 substrate binding pocket [chemical binding]; other site 485917001912 membrane-bound complex binding site; other site 485917001913 hinge residues; other site 485917001914 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 485917001915 CoA binding domain; Region: CoA_binding; smart00881 485917001916 CoA-ligase; Region: Ligase_CoA; pfam00549 485917001917 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 485917001918 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 485917001919 methionine sulfoxide reductase B; Provisional; Region: PRK05508 485917001920 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 485917001921 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 485917001922 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 485917001923 dimer interface [polypeptide binding]; other site 485917001924 putative radical transfer pathway; other site 485917001925 diiron center [ion binding]; other site 485917001926 tyrosyl radical; other site 485917001927 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 485917001928 ATP cone domain; Region: ATP-cone; pfam03477 485917001929 Class I ribonucleotide reductase; Region: RNR_I; cd01679 485917001930 active site 485917001931 dimer interface [polypeptide binding]; other site 485917001932 catalytic residues [active] 485917001933 effector binding site; other site 485917001934 R2 peptide binding site; other site 485917001935 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 485917001936 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 485917001937 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 485917001938 putative active site; other site 485917001939 catalytic triad [active] 485917001940 putative dimer interface [polypeptide binding]; other site 485917001941 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 485917001942 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 485917001943 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 485917001944 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 485917001945 NAD(P) binding site [chemical binding]; other site 485917001946 homotetramer interface [polypeptide binding]; other site 485917001947 homodimer interface [polypeptide binding]; other site 485917001948 active site 485917001949 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 485917001950 Predicted membrane protein [Function unknown]; Region: COG2860 485917001951 UPF0126 domain; Region: UPF0126; pfam03458 485917001952 UPF0126 domain; Region: UPF0126; pfam03458 485917001953 Septum formation initiator; Region: DivIC; pfam04977 485917001954 enolase; Provisional; Region: eno; PRK00077 485917001955 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 485917001956 dimer interface [polypeptide binding]; other site 485917001957 metal binding site [ion binding]; metal-binding site 485917001958 substrate binding pocket [chemical binding]; other site 485917001959 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 485917001960 amphipathic channel; other site 485917001961 Asn-Pro-Ala signature motifs; other site 485917001962 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 485917001963 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 485917001964 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 485917001965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917001966 Walker A/P-loop; other site 485917001967 ATP binding site [chemical binding]; other site 485917001968 Q-loop/lid; other site 485917001969 ABC transporter signature motif; other site 485917001970 Walker B; other site 485917001971 D-loop; other site 485917001972 H-loop/switch region; other site 485917001973 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 485917001974 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 485917001975 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 485917001976 catalytic site [active] 485917001977 subunit interface [polypeptide binding]; other site 485917001978 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 485917001979 active site 485917001980 oligomerization interface [polypeptide binding]; other site 485917001981 metal binding site [ion binding]; metal-binding site 485917001982 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 485917001983 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 485917001984 active site 485917001985 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917001986 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917001987 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 485917001988 DNA binding residues [nucleotide binding] 485917001989 FecR protein; Region: FecR; pfam04773 485917001990 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917001991 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917001992 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917001993 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917001994 SusD family; Region: SusD; pfam07980 485917001995 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 485917001996 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 485917001997 Interdomain contacts; other site 485917001998 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 485917001999 He_PIG associated, NEW1 domain of bacterial glycohydrolase; Region: He_PIG_assoc; pfam10632 485917002000 Putative Ig domain; Region: He_PIG; pfam05345 485917002001 alpha-galactosidase; Region: PLN02229 485917002002 alpha-galactosidase; Region: PLN02808; cl17638 485917002003 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 485917002004 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 485917002005 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917002006 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917002007 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 485917002008 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 485917002009 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 485917002010 DNA binding site [nucleotide binding] 485917002011 active site 485917002012 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 485917002013 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917002014 catalytic residues [active] 485917002015 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917002016 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917002017 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 485917002018 DNA binding residues [nucleotide binding] 485917002019 FecR protein; Region: FecR; pfam04773 485917002020 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002021 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002022 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002023 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917002024 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917002025 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002026 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 485917002027 active site 485917002028 HPP family; Region: HPP; pfam04982 485917002029 Trehalose utilisation; Region: ThuA; pfam06283 485917002030 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917002031 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 485917002032 N-terminal plug; other site 485917002033 ligand-binding site [chemical binding]; other site 485917002034 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917002035 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002036 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917002037 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 485917002038 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 485917002039 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 485917002040 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 485917002041 Walker A motif; other site 485917002042 ATP binding site [chemical binding]; other site 485917002043 Walker B motif; other site 485917002044 arginine finger; other site 485917002045 Cupin domain; Region: Cupin_2; pfam07883 485917002046 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917002047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917002048 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 485917002049 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 485917002050 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 485917002051 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 485917002052 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 485917002053 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 485917002054 Transglycosylase; Region: Transgly; cl17702 485917002055 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 485917002056 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485917002057 Cysteine-rich domain; Region: CCG; pfam02754 485917002058 Cysteine-rich domain; Region: CCG; pfam02754 485917002059 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485917002060 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 485917002061 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 485917002062 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 485917002063 ligand binding site [chemical binding]; other site 485917002064 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 485917002065 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917002066 DNA-binding site [nucleotide binding]; DNA binding site 485917002067 UTRA domain; Region: UTRA; pfam07702 485917002068 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002069 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002070 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002071 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917002072 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917002073 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002074 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 485917002075 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 485917002076 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 485917002077 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 485917002078 putative substrate translocation pore; other site 485917002079 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 485917002080 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917002081 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917002082 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917002083 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 485917002084 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 485917002085 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 485917002086 binding surface 485917002087 TPR motif; other site 485917002088 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917002089 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917002090 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 485917002091 dimer interface [polypeptide binding]; other site 485917002092 phosphorylation site [posttranslational modification] 485917002093 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 485917002094 ATP binding site [chemical binding]; other site 485917002095 Mg2+ binding site [ion binding]; other site 485917002096 G-X-G motif; other site 485917002097 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002098 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 485917002099 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 485917002100 N-terminal plug; other site 485917002101 ligand-binding site [chemical binding]; other site 485917002102 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 485917002103 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 485917002104 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 485917002105 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917002106 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917002107 active site 485917002108 metal binding site [ion binding]; metal-binding site 485917002109 DinB superfamily; Region: DinB_2; pfam12867 485917002110 DinB family; Region: DinB; cl17821 485917002111 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 485917002112 Ligand Binding Site [chemical binding]; other site 485917002113 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 485917002114 Ligand Binding Site [chemical binding]; other site 485917002115 TM1410 hypothetical-related protein; Region: DUF297; cl00997 485917002116 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 485917002117 active site 485917002118 catalytic triad [active] 485917002119 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002120 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002121 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917002122 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917002123 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002124 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 485917002125 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 485917002126 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 485917002127 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 485917002128 active site 485917002129 trimer interface [polypeptide binding]; other site 485917002130 allosteric site; other site 485917002131 active site lid [active] 485917002132 hexamer (dimer of trimers) interface [polypeptide binding]; other site 485917002133 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917002134 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917002135 L-fucose transporter; Provisional; Region: PRK10133; cl17665 485917002136 glucose/galactose transporter; Region: gluP; TIGR01272 485917002137 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917002138 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917002139 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 485917002140 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 485917002141 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 485917002142 active site 485917002143 dimer interface [polypeptide binding]; other site 485917002144 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917002145 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917002146 DNA binding site [nucleotide binding] 485917002147 domain linker motif; other site 485917002148 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 485917002149 dimerization interface [polypeptide binding]; other site 485917002150 ligand binding site [chemical binding]; other site 485917002151 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 485917002152 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 485917002153 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 485917002154 DNA binding site [nucleotide binding] 485917002155 active site 485917002156 protease3; Provisional; Region: PRK15101 485917002157 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917002158 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917002159 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917002160 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917002161 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 485917002162 dimer interface [polypeptide binding]; other site 485917002163 phosphorylation site [posttranslational modification] 485917002164 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 485917002165 ATP binding site [chemical binding]; other site 485917002166 Mg2+ binding site [ion binding]; other site 485917002167 G-X-G motif; other site 485917002168 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485917002169 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 485917002170 active site 485917002171 phosphorylation site [posttranslational modification] 485917002172 intermolecular recognition site; other site 485917002173 dimerization interface [polypeptide binding]; other site 485917002174 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917002175 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917002176 Lyase, N terminal; Region: Lyase_N; pfam09092 485917002177 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 485917002178 substrate binding site [chemical binding]; other site 485917002179 catalytic residues [active] 485917002180 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917002181 Sulfatase; Region: Sulfatase; pfam00884 485917002182 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 485917002183 substrate binding site [chemical binding]; other site 485917002184 catalytic residues [active] 485917002185 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002186 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002187 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002188 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917002189 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917002190 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002191 SusD family; Region: SusD; pfam07980 485917002192 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917002193 GAF domain; Region: GAF; pfam01590 485917002194 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917002195 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 485917002196 dimer interface [polypeptide binding]; other site 485917002197 phosphorylation site [posttranslational modification] 485917002198 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 485917002199 ATP binding site [chemical binding]; other site 485917002200 Mg2+ binding site [ion binding]; other site 485917002201 G-X-G motif; other site 485917002202 Response regulator receiver domain; Region: Response_reg; pfam00072 485917002203 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 485917002204 active site 485917002205 phosphorylation site [posttranslational modification] 485917002206 intermolecular recognition site; other site 485917002207 dimerization interface [polypeptide binding]; other site 485917002208 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 485917002209 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 485917002210 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 485917002211 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 485917002212 mce related protein; Region: MCE; pfam02470 485917002213 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 485917002214 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 485917002215 Walker A/P-loop; other site 485917002216 ATP binding site [chemical binding]; other site 485917002217 Q-loop/lid; other site 485917002218 ABC transporter signature motif; other site 485917002219 Walker B; other site 485917002220 D-loop; other site 485917002221 H-loop/switch region; other site 485917002222 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 485917002223 Permease; Region: Permease; pfam02405 485917002224 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485917002225 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 485917002226 S-adenosylmethionine binding site [chemical binding]; other site 485917002227 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 485917002228 Ferritin-like domain; Region: Ferritin; pfam00210 485917002229 ferroxidase diiron center [ion binding]; other site 485917002230 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 485917002231 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 485917002232 thymidine kinase; Provisional; Region: PRK04296 485917002233 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 485917002234 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 485917002235 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 485917002236 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 485917002237 rod shape-determining protein MreC; Provisional; Region: PRK13922 485917002238 rod shape-determining protein MreC; Region: MreC; pfam04085 485917002239 rod shape-determining protein MreB; Provisional; Region: PRK13927 485917002240 MreB and similar proteins; Region: MreB_like; cd10225 485917002241 nucleotide binding site [chemical binding]; other site 485917002242 Mg binding site [ion binding]; other site 485917002243 putative protofilament interaction site [polypeptide binding]; other site 485917002244 RodZ interaction site [polypeptide binding]; other site 485917002245 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 485917002246 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 485917002247 purine monophosphate binding site [chemical binding]; other site 485917002248 dimer interface [polypeptide binding]; other site 485917002249 putative catalytic residues [active] 485917002250 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 485917002251 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 485917002252 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 485917002253 active site 485917002254 substrate binding site [chemical binding]; other site 485917002255 cosubstrate binding site; other site 485917002256 catalytic site [active] 485917002257 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 485917002258 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 485917002259 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 485917002260 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 485917002261 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 485917002262 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917002263 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 485917002264 N-terminal plug; other site 485917002265 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 485917002266 ligand-binding site [chemical binding]; other site 485917002267 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 485917002268 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 485917002269 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 485917002270 hypothetical protein; Reviewed; Region: PRK00024 485917002271 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 485917002272 MPN+ (JAMM) motif; other site 485917002273 Zinc-binding site [ion binding]; other site 485917002274 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 485917002275 putative catalytic site [active] 485917002276 putative metal binding site [ion binding]; other site 485917002277 putative phosphate binding site [ion binding]; other site 485917002278 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 485917002279 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 485917002280 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 485917002281 FeS/SAM binding site; other site 485917002282 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 485917002283 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 485917002284 putative tRNA-binding site [nucleotide binding]; other site 485917002285 B3/4 domain; Region: B3_4; pfam03483 485917002286 tRNA synthetase B5 domain; Region: B5; pfam03484 485917002287 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 485917002288 dimer interface [polypeptide binding]; other site 485917002289 motif 1; other site 485917002290 motif 3; other site 485917002291 motif 2; other site 485917002292 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 485917002293 Cell division protein ZapA; Region: ZapA; pfam05164 485917002294 phosphodiesterase; Provisional; Region: PRK12704 485917002295 KH domain; Region: KH_1; pfam00013 485917002296 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485917002297 Zn2+ binding site [ion binding]; other site 485917002298 Mg2+ binding site [ion binding]; other site 485917002299 Protein of unknown function (DUF962); Region: DUF962; cl01879 485917002300 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002301 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 485917002302 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 485917002303 N-terminal plug; other site 485917002304 ligand-binding site [chemical binding]; other site 485917002305 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 485917002306 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 485917002307 putative acyl-acceptor binding pocket; other site 485917002308 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 485917002309 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 485917002310 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 485917002311 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 485917002312 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485917002313 active site 485917002314 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 485917002315 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 485917002316 active site 485917002317 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 485917002318 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 485917002319 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 485917002320 active site 485917002321 DNA binding site [nucleotide binding] 485917002322 Int/Topo IB signature motif; other site 485917002323 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 485917002324 30S subunit binding site; other site 485917002325 elongation factor Tu; Reviewed; Region: PRK12735 485917002326 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 485917002327 G1 box; other site 485917002328 GEF interaction site [polypeptide binding]; other site 485917002329 GTP/Mg2+ binding site [chemical binding]; other site 485917002330 Switch I region; other site 485917002331 G2 box; other site 485917002332 G3 box; other site 485917002333 Switch II region; other site 485917002334 G4 box; other site 485917002335 G5 box; other site 485917002336 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 485917002337 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 485917002338 Antibiotic Binding Site [chemical binding]; other site 485917002339 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 485917002340 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 485917002341 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 485917002342 putative homodimer interface [polypeptide binding]; other site 485917002343 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 485917002344 heterodimer interface [polypeptide binding]; other site 485917002345 homodimer interface [polypeptide binding]; other site 485917002346 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 485917002347 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 485917002348 23S rRNA interface [nucleotide binding]; other site 485917002349 L7/L12 interface [polypeptide binding]; other site 485917002350 putative thiostrepton binding site; other site 485917002351 L25 interface [polypeptide binding]; other site 485917002352 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 485917002353 mRNA/rRNA interface [nucleotide binding]; other site 485917002354 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 485917002355 23S rRNA interface [nucleotide binding]; other site 485917002356 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 485917002357 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 485917002358 core dimer interface [polypeptide binding]; other site 485917002359 peripheral dimer interface [polypeptide binding]; other site 485917002360 L10 interface [polypeptide binding]; other site 485917002361 L11 interface [polypeptide binding]; other site 485917002362 putative EF-Tu interaction site [polypeptide binding]; other site 485917002363 putative EF-G interaction site [polypeptide binding]; other site 485917002364 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 485917002365 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 485917002366 Vacuolar sorting protein 39 domain 1; Region: Vps39_1; pfam10366 485917002367 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 485917002368 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 485917002369 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 485917002370 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 485917002371 RPB3 interaction site [polypeptide binding]; other site 485917002372 RPB1 interaction site [polypeptide binding]; other site 485917002373 RPB11 interaction site [polypeptide binding]; other site 485917002374 RPB10 interaction site [polypeptide binding]; other site 485917002375 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 485917002376 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 485917002377 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 485917002378 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 485917002379 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 485917002380 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 485917002381 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 485917002382 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 485917002383 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 485917002384 DNA binding site [nucleotide binding] 485917002385 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 485917002386 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 485917002387 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 485917002388 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 485917002389 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 485917002390 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 485917002391 active site 485917002392 NTP binding site [chemical binding]; other site 485917002393 metal binding triad [ion binding]; metal-binding site 485917002394 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 485917002395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485917002396 Zn2+ binding site [ion binding]; other site 485917002397 Mg2+ binding site [ion binding]; other site 485917002398 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 485917002399 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 485917002400 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 485917002401 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917002402 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917002403 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 485917002404 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 485917002405 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 485917002406 trimer interface [polypeptide binding]; other site 485917002407 active site 485917002408 substrate binding site [chemical binding]; other site 485917002409 CoA binding site [chemical binding]; other site 485917002410 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 485917002411 RNA binding surface [nucleotide binding]; other site 485917002412 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 485917002413 nucleoside/Zn binding site; other site 485917002414 dimer interface [polypeptide binding]; other site 485917002415 catalytic motif [active] 485917002416 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 485917002417 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 485917002418 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 485917002419 ATP binding site [chemical binding]; other site 485917002420 Mg2+ binding site [ion binding]; other site 485917002421 G-X-G motif; other site 485917002422 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 485917002423 anchoring element; other site 485917002424 dimer interface [polypeptide binding]; other site 485917002425 ATP binding site [chemical binding]; other site 485917002426 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 485917002427 active site 485917002428 putative metal-binding site [ion binding]; other site 485917002429 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 485917002430 Aspartyl protease; Region: Asp_protease_2; pfam13650 485917002431 inhibitor binding site; inhibition site 485917002432 catalytic motif [active] 485917002433 Catalytic residue [active] 485917002434 Active site flap [active] 485917002435 malate dehydrogenase; Reviewed; Region: PRK06223 485917002436 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 485917002437 NAD(P) binding site [chemical binding]; other site 485917002438 dimer interface [polypeptide binding]; other site 485917002439 tetramer (dimer of dimers) interface [polypeptide binding]; other site 485917002440 substrate binding site [chemical binding]; other site 485917002441 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 485917002442 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 485917002443 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 485917002444 active site 485917002445 catalytic site [active] 485917002446 substrate binding site [chemical binding]; other site 485917002447 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 485917002448 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 485917002449 active site 485917002450 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 485917002451 generic binding surface I; other site 485917002452 generic binding surface II; other site 485917002453 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 485917002454 catalytic residues [active] 485917002455 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 485917002456 Protein of unknown function DUF58; Region: DUF58; pfam01882 485917002457 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 485917002458 metal ion-dependent adhesion site (MIDAS); other site 485917002459 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 485917002460 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 485917002461 inhibitor-cofactor binding pocket; inhibition site 485917002462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917002463 catalytic residue [active] 485917002464 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917002465 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917002466 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 485917002467 DNA binding residues [nucleotide binding] 485917002468 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 485917002469 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 485917002470 PYR/PP interface [polypeptide binding]; other site 485917002471 dimer interface [polypeptide binding]; other site 485917002472 TPP binding site [chemical binding]; other site 485917002473 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485917002474 transketolase; Reviewed; Region: PRK05899 485917002475 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 485917002476 TPP-binding site [chemical binding]; other site 485917002477 dimer interface [polypeptide binding]; other site 485917002478 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917002479 L-fucose transporter; Provisional; Region: PRK10133; cl17665 485917002480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917002481 HAMP domain; Region: HAMP; pfam00672 485917002482 dimerization interface [polypeptide binding]; other site 485917002483 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 485917002484 dimer interface [polypeptide binding]; other site 485917002485 phosphorylation site [posttranslational modification] 485917002486 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 485917002487 ATP binding site [chemical binding]; other site 485917002488 Mg2+ binding site [ion binding]; other site 485917002489 G-X-G motif; other site 485917002490 Response regulator receiver domain; Region: Response_reg; pfam00072 485917002491 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 485917002492 active site 485917002493 phosphorylation site [posttranslational modification] 485917002494 intermolecular recognition site; other site 485917002495 dimerization interface [polypeptide binding]; other site 485917002496 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 485917002497 putative catalytic site [active] 485917002498 putative phosphate binding site [ion binding]; other site 485917002499 active site 485917002500 metal binding site A [ion binding]; metal-binding site 485917002501 DNA binding site [nucleotide binding] 485917002502 putative AP binding site [nucleotide binding]; other site 485917002503 putative metal binding site B [ion binding]; other site 485917002504 RibD C-terminal domain; Region: RibD_C; cl17279 485917002505 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 485917002506 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 485917002507 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917002508 catalytic triad [active] 485917002509 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 485917002510 Peptidase family M23; Region: Peptidase_M23; pfam01551 485917002511 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 485917002512 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 485917002513 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 485917002514 K+ potassium transporter; Region: K_trans; pfam02705 485917002515 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 485917002516 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 485917002517 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917002518 Uncharacterized conserved protein [Function unknown]; Region: COG1262 485917002519 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 485917002520 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485917002521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917002522 NAD(P) binding site [chemical binding]; other site 485917002523 active site 485917002524 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917002525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917002526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917002527 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 485917002528 G1 box; other site 485917002529 Walker A/P-loop; other site 485917002530 GTP/Mg2+ binding site [chemical binding]; other site 485917002531 ATP binding site [chemical binding]; other site 485917002532 G2 box; other site 485917002533 Switch I region; other site 485917002534 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 485917002535 AAA domain; Region: AAA_12; pfam13087 485917002536 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 485917002537 GIY-YIG motif/motif A; other site 485917002538 putative active site [active] 485917002539 putative metal binding site [ion binding]; other site 485917002540 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 485917002541 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917002542 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 485917002543 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 485917002544 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917002545 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917002546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917002547 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 485917002548 DNA binding residues [nucleotide binding] 485917002549 Fic family protein [Function unknown]; Region: COG3177 485917002550 Fic/DOC family; Region: Fic; pfam02661 485917002551 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 485917002552 FecR protein; Region: FecR; pfam04773 485917002553 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917002554 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002555 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002556 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002557 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917002558 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917002559 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002560 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 485917002561 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917002562 catalytic residues [active] 485917002563 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 485917002564 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 485917002565 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917002566 catalytic residues [active] 485917002567 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485917002568 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 485917002569 non-specific DNA binding site [nucleotide binding]; other site 485917002570 salt bridge; other site 485917002571 sequence-specific DNA binding site [nucleotide binding]; other site 485917002572 KilA-N domain; Region: KilA-N; pfam04383 485917002573 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917002574 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; cl00047 485917002575 TIGR02594 family protein; Region: TIGR02594 485917002576 NlpC/P60 family; Region: NLPC_P60; cl17555 485917002577 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 485917002578 homodimer interface [polypeptide binding]; other site 485917002579 chemical substrate binding site [chemical binding]; other site 485917002580 oligomer interface [polypeptide binding]; other site 485917002581 metal binding site [ion binding]; metal-binding site 485917002582 Part of AAA domain; Region: AAA_19; pfam13245 485917002583 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 485917002584 Uncharacterized conserved protein [Function unknown]; Region: COG3410 485917002585 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 485917002586 additional DNA contacts [nucleotide binding]; other site 485917002587 mismatch recognition site; other site 485917002588 active site 485917002589 zinc binding site [ion binding]; other site 485917002590 DNA intercalation site [nucleotide binding]; other site 485917002591 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 485917002592 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 485917002593 cofactor binding site; other site 485917002594 DNA binding site [nucleotide binding] 485917002595 substrate interaction site [chemical binding]; other site 485917002596 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 485917002597 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 485917002598 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 485917002599 cofactor binding site; other site 485917002600 DNA binding site [nucleotide binding] 485917002601 substrate interaction site [chemical binding]; other site 485917002602 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 485917002603 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 485917002604 ATP binding site [chemical binding]; other site 485917002605 Mg2+ binding site [ion binding]; other site 485917002606 G-X-G motif; other site 485917002607 potential frameshift: common BLAST hit: gi|147919342|ref|YP_686922.1| endonuclease 485917002608 Z1 domain; Region: Z1; pfam10593 485917002609 Z1 domain; Region: Z1; pfam10593 485917002610 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 485917002611 AIPR protein; Region: AIPR; pfam10592 485917002612 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917002613 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 485917002614 DNA binding site [nucleotide binding] 485917002615 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 485917002616 conserved cys residue [active] 485917002617 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917002618 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917002619 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485917002620 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 485917002621 S-adenosylmethionine binding site [chemical binding]; other site 485917002622 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 485917002623 binding surface 485917002624 TPR motif; other site 485917002625 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 485917002626 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485917002627 Predicted flavoprotein [General function prediction only]; Region: COG0431 485917002628 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917002629 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917002630 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 485917002631 DNA binding residues [nucleotide binding] 485917002632 FecR protein; Region: FecR; pfam04773 485917002633 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002634 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002635 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002636 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917002637 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 485917002638 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917002639 catalytic residues [active] 485917002640 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917002641 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002642 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917002643 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917002644 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 485917002645 DNA binding residues [nucleotide binding] 485917002646 FecR protein; Region: FecR; pfam04773 485917002647 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917002648 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002649 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002650 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917002651 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917002652 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917002653 SusD family; Region: SusD; pfam07980 485917002654 SusD family; Region: SusD; pfam07980 485917002655 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917002656 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917002657 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 485917002658 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 485917002659 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 485917002660 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917002661 Domain of unknown function (DUF718); Region: DUF718; pfam05336 485917002662 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 485917002663 hypothetical protein; Provisional; Region: PRK11770 485917002664 Domain of unknown function (DUF307); Region: DUF307; pfam03733 485917002665 Domain of unknown function (DUF307); Region: DUF307; pfam03733 485917002666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 485917002667 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 485917002668 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917002669 Beta-lactamase; Region: Beta-lactamase; pfam00144 485917002670 amino acid transporter; Region: 2A0306; TIGR00909 485917002671 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 485917002672 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 485917002673 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 485917002674 active site 485917002675 Zn binding site [ion binding]; other site 485917002676 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 485917002677 UbiA prenyltransferase family; Region: UbiA; pfam01040 485917002678 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 485917002679 G1 box; other site 485917002680 GTP/Mg2+ binding site [chemical binding]; other site 485917002681 Switch I region; other site 485917002682 G2 box; other site 485917002683 G3 box; other site 485917002684 Switch II region; other site 485917002685 G4 box; other site 485917002686 G5 box; other site 485917002687 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 485917002688 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 485917002689 S-adenosylmethionine binding site [chemical binding]; other site 485917002690 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917002691 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 485917002692 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 485917002693 putative NAD(P) binding site [chemical binding]; other site 485917002694 homodimer interface [polypeptide binding]; other site 485917002695 homotetramer interface [polypeptide binding]; other site 485917002696 active site 485917002697 Yqey-like protein; Region: YqeY; cl17540 485917002698 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917002699 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 485917002700 FOG: CBS domain [General function prediction only]; Region: COG0517 485917002701 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 485917002702 ATP-NAD kinase; Region: NAD_kinase; pfam01513 485917002703 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 485917002704 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 485917002705 catalytic residue [active] 485917002706 putative FPP diphosphate binding site; other site 485917002707 putative FPP binding hydrophobic cleft; other site 485917002708 dimer interface [polypeptide binding]; other site 485917002709 putative IPP diphosphate binding site; other site 485917002710 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 485917002711 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 485917002712 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 485917002713 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 485917002714 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 485917002715 Surface antigen; Region: Bac_surface_Ag; pfam01103 485917002716 periplasmic chaperone; Provisional; Region: PRK10780 485917002717 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 485917002718 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 485917002719 periplasmic chaperone; Provisional; Region: PRK10780 485917002720 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 485917002721 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 485917002722 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 485917002723 catalytic motif [active] 485917002724 Zn binding site [ion binding]; other site 485917002725 GMP synthase; Reviewed; Region: guaA; PRK00074 485917002726 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 485917002727 AMP/PPi binding site [chemical binding]; other site 485917002728 candidate oxyanion hole; other site 485917002729 catalytic triad [active] 485917002730 potential glutamine specificity residues [chemical binding]; other site 485917002731 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 485917002732 ATP Binding subdomain [chemical binding]; other site 485917002733 Ligand Binding sites [chemical binding]; other site 485917002734 Dimerization subdomain; other site 485917002735 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 485917002736 ligand binding site [chemical binding]; other site 485917002737 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 485917002738 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 485917002739 MarC family integral membrane protein; Region: MarC; pfam01914 485917002740 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002741 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002742 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002743 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917002744 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917002745 SusD family; Region: SusD; pfam07980 485917002746 amino acid transporter; Region: 2A0306; TIGR00909 485917002747 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 485917002748 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 485917002749 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 485917002750 amino acid transporter; Region: 2A0306; TIGR00909 485917002751 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917002752 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917002753 ligand binding site [chemical binding]; other site 485917002754 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 485917002755 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 485917002756 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 485917002757 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 485917002758 Protein of unknown function (DUF458); Region: DUF458; cl00861 485917002759 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 485917002760 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 485917002761 ATP binding site [chemical binding]; other site 485917002762 putative Mg++ binding site [ion binding]; other site 485917002763 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 485917002764 nucleotide binding region [chemical binding]; other site 485917002765 ATP-binding site [chemical binding]; other site 485917002766 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 485917002767 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 485917002768 PAS domain S-box; Region: sensory_box; TIGR00229 485917002769 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 485917002770 putative active site [active] 485917002771 heme pocket [chemical binding]; other site 485917002772 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 485917002773 phosphorylation site [posttranslational modification] 485917002774 dimer interface [polypeptide binding]; other site 485917002775 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917002776 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917002777 DNA binding site [nucleotide binding] 485917002778 domain linker motif; other site 485917002779 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 485917002780 dimerization interface [polypeptide binding]; other site 485917002781 ligand binding site [chemical binding]; other site 485917002782 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002783 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002784 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002785 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917002786 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917002787 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917002788 SusD family; Region: SusD; pfam07980 485917002789 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917002790 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 485917002791 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917002792 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 485917002793 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917002794 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917002795 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917002796 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917002797 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 485917002798 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917002799 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917002800 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 485917002801 D-galactonate transporter; Region: 2A0114; TIGR00893 485917002802 putative substrate translocation pore; other site 485917002803 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917002804 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917002805 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917002806 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 485917002807 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 485917002808 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 485917002809 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 485917002810 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917002811 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917002812 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917002813 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002814 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002815 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917002816 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917002817 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 485917002818 FecR protein; Region: FecR; pfam04773 485917002819 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917002820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917002821 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 485917002822 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 485917002823 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 485917002824 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 485917002825 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 485917002826 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 485917002827 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 485917002828 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 485917002829 Fibronectin type 3 domain; Region: FN3; smart00060 485917002830 Cadherin repeat-like domain; Region: CA_like; cl15786 485917002831 Ca2+ binding site [ion binding]; other site 485917002832 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917002833 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 485917002834 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 485917002835 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 485917002836 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917002837 nucleotide binding site [chemical binding]; other site 485917002838 Putative esterase; Region: Esterase; pfam00756 485917002839 S-formylglutathione hydrolase; Region: PLN02442 485917002840 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917002841 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485917002842 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 485917002843 DNA binding residues [nucleotide binding] 485917002844 dimerization interface [polypeptide binding]; other site 485917002845 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485917002846 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 485917002847 active site 485917002848 phosphorylation site [posttranslational modification] 485917002849 intermolecular recognition site; other site 485917002850 dimerization interface [polypeptide binding]; other site 485917002851 LytTr DNA-binding domain; Region: LytTR; pfam04397 485917002852 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485917002853 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 485917002854 ParB-like nuclease domain; Region: ParB; smart00470 485917002855 indole-3-acetic acid-amido synthetase; Region: PLN02620 485917002856 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 485917002857 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917002858 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917002859 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917002860 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 485917002861 DNA binding residues [nucleotide binding] 485917002862 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 485917002863 AAA domain; Region: AAA_14; pfam13173 485917002864 FecR protein; Region: FecR; pfam04773 485917002865 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917002866 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002867 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002868 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002869 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 485917002870 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917002871 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917002872 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917002873 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002874 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 485917002875 catalytic residues [active] 485917002876 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 485917002877 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 485917002878 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917002879 catalytic residues [active] 485917002880 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917002881 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 485917002882 ligand binding site [chemical binding]; other site 485917002883 flexible hinge region; other site 485917002884 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 485917002885 hydrophobic ligand binding site; other site 485917002886 Methylamine utilisation protein MauE; Region: MauE; pfam07291 485917002887 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485917002888 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 485917002889 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 485917002890 Walker A motif; other site 485917002891 ATP binding site [chemical binding]; other site 485917002892 Walker B motif; other site 485917002893 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 485917002894 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 485917002895 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 485917002896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 485917002897 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 485917002898 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485917002899 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485917002900 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 485917002901 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 485917002902 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485917002903 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 485917002904 non-specific DNA binding site [nucleotide binding]; other site 485917002905 salt bridge; other site 485917002906 sequence-specific DNA binding site [nucleotide binding]; other site 485917002907 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 485917002908 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485917002909 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485917002910 ABC transporter; Region: ABC_tran_2; pfam12848 485917002911 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485917002912 FecR protein; Region: FecR; pfam04773 485917002913 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002914 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002915 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002916 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917002917 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917002918 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917002919 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 485917002920 DNA binding residues [nucleotide binding] 485917002921 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002922 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002923 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002924 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917002925 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917002926 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917002927 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917002928 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917002929 SusD family; Region: SusD; pfam07980 485917002930 Amidohydrolase; Region: Amidohydro_2; pfam04909 485917002931 active site 485917002932 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917002933 Trehalase; Region: Trehalase; cl17346 485917002934 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 485917002935 Clp amino terminal domain; Region: Clp_N; pfam02861 485917002936 Clp amino terminal domain; Region: Clp_N; pfam02861 485917002937 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 485917002938 Walker A motif; other site 485917002939 ATP binding site [chemical binding]; other site 485917002940 Walker B motif; other site 485917002941 arginine finger; other site 485917002942 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 485917002943 Walker A motif; other site 485917002944 ATP binding site [chemical binding]; other site 485917002945 Walker B motif; other site 485917002946 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 485917002947 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 485917002948 Uncharacterized conserved protein [Function unknown]; Region: COG1262 485917002949 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917002950 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917002951 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 485917002952 ApbE family; Region: ApbE; pfam02424 485917002953 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917002954 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 485917002955 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 485917002956 FeS/SAM binding site; other site 485917002957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917002958 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 485917002959 NAD(P) binding site [chemical binding]; other site 485917002960 active site 485917002961 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 485917002962 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 485917002963 Walker A/P-loop; other site 485917002964 ATP binding site [chemical binding]; other site 485917002965 Q-loop/lid; other site 485917002966 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 485917002967 Q-loop/lid; other site 485917002968 ABC transporter signature motif; other site 485917002969 Walker B; other site 485917002970 D-loop; other site 485917002971 H-loop/switch region; other site 485917002972 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 485917002973 Penicillinase repressor; Region: Pencillinase_R; pfam03965 485917002974 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 485917002975 Flavoprotein; Region: Flavoprotein; pfam02441 485917002976 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 485917002977 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 485917002978 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 485917002979 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 485917002980 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 485917002981 putative hydrophobic ligand binding site [chemical binding]; other site 485917002982 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917002983 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917002984 DNA binding site [nucleotide binding] 485917002985 domain linker motif; other site 485917002986 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 485917002987 ligand binding site [chemical binding]; other site 485917002988 dimerization interface [polypeptide binding]; other site 485917002989 Pectinesterase; Region: Pectinesterase; pfam01095 485917002990 putative pectinesterase; Region: PLN02432; cl01911 485917002991 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 485917002992 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 485917002993 active site 485917002994 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917002995 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917002996 DNA binding site [nucleotide binding] 485917002997 domain linker motif; other site 485917002998 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 485917002999 dimerization interface [polypeptide binding]; other site 485917003000 ligand binding site [chemical binding]; other site 485917003001 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 485917003002 putative transporter; Provisional; Region: PRK10484 485917003003 Na binding site [ion binding]; other site 485917003004 substrate binding site [chemical binding]; other site 485917003005 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917003006 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917003007 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917003008 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917003009 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917003010 SusD family; Region: SusD; pfam07980 485917003011 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 485917003012 Interdomain contacts; other site 485917003013 Cytokine receptor motif; other site 485917003014 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 485917003015 active site 485917003016 catalytic triad [active] 485917003017 Pectinesterase; Region: Pectinesterase; pfam01095 485917003018 putative pectinesterase; Region: PLN02432; cl01911 485917003019 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 485917003020 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 485917003021 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 485917003022 Pectic acid lyase; Region: Pec_lyase; pfam09492 485917003023 altronate oxidoreductase; Provisional; Region: PRK03643 485917003024 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 485917003025 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 485917003026 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 485917003027 galactarate dehydratase; Region: galactar-dH20; TIGR03248 485917003028 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 485917003029 Glucuronate isomerase; Region: UxaC; pfam02614 485917003030 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 485917003031 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 485917003032 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 485917003033 homodimer interface [polypeptide binding]; other site 485917003034 putative substrate binding pocket [chemical binding]; other site 485917003035 diiron center [ion binding]; other site 485917003036 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 485917003037 B12 binding site [chemical binding]; other site 485917003038 cobalt ligand [ion binding]; other site 485917003039 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 485917003040 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 485917003041 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 485917003042 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 485917003043 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 485917003044 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 485917003045 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485917003046 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 485917003047 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 485917003048 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917003049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 485917003050 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 485917003051 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 485917003052 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 485917003053 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 485917003054 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 485917003055 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 485917003056 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 485917003057 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485917003058 active site 485917003059 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 485917003060 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 485917003061 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917003062 active site 485917003063 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 485917003064 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 485917003065 RNA binding site [nucleotide binding]; other site 485917003066 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 485917003067 RNA binding site [nucleotide binding]; other site 485917003068 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 485917003069 RNA binding site [nucleotide binding]; other site 485917003070 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 485917003071 RNA binding site [nucleotide binding]; other site 485917003072 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 485917003073 RNA binding site [nucleotide binding]; other site 485917003074 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 485917003075 RNA binding site [nucleotide binding]; other site 485917003076 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917003077 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485917003078 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 485917003079 putative DNA binding site [nucleotide binding]; other site 485917003080 putative Zn2+ binding site [ion binding]; other site 485917003081 AsnC family; Region: AsnC_trans_reg; pfam01037 485917003082 Phosphoesterase family; Region: Phosphoesterase; pfam04185 485917003083 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 485917003084 Phosphoesterase family; Region: Phosphoesterase; pfam04185 485917003085 Domain of unknown function (DUF756); Region: DUF756; pfam05506 485917003086 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 485917003087 dimer interface [polypeptide binding]; other site 485917003088 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 485917003089 dimer interface [polypeptide binding]; other site 485917003090 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 485917003091 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 485917003092 conserved cys residue [active] 485917003093 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917003094 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917003095 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 485917003096 dimer interface [polypeptide binding]; other site 485917003097 phosphorylation site [posttranslational modification] 485917003098 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 485917003099 ATP binding site [chemical binding]; other site 485917003100 Mg2+ binding site [ion binding]; other site 485917003101 G-X-G motif; other site 485917003102 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917003103 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 485917003104 active site 485917003105 phosphorylation site [posttranslational modification] 485917003106 intermolecular recognition site; other site 485917003107 dimerization interface [polypeptide binding]; other site 485917003108 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 485917003109 DNA binding site [nucleotide binding] 485917003110 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 485917003111 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485917003112 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917003113 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 485917003114 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917003115 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917003116 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485917003117 cytidylate kinase; Provisional; Region: cmk; PRK00023 485917003118 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 485917003119 CMP-binding site; other site 485917003120 The sites determining sugar specificity; other site 485917003121 hypothetical protein; Provisional; Region: PRK09256 485917003122 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 485917003123 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 485917003124 Found in ATP-dependent protease La (LON); Region: LON; smart00464 485917003125 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 485917003126 Walker A motif; other site 485917003127 ATP binding site [chemical binding]; other site 485917003128 Walker B motif; other site 485917003129 arginine finger; other site 485917003130 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 485917003131 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 485917003132 binding surface 485917003133 TPR motif; other site 485917003134 TPR repeat; Region: TPR_11; pfam13414 485917003135 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 485917003136 phosphoglyceromutase; Provisional; Region: PRK05434 485917003137 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 485917003138 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 485917003139 dimerization interface [polypeptide binding]; other site 485917003140 active site 485917003141 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 485917003142 Peptidase family M48; Region: Peptidase_M48; pfam01435 485917003143 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 485917003144 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 485917003145 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 485917003146 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 485917003147 GDP-binding site [chemical binding]; other site 485917003148 ACT binding site; other site 485917003149 IMP binding site; other site 485917003150 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485917003151 metal binding site 2 [ion binding]; metal-binding site 485917003152 putative DNA binding helix; other site 485917003153 metal binding site 1 [ion binding]; metal-binding site 485917003154 dimer interface [polypeptide binding]; other site 485917003155 structural Zn2+ binding site [ion binding]; other site 485917003156 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 485917003157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485917003158 Zn2+ binding site [ion binding]; other site 485917003159 Mg2+ binding site [ion binding]; other site 485917003160 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 485917003161 synthetase active site [active] 485917003162 NTP binding site [chemical binding]; other site 485917003163 metal binding site [ion binding]; metal-binding site 485917003164 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 485917003165 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 485917003166 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 485917003167 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 485917003168 catalytic residues [active] 485917003169 dimer interface [polypeptide binding]; other site 485917003170 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 485917003171 acyl-coenzyme A oxidase; Region: PLN02526 485917003172 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 485917003173 active site 485917003174 L-lysine aminotransferase; Provisional; Region: PRK08297 485917003175 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 485917003176 inhibitor-cofactor binding pocket; inhibition site 485917003177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917003178 catalytic residue [active] 485917003179 glutamate dehydrogenase; Provisional; Region: PRK09414 485917003180 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 485917003181 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 485917003182 NAD(P) binding site [chemical binding]; other site 485917003183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917003184 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 485917003185 YCII-related domain; Region: YCII; cl00999 485917003186 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 485917003187 Uncharacterized conserved protein [Function unknown]; Region: COG2128 485917003188 Predicted flavoprotein [General function prediction only]; Region: COG0431 485917003189 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485917003190 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 485917003191 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 485917003192 catalytic residue [active] 485917003193 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 485917003194 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 485917003195 RNA binding surface [nucleotide binding]; other site 485917003196 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 485917003197 active site 485917003198 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 485917003199 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 485917003200 homodimer interface [polypeptide binding]; other site 485917003201 substrate-cofactor binding pocket; other site 485917003202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917003203 catalytic residue [active] 485917003204 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 485917003205 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 485917003206 putative active site [active] 485917003207 substrate binding site [chemical binding]; other site 485917003208 putative cosubstrate binding site; other site 485917003209 catalytic site [active] 485917003210 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 485917003211 substrate binding site [chemical binding]; other site 485917003212 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 485917003213 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 485917003214 active site 485917003215 DNA binding site [nucleotide binding] 485917003216 Int/Topo IB signature motif; other site 485917003217 catalytic residues [active] 485917003218 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 485917003219 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 485917003220 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485917003221 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 485917003222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917003223 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 485917003224 dimer interface [polypeptide binding]; other site 485917003225 phosphorylation site [posttranslational modification] 485917003226 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 485917003227 ATP binding site [chemical binding]; other site 485917003228 Mg2+ binding site [ion binding]; other site 485917003229 G-X-G motif; other site 485917003230 Response regulator receiver domain; Region: Response_reg; pfam00072 485917003231 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 485917003232 active site 485917003233 phosphorylation site [posttranslational modification] 485917003234 intermolecular recognition site; other site 485917003235 dimerization interface [polypeptide binding]; other site 485917003236 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 485917003237 dimer interface [polypeptide binding]; other site 485917003238 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 485917003239 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 485917003240 conserved cys residue [active] 485917003241 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917003242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917003243 helicase 45; Provisional; Region: PTZ00424 485917003244 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 485917003245 ATP binding site [chemical binding]; other site 485917003246 putative Mg++ binding site [ion binding]; other site 485917003247 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 485917003248 nucleotide binding region [chemical binding]; other site 485917003249 ATP-binding site [chemical binding]; other site 485917003250 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 485917003251 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 485917003252 homodimer interface [polypeptide binding]; other site 485917003253 metal binding site [ion binding]; metal-binding site 485917003254 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 485917003255 homodimer interface [polypeptide binding]; other site 485917003256 active site 485917003257 putative chemical substrate binding site [chemical binding]; other site 485917003258 metal binding site [ion binding]; metal-binding site 485917003259 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 485917003260 Domain of unknown function DUF20; Region: UPF0118; pfam01594 485917003261 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 485917003262 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 485917003263 active site 485917003264 catalytic tetrad [active] 485917003265 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 485917003266 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 485917003267 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 485917003268 catalytic triad [active] 485917003269 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 485917003270 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 485917003271 NAD(P) binding site [chemical binding]; other site 485917003272 catalytic residues [active] 485917003273 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 485917003274 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 485917003275 active site 485917003276 Zn binding site [ion binding]; other site 485917003277 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 485917003278 EamA-like transporter family; Region: EamA; pfam00892 485917003279 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 485917003280 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 485917003281 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 485917003282 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917003283 FecR protein; Region: FecR; pfam04773 485917003284 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917003285 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917003286 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 485917003287 DNA binding residues [nucleotide binding] 485917003288 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 485917003289 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917003290 active site 485917003291 HIGH motif; other site 485917003292 nucleotide binding site [chemical binding]; other site 485917003293 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 485917003294 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 485917003295 active site 485917003296 KMSKS motif; other site 485917003297 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 485917003298 tRNA binding surface [nucleotide binding]; other site 485917003299 anticodon binding site; other site 485917003300 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 485917003301 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485917003302 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 485917003303 active site 485917003304 metal binding site [ion binding]; metal-binding site 485917003305 Predicted transcriptional regulator [Transcription]; Region: COG2345 485917003306 Transcriptional regulator PadR-like family; Region: PadR; cl17335 485917003307 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917003308 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917003309 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917003310 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485917003311 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 485917003312 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 485917003313 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 485917003314 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 485917003315 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 485917003316 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 485917003317 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 485917003318 Asp-box motif; other site 485917003319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 485917003320 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 485917003321 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 485917003322 putative hydrophobic ligand binding site [chemical binding]; other site 485917003323 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 485917003324 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 485917003325 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 485917003326 Ligand Binding Site [chemical binding]; other site 485917003327 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917003328 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917003329 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917003330 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917003331 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917003332 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917003333 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917003334 SusD family; Region: SusD; pfam07980 485917003335 EVE domain; Region: EVE; pfam01878 485917003336 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 485917003337 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 485917003338 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 485917003339 active site 485917003340 Na/Ca binding site [ion binding]; other site 485917003341 catalytic site [active] 485917003342 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485917003343 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485917003344 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485917003345 ABC transporter; Region: ABC_tran_2; pfam12848 485917003346 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485917003347 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 485917003348 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 485917003349 quinone interaction residues [chemical binding]; other site 485917003350 active site 485917003351 catalytic residues [active] 485917003352 FMN binding site [chemical binding]; other site 485917003353 substrate binding site [chemical binding]; other site 485917003354 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 485917003355 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 485917003356 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 485917003357 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 485917003358 Surface antigen; Region: Bac_surface_Ag; pfam01103 485917003359 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 485917003360 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 485917003361 active site 485917003362 nucleophile elbow; other site 485917003363 TspO/MBR family; Region: TspO_MBR; pfam03073 485917003364 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 485917003365 putative active site [active] 485917003366 heme pocket [chemical binding]; other site 485917003367 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 485917003368 PAS domain; Region: PAS_9; pfam13426 485917003369 putative active site [active] 485917003370 heme pocket [chemical binding]; other site 485917003371 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 485917003372 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 485917003373 DinB family; Region: DinB; cl17821 485917003374 DinB superfamily; Region: DinB_2; pfam12867 485917003375 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 485917003376 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 485917003377 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917003378 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917003379 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917003380 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 485917003381 DNA binding residues [nucleotide binding] 485917003382 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917003383 FecR protein; Region: FecR; pfam04773 485917003384 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917003385 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917003386 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917003387 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917003388 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917003389 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917003390 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917003391 SusD family; Region: SusD; pfam07980 485917003392 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917003393 active site 485917003394 metal binding site [ion binding]; metal-binding site 485917003395 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917003396 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917003397 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917003398 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917003399 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 485917003400 putative hydrophobic ligand binding site [chemical binding]; other site 485917003401 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917003402 D-mannonate oxidoreductase; Provisional; Region: PRK08277 485917003403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917003404 NAD(P) binding site [chemical binding]; other site 485917003405 active site 485917003406 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917003407 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917003408 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917003409 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917003410 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 485917003411 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 485917003412 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 485917003413 sugar binding site [chemical binding]; other site 485917003414 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917003415 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917003416 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 485917003417 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917003418 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 485917003419 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 485917003420 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917003421 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917003422 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917003423 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917003424 SusD family; Region: SusD; pfam07980 485917003425 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917003426 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917003427 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917003428 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917003429 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917003430 SusD family; Region: SusD; pfam07980 485917003431 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917003432 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 485917003433 DinB superfamily; Region: DinB_2; pfam12867 485917003434 Protein of unknown function (DUF419); Region: DUF419; pfam04237 485917003435 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 485917003436 dimerization interface [polypeptide binding]; other site 485917003437 metal binding site [ion binding]; metal-binding site 485917003438 Ureide permease; Region: Ureide_permease; pfam07168 485917003439 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 485917003440 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 485917003441 substrate binding site [chemical binding]; other site 485917003442 dimer interface [polypeptide binding]; other site 485917003443 ATP binding site [chemical binding]; other site 485917003444 mannonate dehydratase; Provisional; Region: PRK03906 485917003445 mannonate dehydratase; Region: uxuA; TIGR00695 485917003446 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917003447 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917003448 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917003449 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917003450 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 485917003451 dimer interface [polypeptide binding]; other site 485917003452 phosphorylation site [posttranslational modification] 485917003453 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 485917003454 ATP binding site [chemical binding]; other site 485917003455 Mg2+ binding site [ion binding]; other site 485917003456 G-X-G motif; other site 485917003457 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917003458 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 485917003459 active site 485917003460 phosphorylation site [posttranslational modification] 485917003461 intermolecular recognition site; other site 485917003462 dimerization interface [polypeptide binding]; other site 485917003463 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 485917003464 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917003465 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917003466 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 485917003467 MgtE intracellular N domain; Region: MgtE_N; pfam03448 485917003468 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 485917003469 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 485917003470 Divalent cation transporter; Region: MgtE; pfam01769 485917003471 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 485917003472 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 485917003473 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 485917003474 active site 485917003475 catalytic residues [active] 485917003476 GTP-binding protein YchF; Reviewed; Region: PRK09601 485917003477 YchF GTPase; Region: YchF; cd01900 485917003478 G1 box; other site 485917003479 GTP/Mg2+ binding site [chemical binding]; other site 485917003480 Switch I region; other site 485917003481 G2 box; other site 485917003482 Switch II region; other site 485917003483 G3 box; other site 485917003484 G4 box; other site 485917003485 G5 box; other site 485917003486 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 485917003487 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 485917003488 Predicted integral membrane protein [Function unknown]; Region: COG5637 485917003489 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 485917003490 putative hydrophobic ligand binding site [chemical binding]; other site 485917003491 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 485917003492 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917003493 catalytic residues [active] 485917003494 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 485917003495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917003496 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 485917003497 DNA binding residues [nucleotide binding] 485917003498 Uncharacterized conserved protein [Function unknown]; Region: COG2128 485917003499 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 485917003500 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 485917003501 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917003502 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917003503 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917003504 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 485917003505 ligand-binding site [chemical binding]; other site 485917003506 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 485917003507 Imelysin; Region: Peptidase_M75; pfam09375 485917003508 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917003509 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 485917003510 active site 485917003511 phosphorylation site [posttranslational modification] 485917003512 intermolecular recognition site; other site 485917003513 dimerization interface [polypeptide binding]; other site 485917003514 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 485917003515 DNA binding site [nucleotide binding] 485917003516 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917003517 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 485917003518 dimer interface [polypeptide binding]; other site 485917003519 phosphorylation site [posttranslational modification] 485917003520 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 485917003521 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 485917003522 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485917003523 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 485917003524 putative dimerization interface [polypeptide binding]; other site 485917003525 putative substrate binding pocket [chemical binding]; other site 485917003526 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 485917003527 active sites [active] 485917003528 tetramer interface [polypeptide binding]; other site 485917003529 urocanate hydratase; Provisional; Region: PRK05414 485917003530 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 485917003531 Cation efflux family; Region: Cation_efflux; pfam01545 485917003532 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 485917003533 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 485917003534 active site 485917003535 catalytic site [active] 485917003536 metal binding site [ion binding]; metal-binding site 485917003537 classical (c) SDRs; Region: SDR_c; cd05233 485917003538 NAD(P) binding site [chemical binding]; other site 485917003539 active site 485917003540 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 485917003541 active site 485917003542 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 485917003543 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 485917003544 Protein export membrane protein; Region: SecD_SecF; cl14618 485917003545 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917003546 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917003547 Outer membrane efflux protein; Region: OEP; pfam02321 485917003548 Outer membrane efflux protein; Region: OEP; pfam02321 485917003549 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 485917003550 HAMP domain; Region: HAMP; pfam00672 485917003551 dimerization interface [polypeptide binding]; other site 485917003552 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 485917003553 dimer interface [polypeptide binding]; other site 485917003554 phosphorylation site [posttranslational modification] 485917003555 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 485917003556 ATP binding site [chemical binding]; other site 485917003557 Mg2+ binding site [ion binding]; other site 485917003558 G-X-G motif; other site 485917003559 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917003560 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 485917003561 active site 485917003562 phosphorylation site [posttranslational modification] 485917003563 intermolecular recognition site; other site 485917003564 dimerization interface [polypeptide binding]; other site 485917003565 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 485917003566 DNA binding site [nucleotide binding] 485917003567 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 485917003568 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 485917003569 HSP70 interaction site [polypeptide binding]; other site 485917003570 KTSC domain; Region: KTSC; pfam13619 485917003571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 485917003572 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 485917003573 YCII-related domain; Region: YCII; cl00999 485917003574 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917003575 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 485917003576 ligand binding site [chemical binding]; other site 485917003577 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 485917003578 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 485917003579 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 485917003580 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917003581 catalytic residues [active] 485917003582 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 485917003583 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 485917003584 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 485917003585 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 485917003586 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 485917003587 NHL repeat; Region: NHL; pfam01436 485917003588 NHL repeat; Region: NHL; pfam01436 485917003589 NHL repeat; Region: NHL; pfam01436 485917003590 NHL repeat; Region: NHL; pfam01436 485917003591 IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the...; Region: IPT_PCSR; cd00603 485917003592 NHL repeat; Region: NHL; pfam01436 485917003593 NHL repeat; Region: NHL; pfam01436 485917003594 NHL repeat; Region: NHL; pfam01436 485917003595 NHL repeat; Region: NHL; pfam01436 485917003596 NHL repeat; Region: NHL; pfam01436 485917003597 NHL repeat; Region: NHL; pfam01436 485917003598 Predicted periplasmic protein [Function unknown]; Region: COG3698 485917003599 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 485917003600 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917003601 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917003602 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917003603 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917003604 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917003605 FecR protein; Region: FecR; pfam04773 485917003606 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917003607 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917003608 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 485917003609 DNA binding residues [nucleotide binding] 485917003610 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 485917003611 active site 485917003612 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 485917003613 active site 485917003614 DNA polymerase IV; Validated; Region: PRK02406 485917003615 DNA binding site [nucleotide binding] 485917003616 DNA-directed DNA polymerase III (polc); Region: polc; TIGR00594 485917003617 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 485917003618 active site 485917003619 PHP Thumb interface [polypeptide binding]; other site 485917003620 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485917003621 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 485917003622 putative DNA binding site [nucleotide binding]; other site 485917003623 putative Zn2+ binding site [ion binding]; other site 485917003624 AsnC family; Region: AsnC_trans_reg; pfam01037 485917003625 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 485917003626 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 485917003627 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917003628 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485917003629 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 485917003630 DNA binding residues [nucleotide binding] 485917003631 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 485917003632 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917003633 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485917003634 WHG domain; Region: WHG; pfam13305 485917003635 DoxX; Region: DoxX; pfam07681 485917003636 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 485917003637 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 485917003638 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 485917003639 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 485917003640 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 485917003641 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 485917003642 Na binding site [ion binding]; other site 485917003643 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917003644 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917003645 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 485917003646 DNA binding residues [nucleotide binding] 485917003647 FecR protein; Region: FecR; pfam04773 485917003648 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917003649 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917003650 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917003651 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917003652 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917003653 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917003654 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485917003655 putative catalytic site [active] 485917003656 putative metal binding site [ion binding]; other site 485917003657 putative phosphate binding site [ion binding]; other site 485917003658 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 485917003659 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 485917003660 active site 485917003661 catalytic triad [active] 485917003662 oxyanion hole [active] 485917003663 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 485917003664 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 485917003665 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917003666 active site 485917003667 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 485917003668 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 485917003669 Metal-binding active site; metal-binding site 485917003670 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 485917003671 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 485917003672 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 485917003673 Zn binding site [ion binding]; other site 485917003674 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 485917003675 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 485917003676 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 485917003677 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 485917003678 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 485917003679 motif II; other site 485917003680 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917003681 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 485917003682 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485917003683 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485917003684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917003685 Walker A/P-loop; other site 485917003686 ATP binding site [chemical binding]; other site 485917003687 Q-loop/lid; other site 485917003688 ABC transporter signature motif; other site 485917003689 Walker B; other site 485917003690 D-loop; other site 485917003691 H-loop/switch region; other site 485917003692 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 485917003693 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 485917003694 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 485917003695 NAD binding site [chemical binding]; other site 485917003696 Phe binding site; other site 485917003697 transcription antitermination factor NusB; Region: nusB; TIGR01951 485917003698 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 485917003699 Preprotein translocase subunit; Region: YajC; pfam02699 485917003700 YbbR-like protein; Region: YbbR; pfam07949 485917003701 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 485917003702 CoA-binding site [chemical binding]; other site 485917003703 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 485917003704 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485917003705 MarR family; Region: MarR_2; cl17246 485917003706 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485917003707 ZIP Zinc transporter; Region: Zip; pfam02535 485917003708 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 485917003709 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 485917003710 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 485917003711 active site 485917003712 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485917003713 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 485917003714 S-adenosylmethionine binding site [chemical binding]; other site 485917003715 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 485917003716 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 485917003717 active site 485917003718 substrate binding site [chemical binding]; other site 485917003719 metal binding site [ion binding]; metal-binding site 485917003720 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 485917003721 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 485917003722 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917003723 catalytic residue [active] 485917003724 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 485917003725 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 485917003726 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 485917003727 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 485917003728 active site 485917003729 intersubunit interface [polypeptide binding]; other site 485917003730 zinc binding site [ion binding]; other site 485917003731 Na+ binding site [ion binding]; other site 485917003732 Low affinity iron permease; Region: Iron_permease; pfam04120 485917003733 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485917003734 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917003735 Coenzyme A binding pocket [chemical binding]; other site 485917003736 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 485917003737 active site 485917003738 catalytic residues [active] 485917003739 metal binding site [ion binding]; metal-binding site 485917003740 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 485917003741 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485917003742 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 485917003743 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 485917003744 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 485917003745 Protein export membrane protein; Region: SecD_SecF; cl14618 485917003746 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 485917003747 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 485917003748 folate binding site [chemical binding]; other site 485917003749 NADP+ binding site [chemical binding]; other site 485917003750 thymidylate synthase; Reviewed; Region: thyA; PRK01827 485917003751 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 485917003752 dimerization interface [polypeptide binding]; other site 485917003753 active site 485917003754 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 485917003755 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 485917003756 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 485917003757 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 485917003758 homodimer interface [polypeptide binding]; other site 485917003759 substrate-cofactor binding pocket; other site 485917003760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917003761 catalytic residue [active] 485917003762 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 485917003763 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 485917003764 EamA-like transporter family; Region: EamA; pfam00892 485917003765 Predicted permeases [General function prediction only]; Region: COG0795 485917003766 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 485917003767 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 485917003768 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 485917003769 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 485917003770 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 485917003771 active site 485917003772 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 485917003773 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 485917003774 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 485917003775 DNA protecting protein DprA; Region: dprA; TIGR00732 485917003776 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 485917003777 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 485917003778 dimer interface [polypeptide binding]; other site 485917003779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917003780 catalytic residue [active] 485917003781 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 485917003782 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 485917003783 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 485917003784 hinge; other site 485917003785 active site 485917003786 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 485917003787 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 485917003788 Part of AAA domain; Region: AAA_19; pfam13245 485917003789 Family description; Region: UvrD_C_2; pfam13538 485917003790 hypothetical protein; Provisional; Region: PRK08201 485917003791 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 485917003792 metal binding site [ion binding]; metal-binding site 485917003793 putative dimer interface [polypeptide binding]; other site 485917003794 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 485917003795 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 485917003796 active site 485917003797 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 485917003798 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 485917003799 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 485917003800 putative active site [active] 485917003801 catalytic site [active] 485917003802 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 485917003803 putative active site [active] 485917003804 catalytic site [active] 485917003805 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 485917003806 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 485917003807 active site 485917003808 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 485917003809 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 485917003810 catalytic residues [active] 485917003811 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 485917003812 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 485917003813 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 485917003814 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 485917003815 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 485917003816 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485917003817 FtsX-like permease family; Region: FtsX; pfam02687 485917003818 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485917003819 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485917003820 Walker A/P-loop; other site 485917003821 ATP binding site [chemical binding]; other site 485917003822 Q-loop/lid; other site 485917003823 ABC transporter signature motif; other site 485917003824 Walker B; other site 485917003825 D-loop; other site 485917003826 H-loop/switch region; other site 485917003827 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 485917003828 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917003829 Walker A/P-loop; other site 485917003830 ATP binding site [chemical binding]; other site 485917003831 Q-loop/lid; other site 485917003832 ABC transporter signature motif; other site 485917003833 Walker B; other site 485917003834 D-loop; other site 485917003835 H-loop/switch region; other site 485917003836 ABC transporter; Region: ABC_tran_2; pfam12848 485917003837 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485917003838 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 485917003839 putative FMN binding site [chemical binding]; other site 485917003840 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 485917003841 putative active site [active] 485917003842 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 485917003843 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 485917003844 active site 485917003845 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917003846 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 485917003847 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 485917003848 Clp amino terminal domain; Region: Clp_N; pfam02861 485917003849 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 485917003850 Walker A motif; other site 485917003851 ATP binding site [chemical binding]; other site 485917003852 Walker B motif; other site 485917003853 arginine finger; other site 485917003854 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 485917003855 Walker A motif; other site 485917003856 ATP binding site [chemical binding]; other site 485917003857 Walker B motif; other site 485917003858 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 485917003859 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 485917003860 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 485917003861 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917003862 putative substrate translocation pore; other site 485917003863 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 485917003864 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 485917003865 dimerization interface [polypeptide binding]; other site 485917003866 putative DNA binding site [nucleotide binding]; other site 485917003867 putative Zn2+ binding site [ion binding]; other site 485917003868 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 485917003869 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 485917003870 putative active site [active] 485917003871 putative FMN binding site [chemical binding]; other site 485917003872 putative substrate binding site [chemical binding]; other site 485917003873 putative catalytic residue [active] 485917003874 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 485917003875 hydrophobic ligand binding site; other site 485917003876 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485917003877 active site 485917003878 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 485917003879 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 485917003880 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917003881 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485917003882 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 485917003883 DNA binding residues [nucleotide binding] 485917003884 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 485917003885 active site 485917003886 Ap6A binding site [chemical binding]; other site 485917003887 nudix motif; other site 485917003888 metal binding site [ion binding]; metal-binding site 485917003889 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 485917003890 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 485917003891 active site 485917003892 (T/H)XGH motif; other site 485917003893 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 485917003894 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 485917003895 S-adenosylmethionine binding site [chemical binding]; other site 485917003896 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 485917003897 AAA domain; Region: AAA_30; pfam13604 485917003898 Family description; Region: UvrD_C_2; pfam13538 485917003899 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 485917003900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917003901 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 485917003902 dimer interface [polypeptide binding]; other site 485917003903 phosphorylation site [posttranslational modification] 485917003904 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 485917003905 ATP binding site [chemical binding]; other site 485917003906 Mg2+ binding site [ion binding]; other site 485917003907 G-X-G motif; other site 485917003908 Predicted membrane protein [Function unknown]; Region: COG2246 485917003909 GtrA-like protein; Region: GtrA; pfam04138 485917003910 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 485917003911 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 485917003912 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 485917003913 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 485917003914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917003915 Walker A/P-loop; other site 485917003916 ATP binding site [chemical binding]; other site 485917003917 Q-loop/lid; other site 485917003918 ABC transporter signature motif; other site 485917003919 Walker B; other site 485917003920 D-loop; other site 485917003921 H-loop/switch region; other site 485917003922 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 485917003923 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917003924 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917003925 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917003926 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485917003927 MoxR-like ATPases [General function prediction only]; Region: COG0714 485917003928 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 485917003929 Walker A motif; other site 485917003930 ATP binding site [chemical binding]; other site 485917003931 Walker B motif; other site 485917003932 arginine finger; other site 485917003933 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 485917003934 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 485917003935 metal ion-dependent adhesion site (MIDAS); other site 485917003936 Oxygen tolerance; Region: BatD; pfam13584 485917003937 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 485917003938 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 485917003939 metal ion-dependent adhesion site (MIDAS); other site 485917003940 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 485917003941 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 485917003942 metal ion-dependent adhesion site (MIDAS); other site 485917003943 TPR repeat; Region: TPR_11; pfam13414 485917003944 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 485917003945 binding surface 485917003946 TPR motif; other site 485917003947 TPR repeat; Region: TPR_11; pfam13414 485917003948 Oxygen tolerance; Region: BatD; pfam13584 485917003949 TPR repeat; Region: TPR_11; pfam13414 485917003950 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 485917003951 binding surface 485917003952 TPR motif; other site 485917003953 Bacterial SH3 domain homologues; Region: SH3b; smart00287 485917003954 AsmA family; Region: AsmA; pfam05170 485917003955 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 485917003956 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 485917003957 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 485917003958 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 485917003959 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 485917003960 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 485917003961 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 485917003962 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 485917003963 conserved cys residue [active] 485917003964 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917003965 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917003966 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917003967 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 485917003968 active site 485917003969 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 485917003970 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917003971 catalytic residues [active] 485917003972 Predicted ATPase [General function prediction only]; Region: COG3911 485917003973 AAA domain; Region: AAA_28; pfam13521 485917003974 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 485917003975 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917003976 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917003977 active site 485917003978 metal binding site [ion binding]; metal-binding site 485917003979 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917003980 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917003981 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917003982 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917003983 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917003984 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917003985 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917003986 FecR protein; Region: FecR; pfam04773 485917003987 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917003988 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 485917003989 DNA binding residues [nucleotide binding] 485917003990 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 485917003991 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485917003992 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_6; cd01844 485917003993 active site 485917003994 catalytic triad [active] 485917003995 oxyanion hole [active] 485917003996 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 485917003997 aspartate aminotransferase; Provisional; Region: PRK07568 485917003998 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 485917003999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917004000 homodimer interface [polypeptide binding]; other site 485917004001 catalytic residue [active] 485917004002 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 485917004003 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 485917004004 tetramer interface [polypeptide binding]; other site 485917004005 TPP-binding site [chemical binding]; other site 485917004006 heterodimer interface [polypeptide binding]; other site 485917004007 phosphorylation loop region [posttranslational modification] 485917004008 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 485917004009 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 485917004010 PYR/PP interface [polypeptide binding]; other site 485917004011 dimer interface [polypeptide binding]; other site 485917004012 TPP binding site [chemical binding]; other site 485917004013 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485917004014 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 485917004015 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 485917004016 Tetramer interface [polypeptide binding]; other site 485917004017 active site 485917004018 FMN-binding site [chemical binding]; other site 485917004019 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 485917004020 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 485917004021 hinge; other site 485917004022 active site 485917004023 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 485917004024 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 485917004025 Chorismate mutase type II; Region: CM_2; smart00830 485917004026 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 485917004027 Prephenate dehydratase; Region: PDT; pfam00800 485917004028 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 485917004029 putative L-Phe binding site [chemical binding]; other site 485917004030 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 485917004031 active site 485917004032 dimer interface [polypeptide binding]; other site 485917004033 metal binding site [ion binding]; metal-binding site 485917004034 S4 domain; Region: S4_2; pfam13275 485917004035 proline dehydrogenase; Region: PLN02681 485917004036 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 485917004037 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 485917004038 dimer interface [polypeptide binding]; other site 485917004039 active site 485917004040 heme binding site [chemical binding]; other site 485917004041 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 485917004042 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 485917004043 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 485917004044 motif II; other site 485917004045 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485917004046 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 485917004047 S-adenosylmethionine binding site [chemical binding]; other site 485917004048 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917004049 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 485917004050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917004051 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 485917004052 dimer interface [polypeptide binding]; other site 485917004053 phosphorylation site [posttranslational modification] 485917004054 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 485917004055 ATP binding site [chemical binding]; other site 485917004056 Mg2+ binding site [ion binding]; other site 485917004057 G-X-G motif; other site 485917004058 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485917004059 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 485917004060 active site 485917004061 phosphorylation site [posttranslational modification] 485917004062 intermolecular recognition site; other site 485917004063 dimerization interface [polypeptide binding]; other site 485917004064 Response regulator receiver domain; Region: Response_reg; pfam00072 485917004065 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 485917004066 active site 485917004067 phosphorylation site [posttranslational modification] 485917004068 intermolecular recognition site; other site 485917004069 dimerization interface [polypeptide binding]; other site 485917004070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917004071 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 485917004072 dimer interface [polypeptide binding]; other site 485917004073 phosphorylation site [posttranslational modification] 485917004074 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 485917004075 ATP binding site [chemical binding]; other site 485917004076 Mg2+ binding site [ion binding]; other site 485917004077 G-X-G motif; other site 485917004078 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 485917004079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917004080 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 485917004081 dimer interface [polypeptide binding]; other site 485917004082 phosphorylation site [posttranslational modification] 485917004083 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 485917004084 ATP binding site [chemical binding]; other site 485917004085 Mg2+ binding site [ion binding]; other site 485917004086 G-X-G motif; other site 485917004087 hypothetical protein; Provisional; Region: PRK07877 485917004088 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 485917004089 ATP binding site [chemical binding]; other site 485917004090 substrate interface [chemical binding]; other site 485917004091 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 485917004092 FMN binding site [chemical binding]; other site 485917004093 dimer interface [polypeptide binding]; other site 485917004094 Response regulator receiver domain; Region: Response_reg; pfam00072 485917004095 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 485917004096 active site 485917004097 phosphorylation site [posttranslational modification] 485917004098 intermolecular recognition site; other site 485917004099 dimerization interface [polypeptide binding]; other site 485917004100 FOG: PKD repeat [General function prediction only]; Region: COG3291 485917004101 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 485917004102 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 485917004103 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 485917004104 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917004105 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 485917004106 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 485917004107 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 485917004108 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 485917004109 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 485917004110 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917004111 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 485917004112 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 485917004113 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917004114 Alkaline and neutral invertase; Region: Glyco_hydro_100; cl17340 485917004115 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 485917004116 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 485917004117 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 485917004118 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 485917004119 Histidine kinase; Region: His_kinase; pfam06580 485917004120 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 485917004121 ATP binding site [chemical binding]; other site 485917004122 Mg2+ binding site [ion binding]; other site 485917004123 G-X-G motif; other site 485917004124 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 485917004125 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 485917004126 active site 485917004127 phosphorylation site [posttranslational modification] 485917004128 intermolecular recognition site; other site 485917004129 dimerization interface [polypeptide binding]; other site 485917004130 LytTr DNA-binding domain; Region: LytTR; smart00850 485917004131 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 485917004132 ribonuclease P; Reviewed; Region: rnpA; PRK01903 485917004133 Haemolytic domain; Region: Haemolytic; pfam01809 485917004134 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 485917004135 Glycoprotease family; Region: Peptidase_M22; pfam00814 485917004136 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 485917004137 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 485917004138 primosomal protein N' Region: priA; TIGR00595 485917004139 ATP binding site [chemical binding]; other site 485917004140 putative Mg++ binding site [ion binding]; other site 485917004141 helicase superfamily c-terminal domain; Region: HELICc; smart00490 485917004142 ATP-binding site [chemical binding]; other site 485917004143 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 485917004144 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 485917004145 S-adenosylmethionine binding site [chemical binding]; other site 485917004146 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 485917004147 SmpB-tmRNA interface; other site 485917004148 manganese transport protein MntH; Reviewed; Region: PRK00701 485917004149 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 485917004150 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 485917004151 Ligand Binding Site [chemical binding]; other site 485917004152 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 485917004153 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 485917004154 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 485917004155 FeoA domain; Region: FeoA; pfam04023 485917004156 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485917004157 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 485917004158 putative DNA binding site [nucleotide binding]; other site 485917004159 putative Zn2+ binding site [ion binding]; other site 485917004160 AsnC family; Region: AsnC_trans_reg; pfam01037 485917004161 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 485917004162 ligand binding site [chemical binding]; other site 485917004163 active site 485917004164 UGI interface [polypeptide binding]; other site 485917004165 catalytic site [active] 485917004166 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 485917004167 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 485917004168 dimer interface [polypeptide binding]; other site 485917004169 putative anticodon binding site; other site 485917004170 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 485917004171 motif 1; other site 485917004172 active site 485917004173 motif 2; other site 485917004174 motif 3; other site 485917004175 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 485917004176 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485917004177 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485917004178 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 485917004179 acyl-activating enzyme (AAE) consensus motif; other site 485917004180 acyl-activating enzyme (AAE) consensus motif; other site 485917004181 putative AMP binding site [chemical binding]; other site 485917004182 putative active site [active] 485917004183 putative CoA binding site [chemical binding]; other site 485917004184 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 485917004185 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 485917004186 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 485917004187 trimerization site [polypeptide binding]; other site 485917004188 active site 485917004189 cysteine desulfurase; Provisional; Region: PRK14012 485917004190 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 485917004191 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917004192 catalytic residue [active] 485917004193 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917004194 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 485917004195 dimer interface [polypeptide binding]; other site 485917004196 substrate binding site [chemical binding]; other site 485917004197 metal binding site [ion binding]; metal-binding site 485917004198 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 485917004199 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 485917004200 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 485917004201 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 485917004202 triosephosphate isomerase; Provisional; Region: PRK14567 485917004203 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 485917004204 substrate binding site [chemical binding]; other site 485917004205 dimer interface [polypeptide binding]; other site 485917004206 catalytic triad [active] 485917004207 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 485917004208 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 485917004209 S-adenosylmethionine binding site [chemical binding]; other site 485917004210 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 485917004211 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485917004212 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485917004213 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485917004214 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 485917004215 non-specific DNA binding site [nucleotide binding]; other site 485917004216 salt bridge; other site 485917004217 sequence-specific DNA binding site [nucleotide binding]; other site 485917004218 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917004219 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917004220 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917004221 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917004222 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917004223 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917004224 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 485917004225 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 485917004226 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917004227 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 485917004228 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 485917004229 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 485917004230 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 485917004231 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 485917004232 Predicted acyl esterases [General function prediction only]; Region: COG2936 485917004233 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917004234 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 485917004235 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 485917004236 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 485917004237 Peptidase family M28; Region: Peptidase_M28; pfam04389 485917004238 metal binding site [ion binding]; metal-binding site 485917004239 Histidine kinase; Region: His_kinase; pfam06580 485917004240 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485917004241 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 485917004242 active site 485917004243 phosphorylation site [posttranslational modification] 485917004244 intermolecular recognition site; other site 485917004245 dimerization interface [polypeptide binding]; other site 485917004246 LytTr DNA-binding domain; Region: LytTR; smart00850 485917004247 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 485917004248 dinuclear metal binding motif [ion binding]; other site 485917004249 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 485917004250 dinuclear metal binding motif [ion binding]; other site 485917004251 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 485917004252 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 485917004253 FeS/SAM binding site; other site 485917004254 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917004255 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485917004256 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917004257 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917004258 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917004259 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 485917004260 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 485917004261 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 485917004262 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 485917004263 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917004264 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917004265 active site 485917004266 metal binding site [ion binding]; metal-binding site 485917004267 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 485917004268 Trp docking motif [polypeptide binding]; other site 485917004269 PQQ-like domain; Region: PQQ_2; pfam13360 485917004270 active site 485917004271 PQQ-like domain; Region: PQQ_2; pfam13360 485917004272 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 485917004273 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 485917004274 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 485917004275 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 485917004276 active site 485917004277 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 485917004278 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 485917004279 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917004280 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 485917004281 ATP binding site [chemical binding]; other site 485917004282 Mg2+ binding site [ion binding]; other site 485917004283 G-X-G motif; other site 485917004284 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 485917004285 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485917004286 FtsX-like permease family; Region: FtsX; pfam02687 485917004287 FtsX-like permease family; Region: FtsX; pfam02687 485917004288 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485917004289 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485917004290 Walker A/P-loop; other site 485917004291 ATP binding site [chemical binding]; other site 485917004292 Q-loop/lid; other site 485917004293 ABC transporter signature motif; other site 485917004294 Walker B; other site 485917004295 D-loop; other site 485917004296 H-loop/switch region; other site 485917004297 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 485917004298 active site 485917004299 catalytic triad [active] 485917004300 oxyanion hole [active] 485917004301 switch loop; other site 485917004302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 485917004303 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 485917004304 binding surface 485917004305 TPR repeat; Region: TPR_11; pfam13414 485917004306 TPR motif; other site 485917004307 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 485917004308 active site 485917004309 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 485917004310 catalytic tetrad [active] 485917004311 Predicted transcriptional regulators [Transcription]; Region: COG1725 485917004312 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917004313 DNA-binding site [nucleotide binding]; DNA binding site 485917004314 FCD domain; Region: FCD; pfam07729 485917004315 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 485917004316 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917004317 putative substrate translocation pore; other site 485917004318 xylose isomerase; Provisional; Region: PRK05474 485917004319 xylose isomerase; Region: xylose_isom_A; TIGR02630 485917004320 glycerol kinase; Region: glycerol_kin; TIGR01311 485917004321 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917004322 nucleotide binding site [chemical binding]; other site 485917004323 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917004324 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917004325 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917004326 Fasciclin domain; Region: Fasciclin; pfam02469 485917004327 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917004328 SusD family; Region: SusD; pfam07980 485917004329 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 485917004330 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 485917004331 dimer interface [polypeptide binding]; other site 485917004332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917004333 catalytic residue [active] 485917004334 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 485917004335 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 485917004336 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 485917004337 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 485917004338 dimer interface [polypeptide binding]; other site 485917004339 active site 485917004340 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 485917004341 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 485917004342 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 485917004343 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 485917004344 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485917004345 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485917004346 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 485917004347 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917004348 active site 485917004349 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 485917004350 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485917004351 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 485917004352 active site 485917004353 phosphorylation site [posttranslational modification] 485917004354 intermolecular recognition site; other site 485917004355 dimerization interface [polypeptide binding]; other site 485917004356 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 485917004357 DNA binding residues [nucleotide binding] 485917004358 dimerization interface [polypeptide binding]; other site 485917004359 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917004360 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917004361 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 485917004362 Histidine kinase; Region: HisKA_3; pfam07730 485917004363 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 485917004364 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917004365 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 485917004366 active site 485917004367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917004368 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917004369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917004370 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917004371 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917004372 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 485917004373 DNA binding residues [nucleotide binding] 485917004374 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 485917004375 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 485917004376 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 485917004377 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 485917004378 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485917004379 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 485917004380 non-specific DNA binding site [nucleotide binding]; other site 485917004381 salt bridge; other site 485917004382 sequence-specific DNA binding site [nucleotide binding]; other site 485917004383 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 485917004384 active site 485917004385 phosphorylation site [posttranslational modification] 485917004386 intermolecular recognition site; other site 485917004387 dimerization interface [polypeptide binding]; other site 485917004388 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 485917004389 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 485917004390 substrate binding pocket [chemical binding]; other site 485917004391 chain length determination region; other site 485917004392 substrate-Mg2+ binding site; other site 485917004393 catalytic residues [active] 485917004394 aspartate-rich region 1; other site 485917004395 active site lid residues [active] 485917004396 aspartate-rich region 2; other site 485917004397 ribonuclease R; Region: RNase_R; TIGR02063 485917004398 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 485917004399 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 485917004400 RNB domain; Region: RNB; pfam00773 485917004401 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 485917004402 RNA binding site [nucleotide binding]; other site 485917004403 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 485917004404 Mechanosensitive ion channel; Region: MS_channel; pfam00924 485917004405 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485917004406 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485917004407 Walker A/P-loop; other site 485917004408 ATP binding site [chemical binding]; other site 485917004409 Q-loop/lid; other site 485917004410 ABC transporter signature motif; other site 485917004411 Walker B; other site 485917004412 D-loop; other site 485917004413 H-loop/switch region; other site 485917004414 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 485917004415 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485917004416 Walker A/P-loop; other site 485917004417 ATP binding site [chemical binding]; other site 485917004418 Q-loop/lid; other site 485917004419 ABC transporter signature motif; other site 485917004420 Walker B; other site 485917004421 D-loop; other site 485917004422 H-loop/switch region; other site 485917004423 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485917004424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917004425 Coenzyme A binding pocket [chemical binding]; other site 485917004426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 485917004427 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 485917004428 polyphosphate kinase; Provisional; Region: PRK05443 485917004429 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 485917004430 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 485917004431 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 485917004432 domain interface [polypeptide binding]; other site 485917004433 active site 485917004434 catalytic site [active] 485917004435 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 485917004436 domain interface [polypeptide binding]; other site 485917004437 active site 485917004438 catalytic site [active] 485917004439 exopolyphosphatase; Region: exo_poly_only; TIGR03706 485917004440 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 485917004441 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 485917004442 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 485917004443 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 485917004444 dimer interface [polypeptide binding]; other site 485917004445 active site 485917004446 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 485917004447 active site 2 [active] 485917004448 active site 1 [active] 485917004449 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 485917004450 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 485917004451 malonyl-CoA binding site [chemical binding]; other site 485917004452 dimer interface [polypeptide binding]; other site 485917004453 active site 485917004454 product binding site; other site 485917004455 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 485917004456 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 485917004457 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 485917004458 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 485917004459 potential frameshift: common BLAST hit: gi|110639806|ref|YP_680016.1| glycerol kinase-related 485917004460 Domain of unknown function DUF11; Region: DUF11; pfam01345 485917004461 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917004462 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 485917004463 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917004464 DNA-binding site [nucleotide binding]; DNA binding site 485917004465 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 485917004466 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917004467 catalytic residue [active] 485917004468 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 485917004469 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917004470 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917004471 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 485917004472 ligand binding site [chemical binding]; other site 485917004473 flexible hinge region; other site 485917004474 Methylamine utilisation protein MauE; Region: MauE; pfam07291 485917004475 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 485917004476 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917004477 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917004478 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917004479 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917004480 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917004481 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917004482 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917004483 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917004484 FecR protein; Region: FecR; pfam04773 485917004485 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917004486 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917004487 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 485917004488 DNA binding residues [nucleotide binding] 485917004489 putative anti-sigmaE protein; Provisional; Region: PRK13920 485917004490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 485917004491 AAA domain; Region: AAA_33; pfam13671 485917004492 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 485917004493 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 485917004494 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917004495 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917004496 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 485917004497 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 485917004498 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 485917004499 putative active site [active] 485917004500 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 485917004501 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 485917004502 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 485917004503 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 485917004504 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 485917004505 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 485917004506 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 485917004507 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 485917004508 nucleotide binding site [chemical binding]; other site 485917004509 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 485917004510 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 485917004511 putative ligand binding site [chemical binding]; other site 485917004512 putative NAD binding site [chemical binding]; other site 485917004513 catalytic site [active] 485917004514 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 485917004515 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917004516 catalytic residues [active] 485917004517 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917004518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917004519 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 485917004520 putative hydrolase; Provisional; Region: PRK11460 485917004521 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 485917004522 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917004523 Zn binding site [ion binding]; other site 485917004524 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 485917004525 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917004526 Zn binding site [ion binding]; other site 485917004527 Surface antigen; Region: Bac_surface_Ag; pfam01103 485917004528 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 485917004529 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 485917004530 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 485917004531 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 485917004532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917004533 active site 485917004534 Class I aldolases; Region: Aldolase_Class_I; cl17187 485917004535 catalytic residue [active] 485917004536 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 485917004537 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 485917004538 metal binding site [ion binding]; metal-binding site 485917004539 Cytochrome c; Region: Cytochrom_C; cl11414 485917004540 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917004541 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917004542 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917004543 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917004544 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917004545 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 485917004546 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917004547 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917004548 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 485917004549 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 485917004550 active site 485917004551 dimer interface [polypeptide binding]; other site 485917004552 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 485917004553 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 485917004554 active site 485917004555 trimer interface [polypeptide binding]; other site 485917004556 allosteric site; other site 485917004557 active site lid [active] 485917004558 hexamer (dimer of trimers) interface [polypeptide binding]; other site 485917004559 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917004560 DNA binding site [nucleotide binding] 485917004561 domain linker motif; other site 485917004562 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 485917004563 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 485917004564 ligand binding site [chemical binding]; other site 485917004565 PAS fold; Region: PAS_4; pfam08448 485917004566 PAS domain; Region: PAS_9; pfam13426 485917004567 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 485917004568 putative active site [active] 485917004569 heme pocket [chemical binding]; other site 485917004570 PAS domain S-box; Region: sensory_box; TIGR00229 485917004571 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 485917004572 PAS fold; Region: PAS_3; pfam08447 485917004573 putative active site [active] 485917004574 heme pocket [chemical binding]; other site 485917004575 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 485917004576 dimer interface [polypeptide binding]; other site 485917004577 phosphorylation site [posttranslational modification] 485917004578 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 485917004579 ATP binding site [chemical binding]; other site 485917004580 Mg2+ binding site [ion binding]; other site 485917004581 G-X-G motif; other site 485917004582 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 485917004583 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 485917004584 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 485917004585 active site 485917004586 DNA binding site [nucleotide binding] 485917004587 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 485917004588 DNA binding site [nucleotide binding] 485917004589 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 485917004590 nucleotide binding site [chemical binding]; other site 485917004591 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 485917004592 catalytic site [active] 485917004593 BNR repeat-like domain; Region: BNR_2; pfam13088 485917004594 Asp-box motif; other site 485917004595 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 485917004596 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 485917004597 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 485917004598 Melibiase; Region: Melibiase; pfam02065 485917004599 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917004600 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917004601 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917004602 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917004603 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917004604 SusD family; Region: SusD; pfam07980 485917004605 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 485917004606 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 485917004607 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; cl00630 485917004608 putative active site [active] 485917004609 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 485917004610 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 485917004611 DNA binding site [nucleotide binding] 485917004612 heterodimer interface [polypeptide binding]; other site 485917004613 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 485917004614 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 485917004615 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 485917004616 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917004617 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 485917004618 dimer interface [polypeptide binding]; other site 485917004619 phosphorylation site [posttranslational modification] 485917004620 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 485917004621 ATP binding site [chemical binding]; other site 485917004622 Mg2+ binding site [ion binding]; other site 485917004623 G-X-G motif; other site 485917004624 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 485917004625 putative active site [active] 485917004626 heme pocket [chemical binding]; other site 485917004627 PAS fold; Region: PAS_4; pfam08448 485917004628 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 485917004629 putative active site [active] 485917004630 heme pocket [chemical binding]; other site 485917004631 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917004632 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 485917004633 phosphorylation site [posttranslational modification] 485917004634 dimer interface [polypeptide binding]; other site 485917004635 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 485917004636 putative hydrophobic ligand binding site [chemical binding]; other site 485917004637 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 485917004638 dimerization interface [polypeptide binding]; other site 485917004639 putative DNA binding site [nucleotide binding]; other site 485917004640 putative Zn2+ binding site [ion binding]; other site 485917004641 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 485917004642 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 485917004643 active site 485917004644 Competence-damaged protein; Region: CinA; pfam02464 485917004645 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 485917004646 classical (c) SDRs; Region: SDR_c; cd05233 485917004647 NAD(P) binding site [chemical binding]; other site 485917004648 active site 485917004649 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 485917004650 dimerization interface [polypeptide binding]; other site 485917004651 metal binding site [ion binding]; metal-binding site 485917004652 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 485917004653 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 485917004654 Mechanosensitive ion channel; Region: MS_channel; pfam00924 485917004655 Inorganic pyrophosphatase; Region: Pyrophosphatase; pfam00719 485917004656 dimer interface [polypeptide binding]; other site 485917004657 substrate binding site [chemical binding]; other site 485917004658 metal binding sites [ion binding]; metal-binding site 485917004659 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 485917004660 DNA-binding site [nucleotide binding]; DNA binding site 485917004661 RNA-binding motif; other site 485917004662 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 485917004663 Uncharacterized subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u3; cd12832 485917004664 oligomer interface [polypeptide binding]; other site 485917004665 metal binding site [ion binding]; metal-binding site 485917004666 putative Cl binding site [ion binding]; other site 485917004667 basic sphincter; other site 485917004668 hydrophobic gate; other site 485917004669 periplasmic entrance; other site 485917004670 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 485917004671 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917004672 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 485917004673 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 485917004674 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_1; cd08973 485917004675 putative DNA binding site [nucleotide binding]; other site 485917004676 catalytic residue [active] 485917004677 putative H2TH interface [polypeptide binding]; other site 485917004678 putative catalytic residues [active] 485917004679 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 485917004680 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 485917004681 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917004682 oxidoreductase; Provisional; Region: PRK06196 485917004683 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 485917004684 putative NAD(P) binding site [chemical binding]; other site 485917004685 active site 485917004686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917004687 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917004688 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485917004689 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917004690 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917004691 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917004692 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 485917004693 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 485917004694 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917004695 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485917004696 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917004697 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 485917004698 active site 485917004699 DNA binding site [nucleotide binding] 485917004700 Int/Topo IB signature motif; other site 485917004701 DinB family; Region: DinB; cl17821 485917004702 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917004703 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_15; cd07264 485917004704 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 485917004705 conserved cys residue [active] 485917004706 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917004707 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 485917004708 dimer interface [polypeptide binding]; other site 485917004709 Predicted membrane protein [Function unknown]; Region: COG2259 485917004710 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 485917004711 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 485917004712 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 485917004713 conserved cys residue [active] 485917004714 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917004715 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917004716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917004717 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917004718 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 485917004719 ligand binding site [chemical binding]; other site 485917004720 flexible hinge region; other site 485917004721 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917004722 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_24; cd09012 485917004723 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 485917004724 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 485917004725 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 485917004726 putative hydrophobic ligand binding site [chemical binding]; other site 485917004727 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 485917004728 homotrimer interaction site [polypeptide binding]; other site 485917004729 putative active site [active] 485917004730 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 485917004731 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 485917004732 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 485917004733 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917004734 Lipase (class 2); Region: Lipase_2; pfam01674 485917004735 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917004736 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 485917004737 Predicted membrane protein [Function unknown]; Region: COG4270 485917004738 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485917004739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917004740 Coenzyme A binding pocket [chemical binding]; other site 485917004741 Domain of unknown function (DUF4209); Region: DUF4209; pfam13910 485917004742 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 485917004743 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 485917004744 5' RNA guide strand anchoring site; other site 485917004745 active site 485917004746 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917004747 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917004748 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 485917004749 DNA binding residues [nucleotide binding] 485917004750 FecR protein; Region: FecR; pfam04773 485917004751 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917004752 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917004753 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917004754 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917004755 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917004756 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917004757 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917004758 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 485917004759 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 485917004760 phosphonate metabolism protein PhnM; Region: phosphono_phnM; TIGR02318 485917004761 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 485917004762 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 485917004763 active site 485917004764 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 485917004765 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 485917004766 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917004767 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917004768 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917004769 PAS fold; Region: PAS_4; pfam08448 485917004770 PAS domain S-box; Region: sensory_box; TIGR00229 485917004771 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 485917004772 putative active site [active] 485917004773 heme pocket [chemical binding]; other site 485917004774 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 485917004775 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 485917004776 dimer interface [polypeptide binding]; other site 485917004777 phosphorylation site [posttranslational modification] 485917004778 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 485917004779 ATP binding site [chemical binding]; other site 485917004780 Mg2+ binding site [ion binding]; other site 485917004781 G-X-G motif; other site 485917004782 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 485917004783 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 485917004784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917004785 catalytic residue [active] 485917004786 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 485917004787 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 485917004788 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917004789 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917004790 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917004791 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 485917004792 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485917004793 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 485917004794 non-specific DNA binding site [nucleotide binding]; other site 485917004795 salt bridge; other site 485917004796 sequence-specific DNA binding site [nucleotide binding]; other site 485917004797 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917004798 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917004799 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917004800 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 485917004801 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 485917004802 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917004803 TIGR02594 family protein; Region: TIGR02594 485917004804 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 485917004805 DoxX-like family; Region: DoxX_2; pfam13564 485917004806 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 485917004807 heme-binding site [chemical binding]; other site 485917004808 He_PIG associated, NEW1 domain of bacterial glycohydrolase; Region: He_PIG_assoc; pfam10632 485917004809 Putative Ig domain; Region: He_PIG; pfam05345 485917004810 alpha-galactosidase; Region: PLN02808; cl17638 485917004811 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485917004812 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 485917004813 active site 485917004814 phosphorylation site [posttranslational modification] 485917004815 intermolecular recognition site; other site 485917004816 dimerization interface [polypeptide binding]; other site 485917004817 LytTr DNA-binding domain; Region: LytTR; smart00850 485917004818 Histidine kinase; Region: His_kinase; pfam06580 485917004819 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485917004820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917004821 NAD(P) binding site [chemical binding]; other site 485917004822 active site 485917004823 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 485917004824 YceG-like family; Region: YceG; pfam02618 485917004825 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 485917004826 dimerization interface [polypeptide binding]; other site 485917004827 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 485917004828 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 485917004829 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 485917004830 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 485917004831 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 485917004832 ATP-grasp domain; Region: ATP-grasp_4; cl17255 485917004833 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 485917004834 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 485917004835 ligand binding site [chemical binding]; other site 485917004836 flexible hinge region; other site 485917004837 putative switch regulator; other site 485917004838 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 485917004839 non-specific DNA interactions [nucleotide binding]; other site 485917004840 DNA binding site [nucleotide binding] 485917004841 sequence specific DNA binding site [nucleotide binding]; other site 485917004842 putative cAMP binding site [chemical binding]; other site 485917004843 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_14; cd13139 485917004844 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 485917004845 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 485917004846 active site 485917004847 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 485917004848 16S/18S rRNA binding site [nucleotide binding]; other site 485917004849 S13e-L30e interaction site [polypeptide binding]; other site 485917004850 25S rRNA binding site [nucleotide binding]; other site 485917004851 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 485917004852 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 485917004853 RNase E interface [polypeptide binding]; other site 485917004854 trimer interface [polypeptide binding]; other site 485917004855 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 485917004856 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 485917004857 RNase E interface [polypeptide binding]; other site 485917004858 trimer interface [polypeptide binding]; other site 485917004859 active site 485917004860 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 485917004861 putative nucleic acid binding region [nucleotide binding]; other site 485917004862 G-X-X-G motif; other site 485917004863 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 485917004864 RNA binding site [nucleotide binding]; other site 485917004865 domain interface; other site 485917004866 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 485917004867 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 485917004868 substrate binding site [chemical binding]; other site 485917004869 hexamer interface [polypeptide binding]; other site 485917004870 metal binding site [ion binding]; metal-binding site 485917004871 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917004872 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917004873 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917004874 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917004875 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 485917004876 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917004877 catalytic residue [active] 485917004878 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 485917004879 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 485917004880 putative ligand binding site [chemical binding]; other site 485917004881 NAD binding site [chemical binding]; other site 485917004882 dimerization interface [polypeptide binding]; other site 485917004883 catalytic site [active] 485917004884 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 485917004885 Uncharacterized conserved protein [Function unknown]; Region: COG4198 485917004886 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 485917004887 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 485917004888 PhoH-like protein; Region: PhoH; pfam02562 485917004889 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 485917004890 ATP binding site [chemical binding]; other site 485917004891 active site 485917004892 substrate binding site [chemical binding]; other site 485917004893 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 485917004894 anti sigma factor interaction site; other site 485917004895 regulatory phosphorylation site [posttranslational modification]; other site 485917004896 ribonuclease Z; Region: RNase_Z; TIGR02651 485917004897 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 485917004898 mce related protein; Region: MCE; pfam02470 485917004899 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485917004900 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 485917004901 active site 485917004902 metal binding site [ion binding]; metal-binding site 485917004903 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485917004904 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 485917004905 active site 485917004906 metal binding site [ion binding]; metal-binding site 485917004907 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 485917004908 competence damage-inducible protein A; Provisional; Region: PRK00549 485917004909 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 485917004910 putative MPT binding site; other site 485917004911 Competence-damaged protein; Region: CinA; pfam02464 485917004912 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 485917004913 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 485917004914 E3 interaction surface; other site 485917004915 lipoyl attachment site [posttranslational modification]; other site 485917004916 e3 binding domain; Region: E3_binding; pfam02817 485917004917 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 485917004918 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 485917004919 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 485917004920 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 485917004921 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 485917004922 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 485917004923 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 485917004924 homodimer interface [polypeptide binding]; other site 485917004925 substrate-cofactor binding pocket; other site 485917004926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917004927 catalytic residue [active] 485917004928 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 485917004929 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 485917004930 homodimer interface [polypeptide binding]; other site 485917004931 substrate-cofactor binding pocket; other site 485917004932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917004933 catalytic residue [active] 485917004934 NIPSNAP; Region: NIPSNAP; pfam07978 485917004935 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 485917004936 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 485917004937 FeS/SAM binding site; other site 485917004938 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 485917004939 catalytic core [active] 485917004940 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 485917004941 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 485917004942 MutS domain I; Region: MutS_I; pfam01624 485917004943 MutS domain II; Region: MutS_II; pfam05188 485917004944 MutS domain III; Region: MutS_III; pfam05192 485917004945 MutS domain V; Region: MutS_V; pfam00488 485917004946 Walker A/P-loop; other site 485917004947 ATP binding site [chemical binding]; other site 485917004948 Q-loop/lid; other site 485917004949 ABC transporter signature motif; other site 485917004950 Walker B; other site 485917004951 D-loop; other site 485917004952 H-loop/switch region; other site 485917004953 NlpC/P60 family; Region: NLPC_P60; pfam00877 485917004954 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 485917004955 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 485917004956 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 485917004957 Domain of Unknown Function with PDB structure (DUF3858); Region: DUF3858; pfam12970 485917004958 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 485917004959 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 485917004960 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 485917004961 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 485917004962 active site 485917004963 catalytic site [active] 485917004964 substrate binding site [chemical binding]; other site 485917004965 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 485917004966 Zn binding site [ion binding]; other site 485917004967 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 485917004968 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 485917004969 Predicted amidohydrolase [General function prediction only]; Region: COG0388 485917004970 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 485917004971 putative active site [active] 485917004972 catalytic triad [active] 485917004973 putative dimer interface [polypeptide binding]; other site 485917004974 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 485917004975 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 485917004976 Walker A motif; other site 485917004977 ATP binding site [chemical binding]; other site 485917004978 Walker B motif; other site 485917004979 arginine finger; other site 485917004980 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 485917004981 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 485917004982 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 485917004983 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 485917004984 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 485917004985 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 485917004986 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 485917004987 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 485917004988 AIR carboxylase; Region: AIRC; pfam00731 485917004989 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 485917004990 ATP-grasp domain; Region: ATP-grasp; pfam02222 485917004991 HI0933-like protein; Region: HI0933_like; pfam03486 485917004992 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485917004993 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 485917004994 reactive center loop; other site 485917004995 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 485917004996 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 485917004997 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 485917004998 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 485917004999 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 485917005000 active site 485917005001 DEAD-like helicases superfamily; Region: DEXDc; smart00487 485917005002 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 485917005003 ATP binding site [chemical binding]; other site 485917005004 putative Mg++ binding site [ion binding]; other site 485917005005 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 485917005006 nucleotide binding region [chemical binding]; other site 485917005007 ATP-binding site [chemical binding]; other site 485917005008 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 485917005009 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 485917005010 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 485917005011 Cysteine-rich domain; Region: CCG; pfam02754 485917005012 Cysteine-rich domain; Region: CCG; pfam02754 485917005013 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 485917005014 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 485917005015 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 485917005016 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 485917005017 active site 485917005018 dimer interface [polypeptide binding]; other site 485917005019 motif 1; other site 485917005020 motif 2; other site 485917005021 motif 3; other site 485917005022 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 485917005023 anticodon binding site; other site 485917005024 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 485917005025 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 485917005026 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 485917005027 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 485917005028 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 485917005029 23S rRNA binding site [nucleotide binding]; other site 485917005030 L21 binding site [polypeptide binding]; other site 485917005031 L13 binding site [polypeptide binding]; other site 485917005032 AAA domain; Region: AAA_26; pfam13500 485917005033 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 485917005034 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 485917005035 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 485917005036 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917005037 catalytic residue [active] 485917005038 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485917005039 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 485917005040 non-specific DNA binding site [nucleotide binding]; other site 485917005041 salt bridge; other site 485917005042 sequence-specific DNA binding site [nucleotide binding]; other site 485917005043 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 485917005044 Catalytic site [active] 485917005045 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 485917005046 GIY-YIG motif/motif A; other site 485917005047 putative active site [active] 485917005048 putative metal binding site [ion binding]; other site 485917005049 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 485917005050 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 485917005051 Surface antigen; Region: Bac_surface_Ag; pfam01103 485917005052 Transglycosylase; Region: Transgly; pfam00912 485917005053 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 485917005054 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 485917005055 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 485917005056 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 485917005057 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917005058 potential frameshift: common BLAST hit: gi|29346900|ref|NP_810403.1| surface protein 485917005059 Uncharacterized conserved protein [Function unknown]; Region: COG3391 485917005060 potential frameshift: common BLAST hit: gi|29346900|ref|NP_810403.1| surface protein 485917005061 Outer membrane efflux protein; Region: OEP; pfam02321 485917005062 Outer membrane efflux protein; Region: OEP; pfam02321 485917005063 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917005064 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917005065 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 485917005066 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 485917005067 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 485917005068 ABC-2 type transporter; Region: ABC2_membrane; cl17235 485917005069 Protein of unknown function DUF72; Region: DUF72; pfam01904 485917005070 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917005071 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917005072 FecR protein; Region: FecR; pfam04773 485917005073 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917005074 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 485917005075 DNA binding residues [nucleotide binding] 485917005076 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 485917005077 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917005078 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917005079 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 485917005080 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 485917005081 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485917005082 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485917005083 putative metal binding site [ion binding]; other site 485917005084 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485917005085 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485917005086 putative metal binding site [ion binding]; other site 485917005087 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 485917005088 Integral membrane protein TerC family; Region: TerC; cl10468 485917005089 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 485917005090 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917005091 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917005092 ligand binding site [chemical binding]; other site 485917005093 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 485917005094 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 485917005095 Beta-Casp domain; Region: Beta-Casp; smart01027 485917005096 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 485917005097 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 485917005098 NADH(P)-binding; Region: NAD_binding_10; pfam13460 485917005099 putative NAD(P) binding site [chemical binding]; other site 485917005100 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 485917005101 DNA-binding site [nucleotide binding]; DNA binding site 485917005102 RNA-binding motif; other site 485917005103 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 485917005104 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485917005105 putative active site [active] 485917005106 heme pocket [chemical binding]; other site 485917005107 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485917005108 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 485917005109 putative active site [active] 485917005110 heme pocket [chemical binding]; other site 485917005111 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 485917005112 dimer interface [polypeptide binding]; other site 485917005113 phosphorylation site [posttranslational modification] 485917005114 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 485917005115 ATP binding site [chemical binding]; other site 485917005116 Mg2+ binding site [ion binding]; other site 485917005117 G-X-G motif; other site 485917005118 Response regulator receiver domain; Region: Response_reg; pfam00072 485917005119 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 485917005120 active site 485917005121 phosphorylation site [posttranslational modification] 485917005122 intermolecular recognition site; other site 485917005123 dimerization interface [polypeptide binding]; other site 485917005124 Response regulator receiver domain; Region: Response_reg; pfam00072 485917005125 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 485917005126 active site 485917005127 phosphorylation site [posttranslational modification] 485917005128 intermolecular recognition site; other site 485917005129 dimerization interface [polypeptide binding]; other site 485917005130 Response regulator receiver domain; Region: Response_reg; pfam00072 485917005131 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 485917005132 active site 485917005133 phosphorylation site [posttranslational modification] 485917005134 intermolecular recognition site; other site 485917005135 dimerization interface [polypeptide binding]; other site 485917005136 Bacterial sugar transferase; Region: Bac_transf; pfam02397 485917005137 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 485917005138 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: GT1_like_1; cd04950 485917005139 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917005140 putative homodimer interface [polypeptide binding]; other site 485917005141 Outer membrane efflux protein; Region: OEP; pfam02321 485917005142 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 485917005143 Chain length determinant protein; Region: Wzz; cl15801 485917005144 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 485917005145 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 485917005146 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 485917005147 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 485917005148 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 485917005149 trimer interface [polypeptide binding]; other site 485917005150 active site 485917005151 substrate binding site [chemical binding]; other site 485917005152 CoA binding site [chemical binding]; other site 485917005153 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 485917005154 active site 485917005155 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: GT1_like_1; cd04950 485917005156 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917005157 putative homodimer interface [polypeptide binding]; other site 485917005158 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 485917005159 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 485917005160 DXD motif; other site 485917005161 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 485917005162 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 485917005163 active site 485917005164 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 485917005165 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 485917005166 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485917005167 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 485917005168 colanic acid exporter; Provisional; Region: PRK10459 485917005169 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 485917005170 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 485917005171 active site 485917005172 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 485917005173 GDP-Fucose binding site [chemical binding]; other site 485917005174 Core-2/I-Branching enzyme; Region: Branch; pfam02485 485917005175 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 485917005176 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 485917005177 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 485917005178 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 485917005179 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 485917005180 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 485917005181 Acyltransferase family; Region: Acyl_transf_3; pfam01757 485917005182 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917005183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917005184 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 485917005185 DNA binding residues [nucleotide binding] 485917005186 FecR protein; Region: FecR; pfam04773 485917005187 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917005188 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917005189 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005190 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917005191 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917005192 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917005193 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917005194 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 485917005195 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917005196 catalytic residues [active] 485917005197 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917005198 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917005199 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 485917005200 DNA binding residues [nucleotide binding] 485917005201 FecR protein; Region: FecR; pfam04773 485917005202 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917005203 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005204 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917005205 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917005206 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917005207 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917005208 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917005209 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 485917005210 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917005211 catalytic residues [active] 485917005212 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 485917005213 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 485917005214 active site 485917005215 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485917005216 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 485917005217 non-specific DNA binding site [nucleotide binding]; other site 485917005218 salt bridge; other site 485917005219 sequence-specific DNA binding site [nucleotide binding]; other site 485917005220 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917005221 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 485917005222 Family description; Region: UvrD_C_2; pfam13538 485917005223 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 485917005224 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 485917005225 inhibitor-cofactor binding pocket; inhibition site 485917005226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917005227 catalytic residue [active] 485917005228 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485917005229 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 485917005230 active site 485917005231 Acyl transferase domain; Region: Acyl_transf_1; cl08282 485917005232 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 485917005233 Cytochrome P450; Region: p450; cl12078 485917005234 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 485917005235 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485917005236 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 485917005237 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917005238 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 485917005239 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485917005240 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 485917005241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917005242 Walker A/P-loop; other site 485917005243 ATP binding site [chemical binding]; other site 485917005244 Q-loop/lid; other site 485917005245 ABC transporter signature motif; other site 485917005246 Walker B; other site 485917005247 D-loop; other site 485917005248 H-loop/switch region; other site 485917005249 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 485917005250 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485917005251 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 485917005252 active site 485917005253 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 485917005254 active site 485917005255 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 485917005256 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 485917005257 Walker A/P-loop; other site 485917005258 ATP binding site [chemical binding]; other site 485917005259 Q-loop/lid; other site 485917005260 ABC transporter signature motif; other site 485917005261 Walker B; other site 485917005262 D-loop; other site 485917005263 H-loop/switch region; other site 485917005264 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 485917005265 putative carbohydrate binding site [chemical binding]; other site 485917005266 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 485917005267 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 485917005268 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 485917005269 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 485917005270 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485917005271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 485917005272 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 485917005273 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 485917005274 Probable Catalytic site; other site 485917005275 metal-binding site 485917005276 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 485917005277 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 485917005278 DXD motif; other site 485917005279 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 485917005280 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 485917005281 Condensation domain; Region: Condensation; pfam00668 485917005282 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 485917005283 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 485917005284 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 485917005285 acyl-activating enzyme (AAE) consensus motif; other site 485917005286 AMP binding site [chemical binding]; other site 485917005287 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485917005288 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 485917005289 S-adenosylmethionine binding site [chemical binding]; other site 485917005290 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485917005291 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 485917005292 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 485917005293 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 485917005294 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 485917005295 acyl-activating enzyme (AAE) consensus motif; other site 485917005296 AMP binding site [chemical binding]; other site 485917005297 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 485917005298 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 485917005299 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 485917005300 active site 485917005301 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 485917005302 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 485917005303 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 485917005304 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 485917005305 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 485917005306 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917005307 catalytic residue [active] 485917005308 Peptidase S46; Region: Peptidase_S46; pfam10459 485917005309 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 485917005310 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 485917005311 GAF domain; Region: GAF_2; pfam13185 485917005312 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 485917005313 active site 485917005314 DNA binding site [nucleotide binding] 485917005315 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 485917005316 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 485917005317 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 485917005318 putative active site [active] 485917005319 Zn binding site [ion binding]; other site 485917005320 DNA topoisomerase III; Provisional; Region: PRK07726 485917005321 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 485917005322 active site 485917005323 putative interdomain interaction site [polypeptide binding]; other site 485917005324 putative metal-binding site [ion binding]; other site 485917005325 putative nucleotide binding site [chemical binding]; other site 485917005326 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 485917005327 domain I; other site 485917005328 DNA binding groove [nucleotide binding] 485917005329 phosphate binding site [ion binding]; other site 485917005330 domain II; other site 485917005331 domain III; other site 485917005332 nucleotide binding site [chemical binding]; other site 485917005333 catalytic site [active] 485917005334 domain IV; other site 485917005335 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 485917005336 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 485917005337 homodimer interface [polypeptide binding]; other site 485917005338 substrate-cofactor binding pocket; other site 485917005339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917005340 catalytic residue [active] 485917005341 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 485917005342 homodimer interface [polypeptide binding]; other site 485917005343 homotetramer interface [polypeptide binding]; other site 485917005344 active site pocket [active] 485917005345 cleavage site 485917005346 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 485917005347 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 485917005348 Domain of unknown function (DU1801); Region: DUF1801; cl17490 485917005349 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 485917005350 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 485917005351 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 485917005352 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 485917005353 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 485917005354 dimer interface [polypeptide binding]; other site 485917005355 Citrate synthase; Region: Citrate_synt; pfam00285 485917005356 active site 485917005357 citrylCoA binding site [chemical binding]; other site 485917005358 NADH binding [chemical binding]; other site 485917005359 cationic pore residues; other site 485917005360 oxalacetate/citrate binding site [chemical binding]; other site 485917005361 coenzyme A binding site [chemical binding]; other site 485917005362 catalytic triad [active] 485917005363 nucleoside transporter; Region: 2A0110; TIGR00889 485917005364 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 485917005365 putative substrate translocation pore; other site 485917005366 Bifunctional nuclease; Region: DNase-RNase; pfam02577 485917005367 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 485917005368 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 485917005369 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 485917005370 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 485917005371 Ligand binding site [chemical binding]; other site 485917005372 Electron transfer flavoprotein domain; Region: ETF; pfam01012 485917005373 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 485917005374 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917005375 binding surface 485917005376 TPR motif; other site 485917005377 Chromate transporter; Region: Chromate_transp; pfam02417 485917005378 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 485917005379 Chromate transporter; Region: Chromate_transp; pfam02417 485917005380 replicative DNA helicase; Region: DnaB; TIGR00665 485917005381 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 485917005382 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 485917005383 Walker A motif; other site 485917005384 ATP binding site [chemical binding]; other site 485917005385 Walker B motif; other site 485917005386 DNA binding loops [nucleotide binding] 485917005387 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 485917005388 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 485917005389 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 485917005390 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 485917005391 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 485917005392 Substrate binding site; other site 485917005393 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 485917005394 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 485917005395 putative active site [active] 485917005396 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 485917005397 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 485917005398 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 485917005399 ATP binding site [chemical binding]; other site 485917005400 putative Mg++ binding site [ion binding]; other site 485917005401 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 485917005402 nucleotide binding region [chemical binding]; other site 485917005403 ATP-binding site [chemical binding]; other site 485917005404 RQC domain; Region: RQC; pfam09382 485917005405 HRDC domain; Region: HRDC; pfam00570 485917005406 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 485917005407 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 485917005408 binding surface 485917005409 Tetratricopeptide repeat; Region: TPR_16; pfam13432 485917005410 TPR motif; other site 485917005411 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 485917005412 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 485917005413 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 485917005414 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 485917005415 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917005416 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917005417 ligand binding site [chemical binding]; other site 485917005418 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 485917005419 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 485917005420 FeS/SAM binding site; other site 485917005421 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; cd03467 485917005422 iron-sulfur cluster [ion binding]; other site 485917005423 [2Fe-2S] cluster binding site [ion binding]; other site 485917005424 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 485917005425 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 485917005426 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 485917005427 homodimer interface [polypeptide binding]; other site 485917005428 NADP binding site [chemical binding]; other site 485917005429 substrate binding site [chemical binding]; other site 485917005430 GTP-binding protein LepA; Provisional; Region: PRK05433 485917005431 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 485917005432 G1 box; other site 485917005433 putative GEF interaction site [polypeptide binding]; other site 485917005434 GTP/Mg2+ binding site [chemical binding]; other site 485917005435 Switch I region; other site 485917005436 G2 box; other site 485917005437 G3 box; other site 485917005438 Switch II region; other site 485917005439 G4 box; other site 485917005440 G5 box; other site 485917005441 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 485917005442 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 485917005443 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 485917005444 C-N hydrolase family amidase; Provisional; Region: PRK10438 485917005445 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 485917005446 putative active site [active] 485917005447 catalytic triad [active] 485917005448 dimer interface [polypeptide binding]; other site 485917005449 multimer interface [polypeptide binding]; other site 485917005450 methionine aminotransferase; Validated; Region: PRK09082 485917005451 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 485917005452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917005453 homodimer interface [polypeptide binding]; other site 485917005454 catalytic residue [active] 485917005455 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 485917005456 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 485917005457 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 485917005458 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 485917005459 active site 485917005460 catalytic tetrad [active] 485917005461 hypothetical protein; Provisional; Region: PRK11239 485917005462 Protein of unknown function, DUF480; Region: DUF480; pfam04337 485917005463 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005464 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917005465 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917005466 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917005467 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917005468 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917005469 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 485917005470 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485917005471 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 485917005472 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485917005473 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 485917005474 non-specific DNA binding site [nucleotide binding]; other site 485917005475 salt bridge; other site 485917005476 sequence-specific DNA binding site [nucleotide binding]; other site 485917005477 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 485917005478 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 485917005479 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 485917005480 DNA photolyase; Region: DNA_photolyase; pfam00875 485917005481 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 485917005482 beta-carotene hydroxylase; Region: PLN02601 485917005483 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 485917005484 putative hydrophobic ligand binding site [chemical binding]; other site 485917005485 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 485917005486 active site lid residues [active] 485917005487 substrate binding pocket [chemical binding]; other site 485917005488 catalytic residues [active] 485917005489 substrate-Mg2+ binding site; other site 485917005490 aspartate-rich region 1; other site 485917005491 aspartate-rich region 2; other site 485917005492 phytoene desaturase; Region: crtI_fam; TIGR02734 485917005493 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485917005494 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 485917005495 Transcriptional regulators [Transcription]; Region: MarR; COG1846 485917005496 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 485917005497 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 485917005498 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 485917005499 active site 485917005500 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917005501 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 485917005502 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917005503 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485917005504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917005505 Walker A/P-loop; other site 485917005506 ATP binding site [chemical binding]; other site 485917005507 ABC transporter signature motif; other site 485917005508 Walker B; other site 485917005509 D-loop; other site 485917005510 H-loop/switch region; other site 485917005511 ABC transporter; Region: ABC_tran_2; pfam12848 485917005512 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485917005513 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917005514 Beta-lactamase; Region: Beta-lactamase; pfam00144 485917005515 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 485917005516 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 485917005517 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 485917005518 NAD(P) binding site [chemical binding]; other site 485917005519 catalytic residues [active] 485917005520 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 485917005521 putative hydrophobic ligand binding site [chemical binding]; other site 485917005522 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 485917005523 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 485917005524 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 485917005525 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 485917005526 Rdx family; Region: Rdx; cl01407 485917005527 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917005528 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917005529 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 485917005530 binding surface 485917005531 TPR motif; other site 485917005532 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917005533 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917005534 Histidine kinase; Region: HisKA_3; pfam07730 485917005535 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 485917005536 ATP binding site [chemical binding]; other site 485917005537 Mg2+ binding site [ion binding]; other site 485917005538 G-X-G motif; other site 485917005539 Beta-lactamase; Region: Beta-lactamase; cl17358 485917005540 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917005541 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917005542 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 485917005543 dimer interface [polypeptide binding]; other site 485917005544 phosphorylation site [posttranslational modification] 485917005545 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 485917005546 ATP binding site [chemical binding]; other site 485917005547 Mg2+ binding site [ion binding]; other site 485917005548 G-X-G motif; other site 485917005549 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 485917005550 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 485917005551 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 485917005552 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 485917005553 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 485917005554 ATP binding site [chemical binding]; other site 485917005555 Mg2+ binding site [ion binding]; other site 485917005556 G-X-G motif; other site 485917005557 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 485917005558 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 485917005559 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 485917005560 Response regulator receiver domain; Region: Response_reg; pfam00072 485917005561 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 485917005562 active site 485917005563 phosphorylation site [posttranslational modification] 485917005564 intermolecular recognition site; other site 485917005565 dimerization interface [polypeptide binding]; other site 485917005566 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917005567 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 485917005568 dimerization interface [polypeptide binding]; other site 485917005569 putative DNA binding site [nucleotide binding]; other site 485917005570 putative Zn2+ binding site [ion binding]; other site 485917005571 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 485917005572 hydrophobic ligand binding site; other site 485917005573 DoxX-like family; Region: DoxX_2; pfam13564 485917005574 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 485917005575 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917005576 L-fucose transporter; Provisional; Region: PRK10133; cl17665 485917005577 Predicted transcriptional regulators [Transcription]; Region: COG1733 485917005578 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 485917005579 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 485917005580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917005581 NAD(P) binding site [chemical binding]; other site 485917005582 active site 485917005583 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 485917005584 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 485917005585 PhnA protein; Region: PhnA; pfam03831 485917005586 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 485917005587 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 485917005588 active site 485917005589 motif I; other site 485917005590 motif II; other site 485917005591 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 485917005592 active site 485917005593 intersubunit interactions; other site 485917005594 catalytic residue [active] 485917005595 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 485917005596 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 485917005597 active site 485917005598 dimer interface [polypeptide binding]; other site 485917005599 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 485917005600 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 485917005601 active site 485917005602 FMN binding site [chemical binding]; other site 485917005603 substrate binding site [chemical binding]; other site 485917005604 3Fe-4S cluster binding site [ion binding]; other site 485917005605 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 485917005606 domain interface; other site 485917005607 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 485917005608 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 485917005609 galactokinase; Provisional; Region: PRK05322 485917005610 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 485917005611 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 485917005612 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 485917005613 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 485917005614 active site 485917005615 catalytic residues [active] 485917005616 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 485917005617 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 485917005618 catalytic residues [active] 485917005619 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917005620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917005621 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 485917005622 DNA binding residues [nucleotide binding] 485917005623 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917005624 FecR protein; Region: FecR; pfam04773 485917005625 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917005626 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005627 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917005628 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917005629 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917005630 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917005631 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 485917005632 MPN+ (JAMM) motif; other site 485917005633 Zinc-binding site [ion binding]; other site 485917005634 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485917005635 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 485917005636 multidrug efflux protein; Reviewed; Region: PRK01766 485917005637 cation binding site [ion binding]; other site 485917005638 Divergent AAA domain; Region: AAA_4; pfam04326 485917005639 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; cl17557 485917005640 benzoate transport; Region: 2A0115; TIGR00895 485917005641 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 485917005642 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 485917005643 DNA gyrase subunit A; Validated; Region: PRK05560 485917005644 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 485917005645 CAP-like domain; other site 485917005646 active site 485917005647 primary dimer interface [polypeptide binding]; other site 485917005648 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 485917005649 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 485917005650 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 485917005651 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 485917005652 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 485917005653 binding surface 485917005654 TPR repeat; Region: TPR_11; pfam13414 485917005655 TPR motif; other site 485917005656 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 485917005657 binding surface 485917005658 TPR motif; other site 485917005659 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 485917005660 binding surface 485917005661 Tetratricopeptide repeat; Region: TPR_16; pfam13432 485917005662 TPR motif; other site 485917005663 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 485917005664 TPR motif; other site 485917005665 binding surface 485917005666 TIGR01666 family membrane protein; Region: YCCS 485917005667 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 485917005668 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 485917005669 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 485917005670 biotin synthase; Region: bioB; TIGR00433 485917005671 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 485917005672 FeS/SAM binding site; other site 485917005673 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 485917005674 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 485917005675 MgtE intracellular N domain; Region: MgtE_N; pfam03448 485917005676 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 485917005677 Divalent cation transporter; Region: MgtE; pfam01769 485917005678 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 485917005679 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 485917005680 oligomer interface [polypeptide binding]; other site 485917005681 metal binding site [ion binding]; metal-binding site 485917005682 metal binding site [ion binding]; metal-binding site 485917005683 Cl binding site [ion binding]; other site 485917005684 aspartate ring; other site 485917005685 basic sphincter; other site 485917005686 putative hydrophobic gate; other site 485917005687 periplasmic entrance; other site 485917005688 WbqC-like protein family; Region: WbqC; pfam08889 485917005689 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 485917005690 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 485917005691 putative acyl-acceptor binding pocket; other site 485917005692 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 485917005693 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 485917005694 Probable Catalytic site; other site 485917005695 metal-binding site 485917005696 Dehydroquinase class II; Region: DHquinase_II; pfam01220 485917005697 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 485917005698 trimer interface [polypeptide binding]; other site 485917005699 active site 485917005700 dimer interface [polypeptide binding]; other site 485917005701 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 485917005702 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 485917005703 active site 485917005704 Int/Topo IB signature motif; other site 485917005705 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 485917005706 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 485917005707 S-adenosylmethionine binding site [chemical binding]; other site 485917005708 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 485917005709 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 485917005710 catalytic motif [active] 485917005711 Zn binding site [ion binding]; other site 485917005712 RibD C-terminal domain; Region: RibD_C; pfam01872 485917005713 Uncharacterized conserved protein [Function unknown]; Region: COG1739 485917005714 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 485917005715 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 485917005716 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 485917005717 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 485917005718 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 485917005719 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 485917005720 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 485917005721 Ligand Binding Site [chemical binding]; other site 485917005722 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 485917005723 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917005724 active site 485917005725 metal binding site [ion binding]; metal-binding site 485917005726 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 485917005727 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 485917005728 catalytic residues [active] 485917005729 dimer interface [polypeptide binding]; other site 485917005730 DNA topoisomerase I; Validated; Region: PRK05582 485917005731 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 485917005732 active site 485917005733 interdomain interaction site; other site 485917005734 putative metal-binding site [ion binding]; other site 485917005735 nucleotide binding site [chemical binding]; other site 485917005736 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 485917005737 domain I; other site 485917005738 DNA binding groove [nucleotide binding] 485917005739 phosphate binding site [ion binding]; other site 485917005740 domain II; other site 485917005741 domain III; other site 485917005742 nucleotide binding site [chemical binding]; other site 485917005743 catalytic site [active] 485917005744 domain IV; other site 485917005745 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 485917005746 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 485917005747 MG2 domain; Region: A2M_N; pfam01835 485917005748 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 485917005749 Alpha-2-macroglobulin family; Region: A2M; pfam00207 485917005750 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 485917005751 surface patch; other site 485917005752 thioester region; other site 485917005753 specificity defining residues; other site 485917005754 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 485917005755 Transglycosylase; Region: Transgly; pfam00912 485917005756 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 485917005757 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 485917005758 YhhN-like protein; Region: YhhN; pfam07947 485917005759 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 485917005760 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 485917005761 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 485917005762 substrate-cofactor binding pocket; other site 485917005763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917005764 catalytic residue [active] 485917005765 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485917005766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917005767 NAD(P) binding site [chemical binding]; other site 485917005768 active site 485917005769 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 485917005770 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 485917005771 generic binding surface II; other site 485917005772 generic binding surface I; other site 485917005773 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 485917005774 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 485917005775 dimer interface [polypeptide binding]; other site 485917005776 catalytic triad [active] 485917005777 Methane oxygenase PmoA; Region: PmoA; pfam14100 485917005778 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917005779 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917005780 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917005781 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917005782 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 485917005783 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 485917005784 Na binding site [ion binding]; other site 485917005785 substrate binding site [chemical binding]; other site 485917005786 Cytochrome c; Region: Cytochrom_C; cl11414 485917005787 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917005788 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 485917005789 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917005790 putative substrate translocation pore; other site 485917005791 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 485917005792 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 485917005793 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 485917005794 Cytochrome c; Region: Cytochrom_C; cl11414 485917005795 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 485917005796 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917005797 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 485917005798 D-galactonate transporter; Region: 2A0114; TIGR00893 485917005799 putative substrate translocation pore; other site 485917005800 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 485917005801 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 485917005802 Galactose oxidase, central domain; Region: Kelch_3; cl02701 485917005803 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 485917005804 Class I aldolases; Region: Aldolase_Class_I; cl17187 485917005805 catalytic residue [active] 485917005806 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 485917005807 catalytic site [active] 485917005808 BNR repeat-like domain; Region: BNR_2; pfam13088 485917005809 Asp-box motif; other site 485917005810 Transcriptional regulators [Transcription]; Region: FadR; COG2186 485917005811 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917005812 DNA-binding site [nucleotide binding]; DNA binding site 485917005813 FCD domain; Region: FCD; pfam07729 485917005814 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 485917005815 catalytic site [active] 485917005816 Asp-box motif; other site 485917005817 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917005818 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917005819 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005820 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917005821 Fasciclin domain; Region: Fasciclin; pfam02469 485917005822 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917005823 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917005824 SusD family; Region: SusD; pfam07980 485917005825 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005826 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917005827 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917005828 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917005829 Fasciclin domain; Region: Fasciclin; cl02663 485917005830 Fasciclin domain; Region: Fasciclin; cl02663 485917005831 Fasciclin domain; Region: Fasciclin; pfam02469 485917005832 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 485917005833 catalytic site [active] 485917005834 BNR repeat-like domain; Region: BNR_2; pfam13088 485917005835 Asp-box motif; other site 485917005836 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 485917005837 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 485917005838 inhibitor site; inhibition site 485917005839 active site 485917005840 dimer interface [polypeptide binding]; other site 485917005841 catalytic residue [active] 485917005842 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917005843 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917005844 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005845 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917005846 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917005847 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917005848 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 485917005849 catalytic site [active] 485917005850 BNR repeat-like domain; Region: BNR_2; pfam13088 485917005851 Asp-box motif; other site 485917005852 Transcriptional regulators [Transcription]; Region: FadR; COG2186 485917005853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917005854 DNA-binding site [nucleotide binding]; DNA binding site 485917005855 FCD domain; Region: FCD; pfam07729 485917005856 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 485917005857 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 485917005858 active site 485917005859 homotetramer interface [polypeptide binding]; other site 485917005860 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 485917005861 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 485917005862 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 485917005863 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917005864 Beta-lactamase; Region: Beta-lactamase; pfam00144 485917005865 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485917005866 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485917005867 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917005868 Walker A/P-loop; other site 485917005869 ATP binding site [chemical binding]; other site 485917005870 Q-loop/lid; other site 485917005871 ABC transporter signature motif; other site 485917005872 Walker B; other site 485917005873 D-loop; other site 485917005874 H-loop/switch region; other site 485917005875 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485917005876 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485917005877 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917005878 Walker A/P-loop; other site 485917005879 ATP binding site [chemical binding]; other site 485917005880 Q-loop/lid; other site 485917005881 ABC transporter signature motif; other site 485917005882 Walker B; other site 485917005883 D-loop; other site 485917005884 H-loop/switch region; other site 485917005885 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917005886 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917005887 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 485917005888 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 485917005889 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 485917005890 active site 485917005891 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917005892 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 485917005893 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917005894 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917005895 SusD family; Region: SusD; pfam07980 485917005896 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005897 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917005898 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917005899 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917005900 SusD family; Region: SusD; pfam07980 485917005901 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005902 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917005903 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917005904 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917005905 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005906 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917005907 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917005908 FecR protein; Region: FecR; pfam04773 485917005909 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917005910 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 485917005911 DNA binding residues [nucleotide binding] 485917005912 Sulfatase; Region: Sulfatase; cl17466 485917005913 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917005914 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917005915 SusD family; Region: SusD; pfam07980 485917005916 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917005917 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917005918 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917005919 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917005920 FecR protein; Region: FecR; pfam04773 485917005921 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917005922 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917005923 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917005924 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 485917005925 DNA binding residues [nucleotide binding] 485917005926 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485917005927 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 485917005928 active site 485917005929 phosphorylation site [posttranslational modification] 485917005930 intermolecular recognition site; other site 485917005931 dimerization interface [polypeptide binding]; other site 485917005932 LytTr DNA-binding domain; Region: LytTR; smart00850 485917005933 Histidine kinase; Region: His_kinase; pfam06580 485917005934 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 485917005935 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 485917005936 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 485917005937 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 485917005938 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485917005939 Protein export membrane protein; Region: SecD_SecF; cl14618 485917005940 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917005941 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 485917005942 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917005943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917005944 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485917005945 WHG domain; Region: WHG; pfam13305 485917005946 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917005947 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917005948 DNA binding site [nucleotide binding] 485917005949 domain linker motif; other site 485917005950 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 485917005951 ligand binding site [chemical binding]; other site 485917005952 dimerization interface [polypeptide binding]; other site 485917005953 mannonate dehydratase; Provisional; Region: PRK03906 485917005954 mannonate dehydratase; Region: uxuA; TIGR00695 485917005955 D-mannonate oxidoreductase; Provisional; Region: PRK08277 485917005956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917005957 NAD(P) binding site [chemical binding]; other site 485917005958 active site 485917005959 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 485917005960 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 485917005961 substrate binding site [chemical binding]; other site 485917005962 ATP binding site [chemical binding]; other site 485917005963 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 485917005964 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 485917005965 active site 485917005966 intersubunit interface [polypeptide binding]; other site 485917005967 catalytic residue [active] 485917005968 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 485917005969 non-specific DNA binding site [nucleotide binding]; other site 485917005970 salt bridge; other site 485917005971 sequence-specific DNA binding site [nucleotide binding]; other site 485917005972 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917005973 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917005974 DNA binding site [nucleotide binding] 485917005975 domain linker motif; other site 485917005976 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 485917005977 dimerization interface [polypeptide binding]; other site 485917005978 ligand binding site [chemical binding]; other site 485917005979 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 485917005980 Phosphotransferase enzyme family; Region: APH; pfam01636 485917005981 active site 485917005982 substrate binding site [chemical binding]; other site 485917005983 ATP binding site [chemical binding]; other site 485917005984 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 485917005985 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 485917005986 tetrameric interface [polypeptide binding]; other site 485917005987 activator binding site; other site 485917005988 NADP binding site [chemical binding]; other site 485917005989 substrate binding site [chemical binding]; other site 485917005990 catalytic residues [active] 485917005991 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 485917005992 putative substrate translocation pore; other site 485917005993 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 485917005994 putative methyltransferase, LIC12133 family; Region: MTase_LIC12133; TIGR04325 485917005995 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 485917005996 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 485917005997 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 485917005998 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 485917005999 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 485917006000 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 485917006001 active site 485917006002 metal binding site [ion binding]; metal-binding site 485917006003 nudix motif; other site 485917006004 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 485917006005 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 485917006006 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 485917006007 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917006008 active site 485917006009 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 485917006010 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 485917006011 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 485917006012 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917006013 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917006014 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917006015 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917006016 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006017 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917006018 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917006019 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917006020 FecR protein; Region: FecR; pfam04773 485917006021 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917006022 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917006023 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917006024 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 485917006025 DNA binding residues [nucleotide binding] 485917006026 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 485917006027 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 485917006028 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 485917006029 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485917006030 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 485917006031 DNA binding residues [nucleotide binding] 485917006032 dimerization interface [polypeptide binding]; other site 485917006033 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 485917006034 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 485917006035 dimer interface [polypeptide binding]; other site 485917006036 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 485917006037 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917006038 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917006039 SusD family; Region: SusD; pfam07980 485917006040 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917006041 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006042 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917006043 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917006044 hypothetical protein; Region: PHA00661 485917006045 Glycoside hydrolase families 71, 99, and related domains; Region: GH99_GH71_like; cl01529 485917006046 ligand binding site [chemical binding]; other site 485917006047 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917006048 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 485917006049 conserved cys residue [active] 485917006050 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917006051 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917006052 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917006053 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 485917006054 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 485917006055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917006056 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917006057 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 485917006058 putative substrate translocation pore; other site 485917006059 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 485917006060 classical (c) SDRs; Region: SDR_c; cd05233 485917006061 NAD(P) binding site [chemical binding]; other site 485917006062 active site 485917006063 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 485917006064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917006065 NAD(P) binding site [chemical binding]; other site 485917006066 active site 485917006067 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 485917006068 dihydroxy-acid dehydratase; Validated; Region: PRK06131 485917006069 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 485917006070 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 485917006071 trmE is a tRNA modification GTPase; Region: trmE; cd04164 485917006072 G1 box; other site 485917006073 GTP/Mg2+ binding site [chemical binding]; other site 485917006074 Switch I region; other site 485917006075 G2 box; other site 485917006076 Switch II region; other site 485917006077 G3 box; other site 485917006078 G4 box; other site 485917006079 G5 box; other site 485917006080 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 485917006081 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 485917006082 Domain of unknown function DUF20; Region: UPF0118; pfam01594 485917006083 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 485917006084 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 485917006085 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917006086 active site 485917006087 HIGH motif; other site 485917006088 nucleotide binding site [chemical binding]; other site 485917006089 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 485917006090 KMSK motif region; other site 485917006091 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 485917006092 tRNA binding surface [nucleotide binding]; other site 485917006093 anticodon binding site; other site 485917006094 Arginase family; Region: Arginase; cd09989 485917006095 active site 485917006096 Mn binding site [ion binding]; other site 485917006097 oligomer interface [polypeptide binding]; other site 485917006098 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 485917006099 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 485917006100 dimer interface [polypeptide binding]; other site 485917006101 active site 485917006102 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485917006103 catalytic residues [active] 485917006104 substrate binding site [chemical binding]; other site 485917006105 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 485917006106 Protein phosphatase 2C; Region: PP2C; pfam00481 485917006107 active site 485917006108 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917006109 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 485917006110 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 485917006111 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 485917006112 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 485917006113 Catalytic domain of Protein Kinases; Region: PKc; cd00180 485917006114 active site 485917006115 ATP binding site [chemical binding]; other site 485917006116 substrate binding site [chemical binding]; other site 485917006117 activation loop (A-loop); other site 485917006118 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 485917006119 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 485917006120 putative dimer interface [polypeptide binding]; other site 485917006121 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 485917006122 active site 485917006123 Dihydroneopterin aldolase; Region: FolB; pfam02152 485917006124 active site 485917006125 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 485917006126 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 485917006127 active site 485917006128 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 485917006129 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 485917006130 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 485917006131 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 485917006132 Putative hydrophobic ligand-binding SRPBCC domain of the Hsp90 co-chaperone Aha1 and related proteins; Region: SRPBCC_Aha1; cd08892 485917006133 putative hydrophobic ligand binding site [chemical binding]; other site 485917006134 putative Hsp90 binding residues [polypeptide binding]; other site 485917006135 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 485917006136 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 485917006137 active site 485917006138 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485917006139 substrate binding site [chemical binding]; other site 485917006140 catalytic residues [active] 485917006141 dimer interface [polypeptide binding]; other site 485917006142 aspartate kinase III; Validated; Region: PRK09084 485917006143 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 485917006144 putative catalytic residues [active] 485917006145 nucleotide binding site [chemical binding]; other site 485917006146 aspartate binding site [chemical binding]; other site 485917006147 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 485917006148 dimer interface [polypeptide binding]; other site 485917006149 allosteric regulatory binding pocket; other site 485917006150 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 485917006151 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 485917006152 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 485917006153 active site 485917006154 substrate binding site [chemical binding]; other site 485917006155 metal binding site [ion binding]; metal-binding site 485917006156 Response regulator receiver domain; Region: Response_reg; pfam00072 485917006157 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 485917006158 active site 485917006159 phosphorylation site [posttranslational modification] 485917006160 intermolecular recognition site; other site 485917006161 dimerization interface [polypeptide binding]; other site 485917006162 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485917006163 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 485917006164 putative active site [active] 485917006165 heme pocket [chemical binding]; other site 485917006166 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 485917006167 dimer interface [polypeptide binding]; other site 485917006168 phosphorylation site [posttranslational modification] 485917006169 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 485917006170 ATP binding site [chemical binding]; other site 485917006171 Mg2+ binding site [ion binding]; other site 485917006172 G-X-G motif; other site 485917006173 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 485917006174 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 485917006175 putative catalytic cysteine [active] 485917006176 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 485917006177 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 485917006178 nucleotide binding site [chemical binding]; other site 485917006179 substrate binding site [chemical binding]; other site 485917006180 PUA domain; Region: PUA; pfam01472 485917006181 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 485917006182 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 485917006183 malate:quinone oxidoreductase; Validated; Region: PRK05257 485917006184 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 485917006185 Peptidase family M23; Region: Peptidase_M23; pfam01551 485917006186 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917006187 Beta-lactamase; Region: Beta-lactamase; pfam00144 485917006188 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 485917006189 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 485917006190 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 485917006191 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917006192 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917006193 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006194 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917006195 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917006196 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 485917006197 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917006198 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917006199 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 485917006200 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917006201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917006202 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 485917006203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917006204 NAD(P) binding site [chemical binding]; other site 485917006205 active site 485917006206 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 485917006207 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485917006208 putative NAD(P) binding site [chemical binding]; other site 485917006209 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917006210 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917006211 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917006212 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006213 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917006214 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 485917006215 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917006216 catalytic residues [active] 485917006217 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006218 FecR protein; Region: FecR; pfam04773 485917006219 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917006220 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917006221 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917006222 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 485917006223 DNA binding residues [nucleotide binding] 485917006224 DnaA N-terminal domain; Region: DnaA_N; pfam11638 485917006225 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 485917006226 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 485917006227 Walker A motif; other site 485917006228 ATP binding site [chemical binding]; other site 485917006229 Walker B motif; other site 485917006230 arginine finger; other site 485917006231 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 485917006232 DnaA box-binding interface [nucleotide binding]; other site 485917006233 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 485917006234 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 485917006235 active site 485917006236 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 485917006237 Peptidase family M23; Region: Peptidase_M23; pfam01551 485917006238 cysteine synthase B; Region: cysM; TIGR01138 485917006239 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 485917006240 dimer interface [polypeptide binding]; other site 485917006241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917006242 catalytic residue [active] 485917006243 serine O-acetyltransferase; Region: cysE; TIGR01172 485917006244 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 485917006245 trimer interface [polypeptide binding]; other site 485917006246 active site 485917006247 substrate binding site [chemical binding]; other site 485917006248 CoA binding site [chemical binding]; other site 485917006249 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 485917006250 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 485917006251 metal binding site [ion binding]; metal-binding site 485917006252 dimer interface [polypeptide binding]; other site 485917006253 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 485917006254 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 485917006255 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 485917006256 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 485917006257 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 485917006258 active site 485917006259 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_9; cd07245 485917006260 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917006261 dimer interface [polypeptide binding]; other site 485917006262 putative metal binding site [ion binding]; other site 485917006263 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 485917006264 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 485917006265 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 485917006266 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 485917006267 MG2 domain; Region: A2M_N; pfam01835 485917006268 Intron encoded nuclease repeat motif; Region: IENR1; smart00497 485917006269 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 485917006270 FecR protein; Region: FecR; pfam04773 485917006271 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917006272 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 485917006273 putative hydrophobic ligand binding site [chemical binding]; other site 485917006274 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 485917006275 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 485917006276 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 485917006277 transketolase; Reviewed; Region: PRK05899 485917006278 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 485917006279 TPP-binding site [chemical binding]; other site 485917006280 dimer interface [polypeptide binding]; other site 485917006281 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 485917006282 PYR/PP interface [polypeptide binding]; other site 485917006283 dimer interface [polypeptide binding]; other site 485917006284 TPP binding site [chemical binding]; other site 485917006285 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485917006286 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 485917006287 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_7; cd08353 485917006288 putative dimer interface [polypeptide binding]; other site 485917006289 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917006290 RibD C-terminal domain; Region: RibD_C; cl17279 485917006291 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 485917006292 putative hydrophobic ligand binding site [chemical binding]; other site 485917006293 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 485917006294 dimerization interface [polypeptide binding]; other site 485917006295 putative DNA binding site [nucleotide binding]; other site 485917006296 putative Zn2+ binding site [ion binding]; other site 485917006297 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 485917006298 putative hydrophobic ligand binding site [chemical binding]; other site 485917006299 SnoaL-like domain; Region: SnoaL_2; pfam12680 485917006300 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 485917006301 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 485917006302 putative active site [active] 485917006303 putative PHP Thumb interface [polypeptide binding]; other site 485917006304 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 485917006305 generic binding surface II; other site 485917006306 generic binding surface I; other site 485917006307 DNA Polymerase Y-family; Region: PolY_like; cd03468 485917006308 active site 485917006309 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 485917006310 DNA binding site [nucleotide binding] 485917006311 Uncharacterized conserved protein [Function unknown]; Region: COG4544 485917006312 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 485917006313 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 485917006314 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 485917006315 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 485917006316 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917006317 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917006318 ligand binding site [chemical binding]; other site 485917006319 DinB family; Region: DinB; cl17821 485917006320 DinB superfamily; Region: DinB_2; pfam12867 485917006321 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 485917006322 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 485917006323 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 485917006324 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 485917006325 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 485917006326 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485917006327 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 485917006328 S-adenosylmethionine binding site [chemical binding]; other site 485917006329 DinB family; Region: DinB; cl17821 485917006330 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 485917006331 active site 485917006332 8-oxo-dGMP binding site [chemical binding]; other site 485917006333 nudix motif; other site 485917006334 metal binding site [ion binding]; metal-binding site 485917006335 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917006336 Beta-lactamase; Region: Beta-lactamase; pfam00144 485917006337 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 485917006338 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 485917006339 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 485917006340 FAD binding domain; Region: FAD_binding_4; pfam01565 485917006341 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485917006342 aldehyde dehydrogenase family 7 member; Region: PLN02315 485917006343 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 485917006344 tetrameric interface [polypeptide binding]; other site 485917006345 NAD binding site [chemical binding]; other site 485917006346 catalytic residues [active] 485917006347 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 485917006348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917006349 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 485917006350 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 485917006351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485917006352 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 485917006353 putative dimerization interface [polypeptide binding]; other site 485917006354 putative substrate binding pocket [chemical binding]; other site 485917006355 Surface antigen; Region: Bac_surface_Ag; pfam01103 485917006356 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 485917006357 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 485917006358 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 485917006359 SnoaL-like domain; Region: SnoaL_2; pfam12680 485917006360 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 485917006361 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 485917006362 putative substrate translocation pore; other site 485917006363 L-arabinose isomerase [Carbohydrate transport and metabolism]; Region: AraA; COG2160 485917006364 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 485917006365 hexamer (dimer of trimers) interface [polypeptide binding]; other site 485917006366 trimer interface [polypeptide binding]; other site 485917006367 substrate binding site [chemical binding]; other site 485917006368 Mn binding site [ion binding]; other site 485917006369 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 485917006370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917006371 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917006372 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917006373 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485917006374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917006375 Coenzyme A binding pocket [chemical binding]; other site 485917006376 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 485917006377 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 485917006378 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 485917006379 active site 485917006380 dimer interface [polypeptide binding]; other site 485917006381 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 485917006382 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 485917006383 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917006384 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 485917006385 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917006386 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 485917006387 Uncharacterized conserved protein [Function unknown]; Region: COG2898 485917006388 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 485917006389 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485917006390 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 485917006391 active site 485917006392 phosphorylation site [posttranslational modification] 485917006393 intermolecular recognition site; other site 485917006394 dimerization interface [polypeptide binding]; other site 485917006395 LytTr DNA-binding domain; Region: LytTR; smart00850 485917006396 Histidine kinase; Region: His_kinase; pfam06580 485917006397 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 485917006398 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 485917006399 putative NADP binding site [chemical binding]; other site 485917006400 putative substrate binding site [chemical binding]; other site 485917006401 active site 485917006402 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 485917006403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917006404 NAD(P) binding site [chemical binding]; other site 485917006405 active site 485917006406 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 485917006407 EamA-like transporter family; Region: EamA; pfam00892 485917006408 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 485917006409 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 485917006410 active site 485917006411 Zn binding site [ion binding]; other site 485917006412 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 485917006413 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 485917006414 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 485917006415 putative active site [active] 485917006416 PhoH-like protein; Region: PhoH; pfam02562 485917006417 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 485917006418 HEAT repeats; Region: HEAT_2; pfam13646 485917006419 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 485917006420 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 485917006421 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 485917006422 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 485917006423 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 485917006424 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917006425 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 485917006426 active site 485917006427 phosphorylation site [posttranslational modification] 485917006428 intermolecular recognition site; other site 485917006429 dimerization interface [polypeptide binding]; other site 485917006430 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 485917006431 DNA binding site [nucleotide binding] 485917006432 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917006433 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 485917006434 ATP binding site [chemical binding]; other site 485917006435 Mg2+ binding site [ion binding]; other site 485917006436 G-X-G motif; other site 485917006437 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917006438 SnoaL-like domain; Region: SnoaL_3; pfam13474 485917006439 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 485917006440 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 485917006441 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917006442 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 485917006443 Ligand Binding Site [chemical binding]; other site 485917006444 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 485917006445 MFS transport protein AraJ; Provisional; Region: PRK10091 485917006446 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 485917006447 putative substrate translocation pore; other site 485917006448 YtxH-like protein; Region: YtxH; pfam12732 485917006449 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 485917006450 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917006451 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 485917006452 thiS-thiF/thiG interaction site; other site 485917006453 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 485917006454 ThiC-associated domain; Region: ThiC-associated; pfam13667 485917006455 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 485917006456 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 485917006457 thiamine phosphate binding site [chemical binding]; other site 485917006458 active site 485917006459 pyrophosphate binding site [ion binding]; other site 485917006460 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 485917006461 dimer interface [polypeptide binding]; other site 485917006462 substrate binding site [chemical binding]; other site 485917006463 ATP binding site [chemical binding]; other site 485917006464 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 485917006465 thiamine phosphate binding site [chemical binding]; other site 485917006466 active site 485917006467 pyrophosphate binding site [ion binding]; other site 485917006468 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 485917006469 ThiS interaction site; other site 485917006470 putative active site [active] 485917006471 tetramer interface [polypeptide binding]; other site 485917006472 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 485917006473 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 485917006474 FeS/SAM binding site; other site 485917006475 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 485917006476 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 485917006477 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 485917006478 ATP binding site [chemical binding]; other site 485917006479 substrate interface [chemical binding]; other site 485917006480 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 485917006481 active site residue [active] 485917006482 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 485917006483 S1 domain; Region: S1_2; pfam13509 485917006484 S1 domain; Region: S1_2; pfam13509 485917006485 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 485917006486 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 485917006487 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 485917006488 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 485917006489 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 485917006490 active site 485917006491 Surface antigen; Region: Bac_surface_Ag; pfam01103 485917006492 SdiA-regulated; Region: SdiA-regulated; cd09971 485917006493 putative active site [active] 485917006494 polyphosphate kinase; Provisional; Region: PRK05443 485917006495 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 485917006496 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 485917006497 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 485917006498 domain interface [polypeptide binding]; other site 485917006499 active site 485917006500 catalytic site [active] 485917006501 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 485917006502 domain interface [polypeptide binding]; other site 485917006503 active site 485917006504 catalytic site [active] 485917006505 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485917006506 Zn2+ binding site [ion binding]; other site 485917006507 Mg2+ binding site [ion binding]; other site 485917006508 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 485917006509 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485917006510 Heavy-metal-associated domain; Region: HMA; pfam00403 485917006511 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485917006512 Soluble P-type ATPase [General function prediction only]; Region: COG4087 485917006513 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 485917006514 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 485917006515 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 485917006516 Low-spin heme binding site [chemical binding]; other site 485917006517 Putative water exit pathway; other site 485917006518 Binuclear center (active site) [active] 485917006519 Putative proton exit pathway; other site 485917006520 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 485917006521 Cytochrome c; Region: Cytochrom_C; cl11414 485917006522 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 485917006523 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 485917006524 FixH; Region: FixH; pfam05751 485917006525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 485917006526 Family description; Region: DsbD_2; pfam13386 485917006527 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 485917006528 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 485917006529 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 485917006530 Response regulator receiver domain; Region: Response_reg; pfam00072 485917006531 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 485917006532 active site 485917006533 phosphorylation site [posttranslational modification] 485917006534 intermolecular recognition site; other site 485917006535 dimerization interface [polypeptide binding]; other site 485917006536 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917006537 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 485917006538 ligand binding site [chemical binding]; other site 485917006539 flexible hinge region; other site 485917006540 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 485917006541 putative switch regulator; other site 485917006542 non-specific DNA interactions [nucleotide binding]; other site 485917006543 DNA binding site [nucleotide binding] 485917006544 sequence specific DNA binding site [nucleotide binding]; other site 485917006545 putative cAMP binding site [chemical binding]; other site 485917006546 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 485917006547 PAS domain; Region: PAS_9; pfam13426 485917006548 putative active site [active] 485917006549 heme pocket [chemical binding]; other site 485917006550 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917006551 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 485917006552 dimer interface [polypeptide binding]; other site 485917006553 phosphorylation site [posttranslational modification] 485917006554 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 485917006555 ATP binding site [chemical binding]; other site 485917006556 Mg2+ binding site [ion binding]; other site 485917006557 G-X-G motif; other site 485917006558 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 485917006559 Cu(I) binding site [ion binding]; other site 485917006560 BNR repeat-like domain; Region: BNR_2; pfam13088 485917006561 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006562 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917006563 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 485917006564 N-terminal plug; other site 485917006565 ligand-binding site [chemical binding]; other site 485917006566 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917006567 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 485917006568 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 485917006569 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 485917006570 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 485917006571 dimer interface [polypeptide binding]; other site 485917006572 active site 485917006573 CoA binding pocket [chemical binding]; other site 485917006574 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 485917006575 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 485917006576 dimerization interface [polypeptide binding]; other site 485917006577 PAS domain; Region: PAS; smart00091 485917006578 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 485917006579 dimer interface [polypeptide binding]; other site 485917006580 phosphorylation site [posttranslational modification] 485917006581 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 485917006582 ATP binding site [chemical binding]; other site 485917006583 Mg2+ binding site [ion binding]; other site 485917006584 G-X-G motif; other site 485917006585 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 485917006586 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 485917006587 Ligand Binding Site [chemical binding]; other site 485917006588 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 485917006589 K+-transporting ATPase, c chain; Region: KdpC; cl00944 485917006590 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 485917006591 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485917006592 Soluble P-type ATPase [General function prediction only]; Region: COG4087 485917006593 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 485917006594 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 485917006595 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485917006596 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 485917006597 active site 485917006598 phosphorylation site [posttranslational modification] 485917006599 intermolecular recognition site; other site 485917006600 dimerization interface [polypeptide binding]; other site 485917006601 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 485917006602 ATP binding site [chemical binding]; other site 485917006603 Walker B motif; other site 485917006604 arginine finger; other site 485917006605 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 485917006606 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485917006607 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 485917006608 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 485917006609 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 485917006610 Cu(I) binding site [ion binding]; other site 485917006611 Cytochrome c; Region: Cytochrom_C; cl11414 485917006612 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 485917006613 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 485917006614 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 485917006615 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 485917006616 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917006617 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917006618 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917006619 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917006620 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917006621 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485917006622 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 485917006623 active site 485917006624 phosphorylation site [posttranslational modification] 485917006625 intermolecular recognition site; other site 485917006626 dimerization interface [polypeptide binding]; other site 485917006627 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 485917006628 Walker A motif; other site 485917006629 ATP binding site [chemical binding]; other site 485917006630 Walker B motif; other site 485917006631 arginine finger; other site 485917006632 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 485917006633 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 485917006634 Cl- selectivity filter; other site 485917006635 Cl- binding residues [ion binding]; other site 485917006636 pore gating glutamate residue; other site 485917006637 dimer interface [polypeptide binding]; other site 485917006638 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 485917006639 FOG: CBS domain [General function prediction only]; Region: COG0517 485917006640 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 485917006641 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 485917006642 active site 485917006643 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917006644 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 485917006645 active site 485917006646 phosphorylation site [posttranslational modification] 485917006647 intermolecular recognition site; other site 485917006648 dimerization interface [polypeptide binding]; other site 485917006649 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 485917006650 DNA binding site [nucleotide binding] 485917006651 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 485917006652 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 485917006653 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917006654 catalytic residues [active] 485917006655 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 485917006656 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 485917006657 GatB domain; Region: GatB_Yqey; pfam02637 485917006658 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 485917006659 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917006660 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485917006661 putative catalytic site [active] 485917006662 putative metal binding site [ion binding]; other site 485917006663 putative phosphate binding site [ion binding]; other site 485917006664 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485917006665 putative catalytic site [active] 485917006666 putative metal binding site [ion binding]; other site 485917006667 putative phosphate binding site [ion binding]; other site 485917006668 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917006669 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917006670 SusD family; Region: SusD; pfam07980 485917006671 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917006672 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917006673 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006674 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917006675 FecR protein; Region: FecR; pfam04773 485917006676 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917006677 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 485917006678 DNA binding residues [nucleotide binding] 485917006679 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917006680 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917006681 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917006682 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 485917006683 dimer interface [polypeptide binding]; other site 485917006684 phosphorylation site [posttranslational modification] 485917006685 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 485917006686 ATP binding site [chemical binding]; other site 485917006687 Mg2+ binding site [ion binding]; other site 485917006688 G-X-G motif; other site 485917006689 Response regulator receiver domain; Region: Response_reg; pfam00072 485917006690 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 485917006691 active site 485917006692 phosphorylation site [posttranslational modification] 485917006693 intermolecular recognition site; other site 485917006694 dimerization interface [polypeptide binding]; other site 485917006695 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 485917006696 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 485917006697 motif 1; other site 485917006698 active site 485917006699 motif 2; other site 485917006700 motif 3; other site 485917006701 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 485917006702 DHHA1 domain; Region: DHHA1; pfam02272 485917006703 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485917006704 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485917006705 DNA binding residues [nucleotide binding] 485917006706 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 485917006707 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 485917006708 Competence protein; Region: Competence; pfam03772 485917006709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917006710 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 485917006711 dimer interface [polypeptide binding]; other site 485917006712 phosphorylation site [posttranslational modification] 485917006713 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 485917006714 ATP binding site [chemical binding]; other site 485917006715 Mg2+ binding site [ion binding]; other site 485917006716 G-X-G motif; other site 485917006717 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917006718 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 485917006719 active site 485917006720 phosphorylation site [posttranslational modification] 485917006721 intermolecular recognition site; other site 485917006722 dimerization interface [polypeptide binding]; other site 485917006723 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 485917006724 DNA binding site [nucleotide binding] 485917006725 Predicted membrane protein [Function unknown]; Region: COG2510 485917006726 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485917006727 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917006728 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917006729 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 485917006730 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 485917006731 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 485917006732 active site 485917006733 enoyl-CoA hydratase; Provisional; Region: PRK05995 485917006734 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 485917006735 substrate binding site [chemical binding]; other site 485917006736 oxyanion hole (OAH) forming residues; other site 485917006737 trimer interface [polypeptide binding]; other site 485917006738 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 485917006739 Sulfatase; Region: Sulfatase; pfam00884 485917006740 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 485917006741 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917006742 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 485917006743 active site 485917006744 catalytic residues [active] 485917006745 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485917006746 GAF domain; Region: GAF; pfam01590 485917006747 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917006748 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 485917006749 dimer interface [polypeptide binding]; other site 485917006750 phosphorylation site [posttranslational modification] 485917006751 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 485917006752 ATP binding site [chemical binding]; other site 485917006753 Mg2+ binding site [ion binding]; other site 485917006754 G-X-G motif; other site 485917006755 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 485917006756 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006757 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917006758 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917006759 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485917006760 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 485917006761 putative DNA binding site [nucleotide binding]; other site 485917006762 putative Zn2+ binding site [ion binding]; other site 485917006763 AsnC family; Region: AsnC_trans_reg; pfam01037 485917006764 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 485917006765 active site 485917006766 Coagulation factor 5/8 C-terminal domain, discoidin domain; Region: FA58C; smart00231 485917006767 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 485917006768 sugar binding site [chemical binding]; other site 485917006769 Sad1 / UNC-like C-terminal; Region: Sad1_UNC; pfam07738 485917006770 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917006771 SusD family; Region: SusD; pfam07980 485917006772 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917006773 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006774 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917006775 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 485917006776 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485917006777 ATP-dependent DNA ligase; Validated; Region: PRK09247 485917006778 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 485917006779 active site 485917006780 DNA binding site [nucleotide binding] 485917006781 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 485917006782 DNA binding site [nucleotide binding] 485917006783 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 485917006784 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 485917006785 ATP binding site [chemical binding]; other site 485917006786 putative Mg++ binding site [ion binding]; other site 485917006787 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 485917006788 nucleotide binding region [chemical binding]; other site 485917006789 ATP-binding site [chemical binding]; other site 485917006790 DEAD/H associated; Region: DEAD_assoc; pfam08494 485917006791 metallophosphoesterase, DNA ligase-associated; Region: P_estr_lig_assc; TIGR04123 485917006792 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917006793 active site 485917006794 metal binding site [ion binding]; metal-binding site 485917006795 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 485917006796 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 485917006797 inhibitor-cofactor binding pocket; inhibition site 485917006798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917006799 catalytic residue [active] 485917006800 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 485917006801 nudix motif; other site 485917006802 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 485917006803 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 485917006804 aspartate aminotransferase; Provisional; Region: PRK05764 485917006805 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 485917006806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917006807 homodimer interface [polypeptide binding]; other site 485917006808 catalytic residue [active] 485917006809 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485917006810 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485917006811 FtsX-like permease family; Region: FtsX; pfam02687 485917006812 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 485917006813 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 485917006814 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 485917006815 substrate binding site; other site 485917006816 dimer interface; other site 485917006817 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 485917006818 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 485917006819 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485917006820 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485917006821 Walker A/P-loop; other site 485917006822 ATP binding site [chemical binding]; other site 485917006823 Q-loop/lid; other site 485917006824 ABC transporter signature motif; other site 485917006825 Walker B; other site 485917006826 D-loop; other site 485917006827 H-loop/switch region; other site 485917006828 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 485917006829 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 485917006830 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 485917006831 putative acyl-acceptor binding pocket; other site 485917006832 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 485917006833 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 485917006834 active site 485917006835 HIGH motif; other site 485917006836 dimer interface [polypeptide binding]; other site 485917006837 KMSKS motif; other site 485917006838 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 485917006839 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 485917006840 Substrate-binding site [chemical binding]; other site 485917006841 Substrate specificity [chemical binding]; other site 485917006842 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 485917006843 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 485917006844 Ligand binding site; other site 485917006845 oligomer interface; other site 485917006846 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006847 GLPGLI family protein; Region: GLPGLI; TIGR01200 485917006848 CTP synthetase; Validated; Region: pyrG; PRK05380 485917006849 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 485917006850 Catalytic site [active] 485917006851 active site 485917006852 UTP binding site [chemical binding]; other site 485917006853 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 485917006854 active site 485917006855 putative oxyanion hole; other site 485917006856 catalytic triad [active] 485917006857 membrane protein insertase; Provisional; Region: PRK01318 485917006858 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 485917006859 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 485917006860 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917006861 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 485917006862 putative active site [active] 485917006863 Zn binding site [ion binding]; other site 485917006864 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 485917006865 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 485917006866 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 485917006867 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 485917006868 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 485917006869 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917006870 Transcriptional regulators [Transcription]; Region: GntR; COG1802 485917006871 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917006872 DNA-binding site [nucleotide binding]; DNA binding site 485917006873 FCD domain; Region: FCD; pfam07729 485917006874 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485917006875 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 485917006876 galactonate dehydratase; Provisional; Region: PRK14017 485917006877 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 485917006878 active site pocket [active] 485917006879 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 485917006880 D-galactonate transporter; Region: 2A0114; TIGR00893 485917006881 putative substrate translocation pore; other site 485917006882 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 485917006883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917006884 NAD(P) binding site [chemical binding]; other site 485917006885 active site 485917006886 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917006887 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006888 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917006889 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917006890 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917006891 SusD family; Region: SusD; pfam07980 485917006892 SusD family; Region: SusD; pfam07980 485917006893 G8 domain; Region: G8; pfam10162 485917006894 Right handed beta helix region; Region: Beta_helix; pfam13229 485917006895 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 485917006896 Interdomain contacts; other site 485917006897 Cytokine receptor motif; other site 485917006898 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 485917006899 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 485917006900 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 485917006901 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 485917006902 active site 485917006903 catalytic triad [active] 485917006904 oxyanion hole [active] 485917006905 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 485917006906 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 485917006907 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 485917006908 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 485917006909 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 485917006910 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485917006911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917006912 Coenzyme A binding pocket [chemical binding]; other site 485917006913 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 485917006914 dimer interface [polypeptide binding]; other site 485917006915 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917006916 endonuclease VIII; Provisional; Region: PRK10445 485917006917 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 485917006918 putative DNA binding site [nucleotide binding]; other site 485917006919 catalytic residue [active] 485917006920 putative H2TH interface [polypeptide binding]; other site 485917006921 putative catalytic residues [active] 485917006922 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 485917006923 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 485917006924 putative hydrophobic ligand binding site [chemical binding]; other site 485917006925 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 485917006926 dimerization interface [polypeptide binding]; other site 485917006927 putative DNA binding site [nucleotide binding]; other site 485917006928 putative Zn2+ binding site [ion binding]; other site 485917006929 Cupin domain; Region: Cupin_2; cl17218 485917006930 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 485917006931 Predicted integral membrane protein [Function unknown]; Region: COG5637 485917006932 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 485917006933 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 485917006934 putative hydrophobic ligand binding site [chemical binding]; other site 485917006935 Response regulator receiver domain; Region: Response_reg; pfam00072 485917006936 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 485917006937 active site 485917006938 phosphorylation site [posttranslational modification] 485917006939 intermolecular recognition site; other site 485917006940 dimerization interface [polypeptide binding]; other site 485917006941 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 485917006942 intracellular protease, PfpI family; Region: PfpI; TIGR01382 485917006943 proposed catalytic triad [active] 485917006944 conserved cys residue [active] 485917006945 RibD C-terminal domain; Region: RibD_C; cl17279 485917006946 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 485917006947 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 485917006948 short chain dehydrogenase; Provisional; Region: PRK06701 485917006949 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 485917006950 NAD binding site [chemical binding]; other site 485917006951 metal binding site [ion binding]; metal-binding site 485917006952 active site 485917006953 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 485917006954 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 485917006955 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917006956 active site 485917006957 Fn3 associated; Region: Fn3_assoc; pfam13287 485917006958 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917006959 SusD family; Region: SusD; pfam07980 485917006960 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917006961 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917006962 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006963 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917006964 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917006965 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917006966 active site 485917006967 metal binding site [ion binding]; metal-binding site 485917006968 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917006969 Family description; Region: VCBS; pfam13517 485917006970 Family description; Region: VCBS; pfam13517 485917006971 Family description; Region: VCBS; pfam13517 485917006972 Family description; Region: VCBS; pfam13517 485917006973 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 485917006974 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917006975 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917006976 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917006977 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917006978 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917006979 FecR protein; Region: FecR; pfam04773 485917006980 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917006981 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917006982 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 485917006983 DNA binding residues [nucleotide binding] 485917006984 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917006985 Two component regulator propeller; Region: Reg_prop; pfam07494 485917006986 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917006987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917006988 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 485917006989 dimer interface [polypeptide binding]; other site 485917006990 phosphorylation site [posttranslational modification] 485917006991 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 485917006992 ATP binding site [chemical binding]; other site 485917006993 Mg2+ binding site [ion binding]; other site 485917006994 G-X-G motif; other site 485917006995 Response regulator receiver domain; Region: Response_reg; pfam00072 485917006996 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 485917006997 active site 485917006998 phosphorylation site [posttranslational modification] 485917006999 intermolecular recognition site; other site 485917007000 dimerization interface [polypeptide binding]; other site 485917007001 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917007002 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917007003 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917007004 Glycosyl hydrolase family 47; Region: Glyco_hydro_47; cl08327 485917007005 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 485917007006 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007007 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007008 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917007009 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917007010 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917007011 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917007012 SusD family; Region: SusD; pfam07980 485917007013 PAS fold; Region: PAS_3; pfam08447 485917007014 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485917007015 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 485917007016 DNA binding residues [nucleotide binding] 485917007017 dimerization interface [polypeptide binding]; other site 485917007018 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 485917007019 active site 485917007020 catalytic site [active] 485917007021 substrate binding site [chemical binding]; other site 485917007022 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 485917007023 GIY-YIG motif/motif A; other site 485917007024 active site 485917007025 catalytic site [active] 485917007026 putative DNA binding site [nucleotide binding]; other site 485917007027 metal binding site [ion binding]; metal-binding site 485917007028 Response regulator receiver domain; Region: Response_reg; pfam00072 485917007029 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 485917007030 active site 485917007031 phosphorylation site [posttranslational modification] 485917007032 intermolecular recognition site; other site 485917007033 dimerization interface [polypeptide binding]; other site 485917007034 OsmC-like protein; Region: OsmC; pfam02566 485917007035 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 485917007036 KTSC domain; Region: KTSC; pfam13619 485917007037 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 485917007038 active site 485917007039 DNA polymerase IV; Validated; Region: PRK02406 485917007040 DNA binding site [nucleotide binding] 485917007041 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 485917007042 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 485917007043 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917007044 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485917007045 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 485917007046 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917007047 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917007048 SusD family; Region: SusD; pfam07980 485917007049 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917007050 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007051 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007052 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917007053 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917007054 FecR protein; Region: FecR; pfam04773 485917007055 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917007056 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 485917007057 DNA binding residues [nucleotide binding] 485917007058 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917007059 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917007060 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917007061 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917007062 HEAT repeats; Region: HEAT_2; pfam13646 485917007063 HEAT repeats; Region: HEAT_2; pfam13646 485917007064 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917007065 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917007066 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917007067 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917007068 chaperone protein DnaJ; Provisional; Region: PRK14299 485917007069 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 485917007070 HSP70 interaction site [polypeptide binding]; other site 485917007071 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 485917007072 dimer interface [polypeptide binding]; other site 485917007073 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 485917007074 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917007075 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485917007076 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917007077 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917007078 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485917007079 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917007080 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 485917007081 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 485917007082 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 485917007083 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 485917007084 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 485917007085 Sulfate transporter family; Region: Sulfate_transp; pfam00916 485917007086 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 485917007087 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 485917007088 Outer membrane efflux protein; Region: OEP; pfam02321 485917007089 Outer membrane efflux protein; Region: OEP; pfam02321 485917007090 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917007091 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917007092 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917007093 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 485917007094 metal binding site 2 [ion binding]; metal-binding site 485917007095 putative DNA binding helix; other site 485917007096 metal binding site 1 [ion binding]; metal-binding site 485917007097 dimer interface [polypeptide binding]; other site 485917007098 structural Zn2+ binding site [ion binding]; other site 485917007099 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 485917007100 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485917007101 Soluble P-type ATPase [General function prediction only]; Region: COG4087 485917007102 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 485917007103 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 485917007104 Clp protease; Region: CLP_protease; pfam00574 485917007105 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 485917007106 oligomer interface [polypeptide binding]; other site 485917007107 active site residues [active] 485917007108 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917007109 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 485917007110 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 485917007111 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 485917007112 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917007113 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 485917007114 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 485917007115 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 485917007116 Alginate lyase; Region: Alginate_lyase; pfam05426 485917007117 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 485917007118 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 485917007119 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 485917007120 active site 485917007121 catalytic site [active] 485917007122 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 485917007123 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917007124 beta-D-glucuronidase; Provisional; Region: PRK10150 485917007125 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917007126 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917007127 Cupin domain; Region: Cupin_2; pfam07883 485917007128 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917007129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917007130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 485917007131 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 485917007132 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 485917007133 PIN domain; Region: PIN_3; cl17397 485917007134 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 485917007135 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 485917007136 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917007137 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917007138 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917007139 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007140 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007141 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917007142 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917007143 FecR protein; Region: FecR; pfam04773 485917007144 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 485917007145 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 485917007146 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917007147 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 485917007148 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 485917007149 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 485917007150 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 485917007151 ligand binding site [chemical binding]; other site 485917007152 metal binding site [ion binding]; metal-binding site 485917007153 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 485917007154 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 485917007155 Phosphoesterase family; Region: Phosphoesterase; pfam04185 485917007156 Phosphoesterase family; Region: Phosphoesterase; pfam04185 485917007157 Domain of unknown function (DUF756); Region: DUF756; pfam05506 485917007158 Domain of unknown function (DUF756); Region: DUF756; pfam05506 485917007159 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 485917007160 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917007161 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917007162 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917007163 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 485917007164 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 485917007165 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917007166 active site 485917007167 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 485917007168 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917007169 SusD family; Region: SusD; pfam07980 485917007170 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917007171 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007172 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007173 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917007174 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917007175 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917007176 FecR protein; Region: FecR; pfam04773 485917007177 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917007178 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917007179 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 485917007180 DNA binding residues [nucleotide binding] 485917007181 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917007182 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 485917007183 DNA binding residues [nucleotide binding] 485917007184 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917007185 Two component regulator propeller; Region: Reg_prop; pfam07494 485917007186 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917007187 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917007188 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 485917007189 dimer interface [polypeptide binding]; other site 485917007190 phosphorylation site [posttranslational modification] 485917007191 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 485917007192 ATP binding site [chemical binding]; other site 485917007193 Mg2+ binding site [ion binding]; other site 485917007194 G-X-G motif; other site 485917007195 Response regulator receiver domain; Region: Response_reg; pfam00072 485917007196 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 485917007197 active site 485917007198 phosphorylation site [posttranslational modification] 485917007199 intermolecular recognition site; other site 485917007200 dimerization interface [polypeptide binding]; other site 485917007201 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917007202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917007203 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 485917007204 active site 485917007205 catalytic residues [active] 485917007206 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 485917007207 nudix motif; other site 485917007208 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 485917007209 ribulokinase; Provisional; Region: PRK04123 485917007210 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 485917007211 N- and C-terminal domain interface [polypeptide binding]; other site 485917007212 active site 485917007213 MgATP binding site [chemical binding]; other site 485917007214 catalytic site [active] 485917007215 metal binding site [ion binding]; metal-binding site 485917007216 carbohydrate binding site [chemical binding]; other site 485917007217 homodimer interface [polypeptide binding]; other site 485917007218 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 485917007219 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 485917007220 intersubunit interface [polypeptide binding]; other site 485917007221 active site 485917007222 Zn2+ binding site [ion binding]; other site 485917007223 L-arabinose isomerase; Provisional; Region: PRK02929 485917007224 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 485917007225 hexamer (dimer of trimers) interface [polypeptide binding]; other site 485917007226 trimer interface [polypeptide binding]; other site 485917007227 substrate binding site [chemical binding]; other site 485917007228 Mn binding site [ion binding]; other site 485917007229 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 485917007230 Na binding site [ion binding]; other site 485917007231 substrate binding site [chemical binding]; other site 485917007232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917007233 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 485917007234 ATP binding site [chemical binding]; other site 485917007235 Mg2+ binding site [ion binding]; other site 485917007236 G-X-G motif; other site 485917007237 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 485917007238 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917007239 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 485917007240 DNA binding residues [nucleotide binding] 485917007241 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485917007242 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 485917007243 active site 485917007244 phosphorylation site [posttranslational modification] 485917007245 intermolecular recognition site; other site 485917007246 dimerization interface [polypeptide binding]; other site 485917007247 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 485917007248 dimerization interface [polypeptide binding]; other site 485917007249 DNA binding residues [nucleotide binding] 485917007250 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917007251 Beta-lactamase; Region: Beta-lactamase; pfam00144 485917007252 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 485917007253 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 485917007254 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 485917007255 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 485917007256 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cl12263 485917007257 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 485917007258 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 485917007259 putative NAD(P) binding site [chemical binding]; other site 485917007260 catalytic Zn binding site [ion binding]; other site 485917007261 structural Zn binding site [ion binding]; other site 485917007262 short chain dehydrogenase; Provisional; Region: PRK08628 485917007263 classical (c) SDRs; Region: SDR_c; cd05233 485917007264 NAD(P) binding site [chemical binding]; other site 485917007265 active site 485917007266 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 485917007267 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917007268 bile acid transporter; Region: bass; TIGR00841 485917007269 Sodium Bile acid symporter family; Region: SBF; cl17470 485917007270 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 485917007271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 485917007272 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 485917007273 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 485917007274 dimer interface [polypeptide binding]; other site 485917007275 active site 485917007276 catalytic residue [active] 485917007277 metal binding site [ion binding]; metal-binding site 485917007278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 485917007279 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 485917007280 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 485917007281 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917007282 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917007283 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 485917007284 putative substrate translocation pore; other site 485917007285 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 485917007286 active site 2 [active] 485917007287 active site 1 [active] 485917007288 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917007289 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917007290 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 485917007291 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 485917007292 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 485917007293 CoA-transferase family III; Region: CoA_transf_3; pfam02515 485917007294 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 485917007295 CoA-transferase family III; Region: CoA_transf_3; pfam02515 485917007296 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 485917007297 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 485917007298 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917007299 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917007300 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917007301 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 485917007302 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 485917007303 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 485917007304 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 485917007305 active site 485917007306 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 485917007307 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917007308 Transcriptional regulator [Transcription]; Region: IclR; COG1414 485917007309 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 485917007310 Bacterial transcriptional regulator; Region: IclR; pfam01614 485917007311 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 485917007312 Activator of Hsp90 ATPase homolog 1-like protein; Region: AHSA1; pfam08327 485917007313 hydrophobic ligand binding site; other site 485917007314 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 485917007315 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 485917007316 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917007317 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 485917007318 ligand binding site [chemical binding]; other site 485917007319 flexible hinge region; other site 485917007320 DinB family; Region: DinB; cl17821 485917007321 DinB superfamily; Region: DinB_2; pfam12867 485917007322 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917007323 putative transporter; Provisional; Region: PRK10484 485917007324 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 485917007325 Na binding site [ion binding]; other site 485917007326 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917007327 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917007328 Right handed beta helix region; Region: Beta_helix; pfam13229 485917007329 Domain of unknown function (DUF718); Region: DUF718; cl01281 485917007330 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 485917007331 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 485917007332 BNR repeat-like domain; Region: BNR_2; pfam13088 485917007333 Asp-box motif; other site 485917007334 Protein of unknown function (DUF3826); Region: DUF3826; pfam12875 485917007335 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 485917007336 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917007337 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917007338 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917007339 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917007340 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 485917007341 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917007342 BNR repeat-like domain; Region: BNR_2; pfam13088 485917007343 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 485917007344 active site 485917007345 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 485917007346 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 485917007347 Pectate lyase; Region: Pec_lyase_C; cl01593 485917007348 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485917007349 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 485917007350 active site 485917007351 phosphorylation site [posttranslational modification] 485917007352 intermolecular recognition site; other site 485917007353 dimerization interface [polypeptide binding]; other site 485917007354 LytTr DNA-binding domain; Region: LytTR; smart00850 485917007355 Histidine kinase; Region: His_kinase; pfam06580 485917007356 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 485917007357 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 485917007358 putative hydrophobic ligand binding site [chemical binding]; other site 485917007359 Pectate lyase; Region: Pec_lyase_C; cl01593 485917007360 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917007361 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917007362 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 485917007363 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917007364 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 485917007365 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 485917007366 hexamer (dimer of trimers) interface [polypeptide binding]; other site 485917007367 substrate binding site [chemical binding]; other site 485917007368 trimer interface [polypeptide binding]; other site 485917007369 Mn binding site [ion binding]; other site 485917007370 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 485917007371 TPP-binding site [chemical binding]; other site 485917007372 dimer interface [polypeptide binding]; other site 485917007373 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 485917007374 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 485917007375 PYR/PP interface [polypeptide binding]; other site 485917007376 dimer interface [polypeptide binding]; other site 485917007377 TPP binding site [chemical binding]; other site 485917007378 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485917007379 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 485917007380 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 485917007381 ligand binding site [chemical binding]; other site 485917007382 dimerization interface [polypeptide binding]; other site 485917007383 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 485917007384 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 485917007385 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 485917007386 Walker A/P-loop; other site 485917007387 ATP binding site [chemical binding]; other site 485917007388 Q-loop/lid; other site 485917007389 ABC transporter signature motif; other site 485917007390 Walker B; other site 485917007391 D-loop; other site 485917007392 H-loop/switch region; other site 485917007393 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 485917007394 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 485917007395 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 485917007396 TM-ABC transporter signature motif; other site 485917007397 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 485917007398 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917007399 nucleotide binding site [chemical binding]; other site 485917007400 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 485917007401 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 485917007402 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917007403 SusD family; Region: SusD; pfam07980 485917007404 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007405 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007406 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917007407 Protein of unknown function (DUF3826); Region: DUF3826; pfam12875 485917007408 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 485917007409 hexamer (dimer of trimers) interface [polypeptide binding]; other site 485917007410 substrate binding site [chemical binding]; other site 485917007411 trimer interface [polypeptide binding]; other site 485917007412 Mn binding site [ion binding]; other site 485917007413 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 485917007414 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917007415 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917007416 dihydrodipicolinate synthase; Region: dapA; TIGR00674 485917007417 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 485917007418 inhibitor site; inhibition site 485917007419 active site 485917007420 dimer interface [polypeptide binding]; other site 485917007421 catalytic residue [active] 485917007422 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 485917007423 Na binding site [ion binding]; other site 485917007424 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917007425 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917007426 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917007427 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 485917007428 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 485917007429 putative metal binding site [ion binding]; other site 485917007430 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917007431 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 485917007432 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 485917007433 alpha-glucosidase; Provisional; Region: PRK10137 485917007434 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 485917007435 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485917007436 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 485917007437 putative DNA binding site [nucleotide binding]; other site 485917007438 putative Zn2+ binding site [ion binding]; other site 485917007439 AsnC family; Region: AsnC_trans_reg; pfam01037 485917007440 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 485917007441 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917007442 putative substrate translocation pore; other site 485917007443 glucose/galactose transporter; Region: gluP; TIGR01272 485917007444 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 485917007445 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917007446 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917007447 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917007448 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917007449 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917007450 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 485917007451 dimer interface [polypeptide binding]; other site 485917007452 phosphorylation site [posttranslational modification] 485917007453 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 485917007454 ATP binding site [chemical binding]; other site 485917007455 Mg2+ binding site [ion binding]; other site 485917007456 G-X-G motif; other site 485917007457 Response regulator receiver domain; Region: Response_reg; pfam00072 485917007458 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 485917007459 active site 485917007460 phosphorylation site [posttranslational modification] 485917007461 intermolecular recognition site; other site 485917007462 dimerization interface [polypeptide binding]; other site 485917007463 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917007464 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917007465 Sulfatase; Region: Sulfatase; cl17466 485917007466 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917007467 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917007468 Sulfatase; Region: Sulfatase; pfam00884 485917007469 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917007470 Sulfatase; Region: Sulfatase; cl17466 485917007471 Sulfatase; Region: Sulfatase; cl17466 485917007472 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917007473 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917007474 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007475 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007476 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917007477 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917007478 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917007479 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917007480 Sulfatase; Region: Sulfatase; pfam00884 485917007481 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917007482 Two component regulator propeller; Region: Reg_prop; pfam07494 485917007483 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917007484 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917007485 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 485917007486 dimer interface [polypeptide binding]; other site 485917007487 phosphorylation site [posttranslational modification] 485917007488 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 485917007489 ATP binding site [chemical binding]; other site 485917007490 Mg2+ binding site [ion binding]; other site 485917007491 G-X-G motif; other site 485917007492 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 485917007493 Response regulator receiver domain; Region: Response_reg; pfam00072 485917007494 active site 485917007495 phosphorylation site [posttranslational modification] 485917007496 intermolecular recognition site; other site 485917007497 dimerization interface [polypeptide binding]; other site 485917007498 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917007499 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917007500 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 485917007501 Domain of unknown function (DUF1961); Region: DUF1961; pfam09224 485917007502 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 485917007503 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917007504 Sulfatase; Region: Sulfatase; cl17466 485917007505 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917007506 Lyase, N terminal; Region: Lyase_N; pfam09092 485917007507 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 485917007508 substrate binding site [chemical binding]; other site 485917007509 catalytic residues [active] 485917007510 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917007511 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 485917007512 catalytic residues [active] 485917007513 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 485917007514 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 485917007515 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 485917007516 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 485917007517 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917007518 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917007519 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917007520 SusD family; Region: SusD; pfam07980 485917007521 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007522 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007523 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917007524 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917007525 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 485917007526 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917007527 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917007528 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 485917007529 DNA binding residues [nucleotide binding] 485917007530 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917007531 AAA domain; Region: AAA_23; pfam13476 485917007532 Walker A/P-loop; other site 485917007533 ATP binding site [chemical binding]; other site 485917007534 AAA domain; Region: AAA_21; pfam13304 485917007535 FecR protein; Region: FecR; pfam04773 485917007536 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917007537 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007538 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007539 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917007540 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917007541 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917007542 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 485917007543 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917007544 catalytic residues [active] 485917007545 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 485917007546 FaeA-like protein; Region: FaeA; pfam04703 485917007547 ORF6N domain; Region: ORF6N; pfam10543 485917007548 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 485917007549 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 485917007550 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917007551 catalytic residue [active] 485917007552 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 485917007553 Methylamine utilisation protein MauE; Region: MauE; pfam07291 485917007554 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917007555 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485917007556 putative catalytic site [active] 485917007557 putative metal binding site [ion binding]; other site 485917007558 putative phosphate binding site [ion binding]; other site 485917007559 Family description; Region: VCBS; pfam13517 485917007560 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 485917007561 Family description; Region: VCBS; pfam13517 485917007562 Family description; Region: VCBS; pfam13517 485917007563 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 485917007564 nucleotide binding site/active site [active] 485917007565 HIT family signature motif; other site 485917007566 catalytic residue [active] 485917007567 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 485917007568 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 485917007569 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 485917007570 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 485917007571 Walker A/P-loop; other site 485917007572 ATP binding site [chemical binding]; other site 485917007573 Q-loop/lid; other site 485917007574 ABC transporter signature motif; other site 485917007575 Walker B; other site 485917007576 D-loop; other site 485917007577 H-loop/switch region; other site 485917007578 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 485917007579 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 485917007580 putative active site [active] 485917007581 putative catalytic site [active] 485917007582 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917007583 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 485917007584 dimer interface [polypeptide binding]; other site 485917007585 phosphorylation site [posttranslational modification] 485917007586 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 485917007587 ATP binding site [chemical binding]; other site 485917007588 Mg2+ binding site [ion binding]; other site 485917007589 G-X-G motif; other site 485917007590 AAA domain; Region: AAA_14; pfam13173 485917007591 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917007592 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917007593 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917007594 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917007595 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917007596 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 485917007597 He_PIG associated, NEW1 domain of bacterial glycohydrolase; Region: He_PIG_assoc; pfam10632 485917007598 alpha-galactosidase; Region: PLN02229 485917007599 Putative Ig domain; Region: He_PIG; pfam05345 485917007600 alpha-galactosidase; Region: PLN02808; cl17638 485917007601 NPCBM/NEW2 domain; Region: NPCBM; cl07060 485917007602 He_PIG associated, NEW1 domain of bacterial glycohydrolase; Region: He_PIG_assoc; pfam10632 485917007603 Putative Ig domain; Region: He_PIG; pfam05345 485917007604 alpha-galactosidase; Region: PLN02692 485917007605 alpha-galactosidase; Region: PLN02808; cl17638 485917007606 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 485917007607 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 485917007608 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917007609 Sulfatase; Region: Sulfatase; cl17466 485917007610 Sulfatase; Region: Sulfatase; cl17466 485917007611 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 485917007612 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 485917007613 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917007614 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917007615 SusD family; Region: SusD; pfam07980 485917007616 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917007617 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007618 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007619 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917007620 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917007621 FecR protein; Region: FecR; pfam04773 485917007622 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917007623 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917007624 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 485917007625 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 485917007626 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 485917007627 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 485917007628 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 485917007629 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 485917007630 putative dimer interface [polypeptide binding]; other site 485917007631 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 485917007632 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 485917007633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485917007634 Zn2+ binding site [ion binding]; other site 485917007635 Mg2+ binding site [ion binding]; other site 485917007636 acetyl-CoA C-acetyltransferase; Region: PLN02644 485917007637 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 485917007638 dimer interface [polypeptide binding]; other site 485917007639 active site 485917007640 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 485917007641 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 485917007642 putative substrate translocation pore; other site 485917007643 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 485917007644 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 485917007645 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 485917007646 putative substrate translocation pore; other site 485917007647 POT family; Region: PTR2; cl17359 485917007648 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 485917007649 Ligand binding site; other site 485917007650 Putative Catalytic site; other site 485917007651 DXD motif; other site 485917007652 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 485917007653 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 485917007654 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 485917007655 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 485917007656 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 485917007657 homodimer interface [polypeptide binding]; other site 485917007658 substrate-cofactor binding pocket; other site 485917007659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917007660 catalytic residue [active] 485917007661 prolyl-tRNA synthetase; Provisional; Region: PRK08661 485917007662 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 485917007663 dimer interface [polypeptide binding]; other site 485917007664 motif 1; other site 485917007665 active site 485917007666 motif 2; other site 485917007667 motif 3; other site 485917007668 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 485917007669 anticodon binding site; other site 485917007670 zinc-binding site [ion binding]; other site 485917007671 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 485917007672 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 485917007673 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 485917007674 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 485917007675 dimerization interface [polypeptide binding]; other site 485917007676 DPS ferroxidase diiron center [ion binding]; other site 485917007677 ion pore; other site 485917007678 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485917007679 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485917007680 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485917007681 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485917007682 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 485917007683 active site 485917007684 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 485917007685 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 485917007686 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 485917007687 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 485917007688 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 485917007689 MutS domain III; Region: MutS_III; pfam05192 485917007690 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 485917007691 Walker A/P-loop; other site 485917007692 ATP binding site [chemical binding]; other site 485917007693 Q-loop/lid; other site 485917007694 ABC transporter signature motif; other site 485917007695 Walker B; other site 485917007696 D-loop; other site 485917007697 H-loop/switch region; other site 485917007698 Smr domain; Region: Smr; pfam01713 485917007699 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 485917007700 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 485917007701 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485917007702 catalytic residue [active] 485917007703 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485917007704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917007705 Coenzyme A binding pocket [chemical binding]; other site 485917007706 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 485917007707 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 485917007708 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 485917007709 nucleotide binding site [chemical binding]; other site 485917007710 substrate binding site [chemical binding]; other site 485917007711 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 485917007712 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 485917007713 S-adenosylmethionine binding site [chemical binding]; other site 485917007714 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 485917007715 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 485917007716 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 485917007717 dimer interface [polypeptide binding]; other site 485917007718 decamer (pentamer of dimers) interface [polypeptide binding]; other site 485917007719 catalytic triad [active] 485917007720 Protein of unknown function DUF72; Region: DUF72; pfam01904 485917007721 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 485917007722 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 485917007723 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917007724 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917007725 adenylosuccinate lyase; Provisional; Region: PRK09285 485917007726 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 485917007727 tetramer interface [polypeptide binding]; other site 485917007728 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 485917007729 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 485917007730 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 485917007731 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 485917007732 active site 485917007733 dimerization interface [polypeptide binding]; other site 485917007734 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 485917007735 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 485917007736 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 485917007737 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 485917007738 FeS/SAM binding site; other site 485917007739 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 485917007740 Flavoprotein; Region: Flavoprotein; pfam02441 485917007741 Cupin domain; Region: Cupin_2; cl17218 485917007742 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917007743 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_6; cd01844 485917007744 active site 485917007745 catalytic triad [active] 485917007746 oxyanion hole [active] 485917007747 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917007748 Sulfatase; Region: Sulfatase; pfam00884 485917007749 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 485917007750 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 485917007751 NADP binding site [chemical binding]; other site 485917007752 homodimer interface [polypeptide binding]; other site 485917007753 active site 485917007754 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 485917007755 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917007756 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917007757 DNA binding site [nucleotide binding] 485917007758 domain linker motif; other site 485917007759 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 485917007760 dimerization interface [polypeptide binding]; other site 485917007761 ligand binding site [chemical binding]; other site 485917007762 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485917007763 Cysteine-rich domain; Region: CCG; pfam02754 485917007764 Cysteine-rich domain; Region: CCG; pfam02754 485917007765 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 485917007766 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 485917007767 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 485917007768 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 485917007769 benzoate transport; Region: 2A0115; TIGR00895 485917007770 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 485917007771 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917007772 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 485917007773 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485917007774 Protein export membrane protein; Region: SecD_SecF; cl14618 485917007775 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917007776 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 485917007777 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917007778 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 485917007779 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 485917007780 structural tetrad; other site 485917007781 Phosphoesterase family; Region: Phosphoesterase; pfam04185 485917007782 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917007783 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917007784 active site 485917007785 metal binding site [ion binding]; metal-binding site 485917007786 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 485917007787 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 485917007788 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 485917007789 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 485917007790 active site 485917007791 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 485917007792 binding surface 485917007793 TPR motif; other site 485917007794 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917007795 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917007796 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 485917007797 Histidine kinase; Region: HisKA_3; pfam07730 485917007798 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 485917007799 ATP binding site [chemical binding]; other site 485917007800 Mg2+ binding site [ion binding]; other site 485917007801 G-X-G motif; other site 485917007802 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485917007803 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 485917007804 active site 485917007805 phosphorylation site [posttranslational modification] 485917007806 intermolecular recognition site; other site 485917007807 dimerization interface [polypeptide binding]; other site 485917007808 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 485917007809 DNA binding residues [nucleotide binding] 485917007810 dimerization interface [polypeptide binding]; other site 485917007811 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007812 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917007813 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917007814 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 485917007815 binding surface 485917007816 TPR motif; other site 485917007817 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917007818 Beta-lactamase; Region: Beta-lactamase; pfam00144 485917007819 RNA polymerase Rpb3/RpoA insert domain; Region: RNA_pol_A_bac; pfam01000 485917007820 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 485917007821 RNA/DNA hybrid binding site [nucleotide binding]; other site 485917007822 active site 485917007823 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 485917007824 AMP binding site [chemical binding]; other site 485917007825 metal binding site [ion binding]; metal-binding site 485917007826 active site 485917007827 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 485917007828 active site 485917007829 metal binding site [ion binding]; metal-binding site 485917007830 homotetramer interface [polypeptide binding]; other site 485917007831 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 485917007832 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 485917007833 S-adenosylmethionine binding site [chemical binding]; other site 485917007834 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 485917007835 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 485917007836 dimerization interface [polypeptide binding]; other site 485917007837 ATP binding site [chemical binding]; other site 485917007838 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 485917007839 dimerization interface [polypeptide binding]; other site 485917007840 ATP binding site [chemical binding]; other site 485917007841 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 485917007842 putative active site [active] 485917007843 catalytic triad [active] 485917007844 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 485917007845 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 485917007846 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 485917007847 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 485917007848 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485917007849 phosphoribosylaminoimidazole synthetase; Region: purM; TIGR00878 485917007850 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 485917007851 dimerization interface [polypeptide binding]; other site 485917007852 ATP binding site [chemical binding]; other site 485917007853 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 485917007854 active site 485917007855 catalytic triad [active] 485917007856 oxyanion hole [active] 485917007857 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 485917007858 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485917007859 NHL repeat; Region: NHL; pfam01436 485917007860 NHL repeat; Region: NHL; pfam01436 485917007861 NHL repeat; Region: NHL; pfam01436 485917007862 NHL repeat; Region: NHL; pfam01436 485917007863 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485917007864 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 485917007865 Ca2+ binding site [ion binding]; other site 485917007866 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917007867 DinB family; Region: DinB; cl17821 485917007868 DinB superfamily; Region: DinB_2; pfam12867 485917007869 Peptidase S46; Region: Peptidase_S46; pfam10459 485917007870 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 485917007871 Family description; Region: VCBS; pfam13517 485917007872 Family description; Region: VCBS; pfam13517 485917007873 Family description; Region: VCBS; pfam13517 485917007874 Family description; Region: VCBS; pfam13517 485917007875 Family description; Region: VCBS; pfam13517 485917007876 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485917007877 putative catalytic site [active] 485917007878 putative metal binding site [ion binding]; other site 485917007879 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485917007880 putative catalytic site [active] 485917007881 putative phosphate binding site [ion binding]; other site 485917007882 putative phosphate binding site [ion binding]; other site 485917007883 putative metal binding site [ion binding]; other site 485917007884 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917007885 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 485917007886 putative substrate translocation pore; other site 485917007887 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; cd00249 485917007888 dimerization interface [polypeptide binding]; other site 485917007889 putative active cleft [active] 485917007890 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485917007891 putative catalytic site [active] 485917007892 putative metal binding site [ion binding]; other site 485917007893 putative phosphate binding site [ion binding]; other site 485917007894 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917007895 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917007896 SusD family; Region: SusD; pfam07980 485917007897 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917007898 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007899 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917007900 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 485917007901 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 485917007902 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 485917007903 nucleotide binding site [chemical binding]; other site 485917007904 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917007905 PCI domain; Region: PCI; cl02111 485917007906 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 485917007907 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 485917007908 nucleotide binding site [chemical binding]; other site 485917007909 Predicted transporter component [General function prediction only]; Region: COG2391 485917007910 Sulphur transport; Region: Sulf_transp; pfam04143 485917007911 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 485917007912 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 485917007913 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 485917007914 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917007915 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917007916 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917007917 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 485917007918 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485917007919 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485917007920 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 485917007921 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 485917007922 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 485917007923 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 485917007924 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 485917007925 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 485917007926 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917007927 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485917007928 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 485917007929 DNA binding residues [nucleotide binding] 485917007930 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 485917007931 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 485917007932 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 485917007933 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 485917007934 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 485917007935 active site 485917007936 catalytic tetrad [active] 485917007937 M28 Zn-Peptidases; Region: M28_like_2; cd05662 485917007938 Peptidase family M28; Region: Peptidase_M28; pfam04389 485917007939 metal binding site [ion binding]; metal-binding site 485917007940 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 485917007941 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 485917007942 Catalytic dyad [active] 485917007943 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 485917007944 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 485917007945 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485917007946 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485917007947 Walker A/P-loop; other site 485917007948 ATP binding site [chemical binding]; other site 485917007949 Q-loop/lid; other site 485917007950 ABC transporter signature motif; other site 485917007951 Walker B; other site 485917007952 D-loop; other site 485917007953 H-loop/switch region; other site 485917007954 Transcriptional regulators [Transcription]; Region: MarR; COG1846 485917007955 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 485917007956 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 485917007957 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 485917007958 dinuclear metal binding motif [ion binding]; other site 485917007959 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 485917007960 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 485917007961 CoA-ligase; Region: Ligase_CoA; pfam00549 485917007962 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 485917007963 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 485917007964 putative dimer interface [polypeptide binding]; other site 485917007965 putative anticodon binding site; other site 485917007966 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 485917007967 homodimer interface [polypeptide binding]; other site 485917007968 motif 1; other site 485917007969 motif 2; other site 485917007970 active site 485917007971 motif 3; other site 485917007972 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 485917007973 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 485917007974 active site 485917007975 FMN binding site [chemical binding]; other site 485917007976 substrate binding site [chemical binding]; other site 485917007977 3Fe-4S cluster binding site [ion binding]; other site 485917007978 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 485917007979 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 485917007980 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 485917007981 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 485917007982 substrate binding site [chemical binding]; other site 485917007983 active site 485917007984 catalytic residues [active] 485917007985 heterodimer interface [polypeptide binding]; other site 485917007986 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 485917007987 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 485917007988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917007989 catalytic residue [active] 485917007990 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 485917007991 active site 485917007992 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 485917007993 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 485917007994 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 485917007995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917007996 short chain dehydrogenase; Provisional; Region: PRK06181 485917007997 NAD(P) binding site [chemical binding]; other site 485917007998 active site 485917007999 recombination protein RecR; Reviewed; Region: recR; PRK00076 485917008000 RecR protein; Region: RecR; pfam02132 485917008001 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 485917008002 putative active site [active] 485917008003 putative metal-binding site [ion binding]; other site 485917008004 tetramer interface [polypeptide binding]; other site 485917008005 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 485917008006 Na binding site [ion binding]; other site 485917008007 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 485917008008 Protein of unknown function (DUF502); Region: DUF502; cl01107 485917008009 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 485917008010 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485917008011 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485917008012 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 485917008013 active site 485917008014 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485917008015 dimer interface [polypeptide binding]; other site 485917008016 substrate binding site [chemical binding]; other site 485917008017 catalytic residues [active] 485917008018 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 485917008019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917008020 Coenzyme A binding pocket [chemical binding]; other site 485917008021 Rrf2 family protein; Region: rrf2_super; TIGR00738 485917008022 Transcriptional regulator; Region: Rrf2; pfam02082 485917008023 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 485917008024 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 485917008025 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 485917008026 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 485917008027 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917008028 catalytic residue [active] 485917008029 FeS assembly protein SufD; Region: sufD; TIGR01981 485917008030 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 485917008031 FeS assembly ATPase SufC; Region: sufC; TIGR01978 485917008032 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 485917008033 Walker A/P-loop; other site 485917008034 ATP binding site [chemical binding]; other site 485917008035 Q-loop/lid; other site 485917008036 ABC transporter signature motif; other site 485917008037 Walker B; other site 485917008038 D-loop; other site 485917008039 H-loop/switch region; other site 485917008040 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 485917008041 putative ABC transporter; Region: ycf24; CHL00085 485917008042 MG2 domain; Region: A2M_N; pfam01835 485917008043 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917008044 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 485917008045 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 485917008046 putative active site [active] 485917008047 Zn binding site [ion binding]; other site 485917008048 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 485917008049 fructuronate transporter; Provisional; Region: PRK10034; cl15264 485917008050 glycerate kinase; Region: TIGR00045 485917008051 RecX family; Region: RecX; pfam02631 485917008052 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917008053 Sulfatase; Region: Sulfatase; pfam00884 485917008054 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 485917008055 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 485917008056 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917008057 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917008058 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917008059 HlyD family secretion protein; Region: HlyD_2; pfam12700 485917008060 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917008061 Outer membrane efflux protein; Region: OEP; pfam02321 485917008062 potential frameshift: common BLAST hit: gi|110637908|ref|YP_678115.1| heavy metal efflux pump protein 485917008063 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 485917008064 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 485917008065 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 485917008066 metal-binding site [ion binding] 485917008067 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 485917008068 metal-binding site [ion binding] 485917008069 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485917008070 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 485917008071 metal-binding site [ion binding] 485917008072 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485917008073 Soluble P-type ATPase [General function prediction only]; Region: COG4087 485917008074 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 485917008075 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 485917008076 S-adenosylmethionine binding site [chemical binding]; other site 485917008077 Histidine kinase; Region: His_kinase; pfam06580 485917008078 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485917008079 Beta-lactamase; Region: Beta-lactamase; pfam00144 485917008080 putative hydrolase; Provisional; Region: PRK02113 485917008081 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 485917008082 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 485917008083 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 485917008084 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 485917008085 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 485917008086 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 485917008087 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 485917008088 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 485917008089 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 485917008090 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 485917008091 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 485917008092 PspC domain; Region: PspC; cl00864 485917008093 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 485917008094 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 485917008095 active site 485917008096 dimer interface [polypeptide binding]; other site 485917008097 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 485917008098 transcription termination factor Rho; Provisional; Region: PRK12608 485917008099 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 485917008100 RNA binding site [nucleotide binding]; other site 485917008101 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 485917008102 multimer interface [polypeptide binding]; other site 485917008103 Walker A motif; other site 485917008104 ATP binding site [chemical binding]; other site 485917008105 Walker B motif; other site 485917008106 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 485917008107 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 485917008108 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 485917008109 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 485917008110 catalytic center binding site [active] 485917008111 ATP binding site [chemical binding]; other site 485917008112 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 485917008113 oligomer interface [polypeptide binding]; other site 485917008114 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 485917008115 tandem repeat interface [polypeptide binding]; other site 485917008116 active site residues [active] 485917008117 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 485917008118 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 485917008119 tandem repeat interface [polypeptide binding]; other site 485917008120 oligomer interface [polypeptide binding]; other site 485917008121 active site residues [active] 485917008122 DNA polymerase IV (family X) [DNA replication, recombination, and repair]; Region: POL4; COG1796 485917008123 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 485917008124 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 485917008125 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 485917008126 active site 485917008127 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 485917008128 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 485917008129 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 485917008130 putative active site [active] 485917008131 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 485917008132 catalytic core [active] 485917008133 AMP nucleosidase; Provisional; Region: PRK07115 485917008134 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 485917008135 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 485917008136 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 485917008137 Walker A motif; other site 485917008138 ATP binding site [chemical binding]; other site 485917008139 Walker B motif; other site 485917008140 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 485917008141 Clp protease; Region: CLP_protease; pfam00574 485917008142 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 485917008143 oligomer interface [polypeptide binding]; other site 485917008144 active site residues [active] 485917008145 trigger factor; Region: tig; TIGR00115 485917008146 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 485917008147 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 485917008148 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 485917008149 intersubunit interface [polypeptide binding]; other site 485917008150 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 485917008151 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 485917008152 ligand binding site; other site 485917008153 oligomer interface; other site 485917008154 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 485917008155 dimer interface [polypeptide binding]; other site 485917008156 N-terminal domain interface [polypeptide binding]; other site 485917008157 sulfate 1 binding site; other site 485917008158 glycogen synthase; Provisional; Region: glgA; PRK00654 485917008159 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 485917008160 ADP-binding pocket [chemical binding]; other site 485917008161 homodimer interface [polypeptide binding]; other site 485917008162 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 485917008163 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 485917008164 CysD dimerization site [polypeptide binding]; other site 485917008165 G1 box; other site 485917008166 putative GEF interaction site [polypeptide binding]; other site 485917008167 GTP/Mg2+ binding site [chemical binding]; other site 485917008168 Switch I region; other site 485917008169 G2 box; other site 485917008170 G3 box; other site 485917008171 Switch II region; other site 485917008172 G4 box; other site 485917008173 G5 box; other site 485917008174 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 485917008175 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 485917008176 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 485917008177 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 485917008178 Active Sites [active] 485917008179 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 485917008180 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 485917008181 Active Sites [active] 485917008182 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 485917008183 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 485917008184 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485917008185 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 485917008186 active site 485917008187 SAM binding site [chemical binding]; other site 485917008188 homodimer interface [polypeptide binding]; other site 485917008189 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 485917008190 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485917008191 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485917008192 HEPN domain; Region: HEPN; cl00824 485917008193 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 485917008194 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917008195 putative active site [active] 485917008196 putative metal binding site [ion binding]; other site 485917008197 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 485917008198 Predicted membrane protein [Function unknown]; Region: COG2246 485917008199 GtrA-like protein; Region: GtrA; pfam04138 485917008200 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917008201 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917008202 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917008203 FecR protein; Region: FecR; pfam04773 485917008204 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917008205 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917008206 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 485917008207 DNA binding residues [nucleotide binding] 485917008208 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 485917008209 Necrosis inducing protein (NPP1); Region: NPP1; pfam05630 485917008210 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917008211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917008212 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 485917008213 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 485917008214 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 485917008215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917008216 NAD(P) binding site [chemical binding]; other site 485917008217 active site 485917008218 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485917008219 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917008220 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 485917008221 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 485917008222 active site 485917008223 trimer interface [polypeptide binding]; other site 485917008224 allosteric site; other site 485917008225 active site lid [active] 485917008226 hexamer (dimer of trimers) interface [polypeptide binding]; other site 485917008227 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485917008228 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 485917008229 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917008230 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917008231 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 485917008232 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 485917008233 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 485917008234 active site 485917008235 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 485917008236 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 485917008237 L-fucose transporter; Provisional; Region: PRK10133; cl17665 485917008238 glucose/galactose transporter; Region: gluP; TIGR01272 485917008239 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 485917008240 D-galactonate transporter; Region: 2A0114; TIGR00893 485917008241 putative substrate translocation pore; other site 485917008242 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917008243 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 485917008244 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 485917008245 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917008246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917008247 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917008248 DNA-binding site [nucleotide binding]; DNA binding site 485917008249 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 485917008250 putative dimerization interface [polypeptide binding]; other site 485917008251 putative ligand binding site [chemical binding]; other site 485917008252 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485917008253 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 485917008254 non-specific DNA binding site [nucleotide binding]; other site 485917008255 salt bridge; other site 485917008256 sequence-specific DNA binding site [nucleotide binding]; other site 485917008257 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 485917008258 dimerization interface [polypeptide binding]; other site 485917008259 putative DNA binding site [nucleotide binding]; other site 485917008260 putative Zn2+ binding site [ion binding]; other site 485917008261 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 485917008262 putative hydrophobic ligand binding site [chemical binding]; other site 485917008263 Response regulator receiver domain; Region: Response_reg; pfam00072 485917008264 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 485917008265 active site 485917008266 phosphorylation site [posttranslational modification] 485917008267 intermolecular recognition site; other site 485917008268 dimerization interface [polypeptide binding]; other site 485917008269 LytTr DNA-binding domain; Region: LytTR; smart00850 485917008270 Histidine kinase; Region: His_kinase; pfam06580 485917008271 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 485917008272 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917008273 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917008274 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917008275 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485917008276 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485917008277 Walker A/P-loop; other site 485917008278 ATP binding site [chemical binding]; other site 485917008279 Q-loop/lid; other site 485917008280 ABC transporter signature motif; other site 485917008281 Walker B; other site 485917008282 D-loop; other site 485917008283 H-loop/switch region; other site 485917008284 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485917008285 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485917008286 FtsX-like permease family; Region: FtsX; pfam02687 485917008287 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 485917008288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917008289 NAD(P) binding site [chemical binding]; other site 485917008290 active site 485917008291 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 485917008292 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 485917008293 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 485917008294 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 485917008295 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 485917008296 motif II; other site 485917008297 Acyltransferase family; Region: Acyl_transf_3; pfam01757 485917008298 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 485917008299 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 485917008300 putative NAD(P) binding site [chemical binding]; other site 485917008301 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 485917008302 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 485917008303 THF binding site; other site 485917008304 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 485917008305 substrate binding site [chemical binding]; other site 485917008306 THF binding site; other site 485917008307 zinc-binding site [ion binding]; other site 485917008308 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485917008309 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 485917008310 putative DNA binding site [nucleotide binding]; other site 485917008311 putative Zn2+ binding site [ion binding]; other site 485917008312 AsnC family; Region: AsnC_trans_reg; pfam01037 485917008313 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 485917008314 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485917008315 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 485917008316 active site 485917008317 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917008318 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917008319 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 485917008320 DNA binding residues [nucleotide binding] 485917008321 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 485917008322 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 485917008323 arsenical-resistance protein; Region: acr3; TIGR00832 485917008324 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 485917008325 Low molecular weight phosphatase family; Region: LMWPc; cd00115 485917008326 active site 485917008327 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 485917008328 dimerization interface [polypeptide binding]; other site 485917008329 putative DNA binding site [nucleotide binding]; other site 485917008330 putative Zn2+ binding site [ion binding]; other site 485917008331 FecR protein; Region: FecR; pfam04773 485917008332 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 485917008333 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917008334 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485917008335 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 485917008336 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 485917008337 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 485917008338 active site 485917008339 phosphorylation site [posttranslational modification] 485917008340 intermolecular recognition site; other site 485917008341 dimerization interface [polypeptide binding]; other site 485917008342 LytTr DNA-binding domain; Region: LytTR; smart00850 485917008343 Histidine kinase; Region: His_kinase; pfam06580 485917008344 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 485917008345 homoserine O-succinyltransferase; Provisional; Region: PRK05368 485917008346 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 485917008347 proposed active site lysine [active] 485917008348 conserved cys residue [active] 485917008349 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 485917008350 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917008351 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917008352 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 485917008353 Uncharacterized conserved protein [Function unknown]; Region: COG4925 485917008354 maltose O-acetyltransferase; Provisional; Region: PRK10092 485917008355 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 485917008356 active site 485917008357 substrate binding site [chemical binding]; other site 485917008358 trimer interface [polypeptide binding]; other site 485917008359 CoA binding site [chemical binding]; other site 485917008360 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917008361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917008362 integral membrane protein; Region: integ_memb_HG; TIGR03954 485917008363 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917008364 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917008365 SusD family; Region: SusD; pfam07980 485917008366 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917008367 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917008368 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917008369 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917008370 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917008371 FecR protein; Region: FecR; pfam04773 485917008372 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917008373 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917008374 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917008375 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 485917008376 DNA binding residues [nucleotide binding] 485917008377 co-chaperone HscB; Provisional; Region: hscB; PRK01773 485917008378 DnaJ domain; Region: DnaJ; pfam00226 485917008379 HSP70 interaction site [polypeptide binding]; other site 485917008380 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 485917008381 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 485917008382 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 485917008383 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 485917008384 protein binding site [polypeptide binding]; other site 485917008385 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 485917008386 protein binding site [polypeptide binding]; other site 485917008387 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 485917008388 putative substrate binding region [chemical binding]; other site 485917008389 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 485917008390 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 485917008391 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 485917008392 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 485917008393 GH3 auxin-responsive promoter; Region: GH3; pfam03321 485917008394 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 485917008395 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 485917008396 active site 485917008397 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 485917008398 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 485917008399 Ligand binding site; other site 485917008400 Putative Catalytic site; other site 485917008401 DXD motif; other site 485917008402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917008403 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 485917008404 dimer interface [polypeptide binding]; other site 485917008405 phosphorylation site [posttranslational modification] 485917008406 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 485917008407 ATP binding site [chemical binding]; other site 485917008408 Mg2+ binding site [ion binding]; other site 485917008409 G-X-G motif; other site 485917008410 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485917008411 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 485917008412 active site 485917008413 phosphorylation site [posttranslational modification] 485917008414 intermolecular recognition site; other site 485917008415 dimerization interface [polypeptide binding]; other site 485917008416 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 485917008417 dihydroorotase; Validated; Region: pyrC; PRK09357 485917008418 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 485917008419 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 485917008420 active site 485917008421 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 485917008422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 485917008423 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 485917008424 putative acetyltransferase; Provisional; Region: PRK03624 485917008425 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917008426 Coenzyme A binding pocket [chemical binding]; other site 485917008427 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 485917008428 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 485917008429 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 485917008430 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 485917008431 histidinol dehydrogenase; Region: hisD; TIGR00069 485917008432 NAD binding site [chemical binding]; other site 485917008433 dimerization interface [polypeptide binding]; other site 485917008434 product binding site; other site 485917008435 substrate binding site [chemical binding]; other site 485917008436 zinc binding site [ion binding]; other site 485917008437 catalytic residues [active] 485917008438 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 485917008439 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 485917008440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917008441 homodimer interface [polypeptide binding]; other site 485917008442 catalytic residue [active] 485917008443 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 485917008444 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 485917008445 active site 485917008446 motif I; other site 485917008447 motif II; other site 485917008448 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 485917008449 putative active site pocket [active] 485917008450 4-fold oligomerization interface [polypeptide binding]; other site 485917008451 metal binding residues [ion binding]; metal-binding site 485917008452 3-fold/trimer interface [polypeptide binding]; other site 485917008453 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 485917008454 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 485917008455 putative active site [active] 485917008456 oxyanion strand; other site 485917008457 catalytic triad [active] 485917008458 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 485917008459 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 485917008460 catalytic residues [active] 485917008461 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 485917008462 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 485917008463 substrate binding site [chemical binding]; other site 485917008464 glutamase interaction surface [polypeptide binding]; other site 485917008465 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 485917008466 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 485917008467 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 485917008468 metal binding site [ion binding]; metal-binding site 485917008469 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; cd00200 485917008470 FOG: WD40 repeat [General function prediction only]; Region: COG2319 485917008471 structural tetrad; other site 485917008472 MG2 domain; Region: A2M_N; pfam01835 485917008473 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917008474 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917008475 Alpha-2-macroglobulin family; Region: A2M; pfam00207 485917008476 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 485917008477 Bacterial SH3 domain; Region: SH3_3; pfam08239 485917008478 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 485917008479 NlpC/P60 family; Region: NLPC_P60; pfam00877 485917008480 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 485917008481 Ligand Binding Site [chemical binding]; other site 485917008482 4Fe-4S binding domain; Region: Fer4; pfam00037 485917008483 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917008484 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 485917008485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917008486 Walker A/P-loop; other site 485917008487 ATP binding site [chemical binding]; other site 485917008488 Q-loop/lid; other site 485917008489 ABC transporter signature motif; other site 485917008490 Walker B; other site 485917008491 D-loop; other site 485917008492 H-loop/switch region; other site 485917008493 GrpE; Region: GrpE; pfam01025 485917008494 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 485917008495 dimer interface [polypeptide binding]; other site 485917008496 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 485917008497 chaperone protein DnaJ; Provisional; Region: PRK14289 485917008498 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 485917008499 HSP70 interaction site [polypeptide binding]; other site 485917008500 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 485917008501 substrate binding site [polypeptide binding]; other site 485917008502 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 485917008503 Zn binding sites [ion binding]; other site 485917008504 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 485917008505 dimer interface [polypeptide binding]; other site 485917008506 exopolyphosphatase; Region: exo_poly_only; TIGR03706 485917008507 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 485917008508 Maf-like protein; Region: Maf; pfam02545 485917008509 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 485917008510 active site 485917008511 dimer interface [polypeptide binding]; other site 485917008512 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 485917008513 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 485917008514 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 485917008515 active site 485917008516 motif I; other site 485917008517 motif II; other site 485917008518 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 485917008519 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 485917008520 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 485917008521 catalytic loop [active] 485917008522 iron binding site [ion binding]; other site 485917008523 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 485917008524 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 485917008525 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 485917008526 CcmE; Region: CcmE; cl00994 485917008527 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 485917008528 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 485917008529 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 485917008530 NAD(P) binding site [chemical binding]; other site 485917008531 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 485917008532 CcmB protein; Region: CcmB; cl17444 485917008533 Right handed beta helix region; Region: Beta_helix; pfam13229 485917008534 Predicted membrane protein [Function unknown]; Region: COG2323 485917008535 gliding motility-associated protein GldC; Region: GldC; TIGR03515 485917008536 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 485917008537 DEAD-like helicases superfamily; Region: DEXDc; smart00487 485917008538 ATP binding site [chemical binding]; other site 485917008539 Mg++ binding site [ion binding]; other site 485917008540 motif III; other site 485917008541 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 485917008542 nucleotide binding region [chemical binding]; other site 485917008543 ATP-binding site [chemical binding]; other site 485917008544 dihydroorotase; Reviewed; Region: PRK09236 485917008545 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 485917008546 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 485917008547 active site 485917008548 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 485917008549 chaperone protein HscA; Provisional; Region: hscA; PRK05183 485917008550 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 485917008551 nucleotide binding site [chemical binding]; other site 485917008552 putative NEF/HSP70 interaction site [polypeptide binding]; other site 485917008553 SBD interface [polypeptide binding]; other site 485917008554 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cd10981 485917008555 Zn binding site [ion binding]; other site 485917008556 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 485917008557 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 485917008558 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 485917008559 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 485917008560 DNA polymerase III subunit beta; Validated; Region: PRK05643 485917008561 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 485917008562 putative DNA binding surface [nucleotide binding]; other site 485917008563 dimer interface [polypeptide binding]; other site 485917008564 beta-clamp/clamp loader binding surface; other site 485917008565 beta-clamp/translesion DNA polymerase binding surface; other site 485917008566 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 485917008567 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 485917008568 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 485917008569 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 485917008570 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485917008571 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 485917008572 DNA binding residues [nucleotide binding] 485917008573 dimerization interface [polypeptide binding]; other site 485917008574 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485917008575 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 485917008576 DNA binding residues [nucleotide binding] 485917008577 dimerization interface [polypeptide binding]; other site 485917008578 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 485917008579 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 485917008580 Walker A/P-loop; other site 485917008581 ATP binding site [chemical binding]; other site 485917008582 Q-loop/lid; other site 485917008583 ABC transporter signature motif; other site 485917008584 Walker B; other site 485917008585 D-loop; other site 485917008586 H-loop/switch region; other site 485917008587 glycyl-tRNA synthetase; Provisional; Region: PRK04173 485917008588 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 485917008589 motif 1; other site 485917008590 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 485917008591 active site 485917008592 motif 2; other site 485917008593 motif 3; other site 485917008594 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 485917008595 anticodon binding site; other site 485917008596 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917008597 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 485917008598 active site 485917008599 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 485917008600 dimerization interface [polypeptide binding]; other site 485917008601 putative active cleft [active] 485917008602 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 485917008603 active site 485917008604 catalytic triad [active] 485917008605 oxyanion hole [active] 485917008606 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917008607 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 485917008608 catalytic site [active] 485917008609 BNR repeat-like domain; Region: BNR_2; pfam13088 485917008610 Asp-box motif; other site 485917008611 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 485917008612 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917008613 putative substrate translocation pore; other site 485917008614 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 485917008615 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 485917008616 Class I aldolases; Region: Aldolase_Class_I; cl17187 485917008617 catalytic residue [active] 485917008618 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917008619 SusD family; Region: SusD; pfam07980 485917008620 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917008621 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917008622 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917008623 Transcriptional regulators [Transcription]; Region: FadR; COG2186 485917008624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917008625 DNA-binding site [nucleotide binding]; DNA binding site 485917008626 FCD domain; Region: FCD; pfam07729 485917008627 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917008628 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917008629 hydroperoxidase II; Provisional; Region: katE; PRK11249 485917008630 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 485917008631 tetramer interface [polypeptide binding]; other site 485917008632 heme binding pocket [chemical binding]; other site 485917008633 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 485917008634 domain interactions; other site 485917008635 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 485917008636 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 485917008637 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 485917008638 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 485917008639 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 485917008640 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 485917008641 L-aspartate oxidase; Provisional; Region: PRK06175 485917008642 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 485917008643 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 485917008644 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 485917008645 putative Iron-sulfur protein interface [polypeptide binding]; other site 485917008646 proximal heme binding site [chemical binding]; other site 485917008647 distal heme binding site [chemical binding]; other site 485917008648 putative dimer interface [polypeptide binding]; other site 485917008649 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 485917008650 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; cd00625 485917008651 transmembrane helices; other site 485917008652 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 485917008653 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 485917008654 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 485917008655 Sulfatase; Region: Sulfatase; cl17466 485917008656 GtrA-like protein; Region: GtrA; pfam04138 485917008657 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 485917008658 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cl01244 485917008659 cofactor binding site; other site 485917008660 metal binding site [ion binding]; metal-binding site 485917008661 short chain dehydrogenase; Provisional; Region: PRK12828 485917008662 classical (c) SDRs; Region: SDR_c; cd05233 485917008663 NAD(P) binding site [chemical binding]; other site 485917008664 active site 485917008665 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 485917008666 NlpC/P60 family; Region: NLPC_P60; pfam00877 485917008667 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 485917008668 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 485917008669 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 485917008670 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 485917008671 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 485917008672 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 485917008673 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 485917008674 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 485917008675 dimer interface [polypeptide binding]; other site 485917008676 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 485917008677 active site 485917008678 Fe binding site [ion binding]; other site 485917008679 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 485917008680 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917008681 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485917008682 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 485917008683 ATP binding site [chemical binding]; other site 485917008684 Mg2+ binding site [ion binding]; other site 485917008685 G-X-G motif; other site 485917008686 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 485917008687 binding surface 485917008688 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917008689 TPR motif; other site 485917008690 TPR repeat; Region: TPR_11; pfam13414 485917008691 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 485917008692 Lumazine binding domain; Region: Lum_binding; pfam00677 485917008693 Lumazine binding domain; Region: Lum_binding; pfam00677 485917008694 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 485917008695 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485917008696 ATP-grasp domain; Region: ATP-grasp_4; cl17255 485917008697 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 485917008698 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 485917008699 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 485917008700 tetramer interface [polypeptide binding]; other site 485917008701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917008702 catalytic residue [active] 485917008703 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 485917008704 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 485917008705 nudix motif; other site 485917008706 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 485917008707 6-phosphofructokinase; Provisional; Region: PRK03202 485917008708 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 485917008709 active site 485917008710 ADP/pyrophosphate binding site [chemical binding]; other site 485917008711 dimerization interface [polypeptide binding]; other site 485917008712 allosteric effector site; other site 485917008713 fructose-1,6-bisphosphate binding site; other site 485917008714 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 485917008715 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 485917008716 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 485917008717 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 485917008718 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; cd03467 485917008719 iron-sulfur cluster [ion binding]; other site 485917008720 [2Fe-2S] cluster binding site [ion binding]; other site 485917008721 YceI-like domain; Region: YceI; pfam04264 485917008722 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917008723 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 485917008724 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917008725 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 485917008726 DNA binding residues [nucleotide binding] 485917008727 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917008728 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917008729 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 485917008730 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917008731 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917008732 CHAT domain; Region: CHAT; pfam12770 485917008733 glycogen branching enzyme; Provisional; Region: PRK12313 485917008734 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 485917008735 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 485917008736 active site 485917008737 catalytic site [active] 485917008738 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 485917008739 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 485917008740 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 485917008741 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 485917008742 trimer interface [polypeptide binding]; other site 485917008743 active site 485917008744 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 485917008745 catalytic site [active] 485917008746 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917008747 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917008748 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917008749 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917008750 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 485917008751 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 485917008752 active site 485917008753 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 485917008754 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 485917008755 RES domain; Region: RES; pfam08808 485917008756 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 485917008757 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 485917008758 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 485917008759 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 485917008760 active site 485917008761 HIGH motif; other site 485917008762 dimer interface [polypeptide binding]; other site 485917008763 KMSKS motif; other site 485917008764 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 485917008765 RNA binding surface [nucleotide binding]; other site 485917008766 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 485917008767 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 485917008768 nucleotide binding pocket [chemical binding]; other site 485917008769 K-X-D-G motif; other site 485917008770 catalytic site [active] 485917008771 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 485917008772 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 485917008773 DNA replication factor Dna2; Region: Dna2; pfam08696 485917008774 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 485917008775 Dimer interface [polypeptide binding]; other site 485917008776 BRCT sequence motif; other site 485917008777 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 485917008778 dihydrodipicolinate synthase; Region: dapA; TIGR00674 485917008779 dimer interface [polypeptide binding]; other site 485917008780 active site 485917008781 catalytic residue [active] 485917008782 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 485917008783 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 485917008784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917008785 catalytic residue [active] 485917008786 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 485917008787 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 485917008788 nucleotide binding site [chemical binding]; other site 485917008789 SulA interaction site; other site 485917008790 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 485917008791 Cell division protein FtsA; Region: FtsA; smart00842 485917008792 Cell division protein FtsA; Region: FtsA; pfam14450 485917008793 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 485917008794 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 485917008795 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485917008796 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485917008797 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485917008798 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 485917008799 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 485917008800 homodimer interface [polypeptide binding]; other site 485917008801 active site 485917008802 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 485917008803 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 485917008804 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485917008805 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485917008806 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 485917008807 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 485917008808 Mg++ binding site [ion binding]; other site 485917008809 putative catalytic motif [active] 485917008810 putative substrate binding site [chemical binding]; other site 485917008811 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 485917008812 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485917008813 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485917008814 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485917008815 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 485917008816 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 485917008817 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 485917008818 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 485917008819 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 485917008820 MraW methylase family; Region: Methyltransf_5; cl17771 485917008821 MraZ protein; Region: MraZ; pfam02381 485917008822 cell division protein MraZ; Reviewed; Region: PRK00326 485917008823 MraZ protein; Region: MraZ; pfam02381 485917008824 Phosphoglycerate kinase; Region: PGK; pfam00162 485917008825 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 485917008826 substrate binding site [chemical binding]; other site 485917008827 hinge regions; other site 485917008828 ADP binding site [chemical binding]; other site 485917008829 catalytic site [active] 485917008830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485917008831 Coenzyme A binding pocket [chemical binding]; other site 485917008832 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485917008833 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 485917008834 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 485917008835 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 485917008836 exosortase/archaeosortase family protein; Region: exo_archaeo; TIGR04178 485917008837 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 485917008838 Zn binding site [ion binding]; other site 485917008839 Response regulator receiver domain; Region: Response_reg; pfam00072 485917008840 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 485917008841 active site 485917008842 phosphorylation site [posttranslational modification] 485917008843 intermolecular recognition site; other site 485917008844 dimerization interface [polypeptide binding]; other site 485917008845 DNA helicase, putative; Region: TIGR00376 485917008846 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 485917008847 ATP binding site [chemical binding]; other site 485917008848 AAA domain; Region: AAA_12; pfam13087 485917008849 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 485917008850 FAD binding domain; Region: FAD_binding_4; pfam01565 485917008851 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 485917008852 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485917008853 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 485917008854 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 485917008855 conserved cys residue [active] 485917008856 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917008857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917008858 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917008859 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917008860 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 485917008861 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 485917008862 putative active site [active] 485917008863 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485917008864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917008865 Walker A/P-loop; other site 485917008866 ATP binding site [chemical binding]; other site 485917008867 Q-loop/lid; other site 485917008868 ABC transporter signature motif; other site 485917008869 Walker B; other site 485917008870 D-loop; other site 485917008871 H-loop/switch region; other site 485917008872 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 485917008873 Chromate transporter; Region: Chromate_transp; pfam02417 485917008874 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 485917008875 putative hydrophobic ligand binding site [chemical binding]; other site 485917008876 Predicted transcriptional regulators [Transcription]; Region: COG1725 485917008877 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917008878 DNA-binding site [nucleotide binding]; DNA binding site 485917008879 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 485917008880 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 485917008881 Walker A/P-loop; other site 485917008882 ATP binding site [chemical binding]; other site 485917008883 Q-loop/lid; other site 485917008884 ABC transporter signature motif; other site 485917008885 Walker B; other site 485917008886 D-loop; other site 485917008887 H-loop/switch region; other site 485917008888 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 485917008889 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 485917008890 putative NAD(P) binding site [chemical binding]; other site 485917008891 putative substrate binding site [chemical binding]; other site 485917008892 catalytic Zn binding site [ion binding]; other site 485917008893 structural Zn binding site [ion binding]; other site 485917008894 dimer interface [polypeptide binding]; other site 485917008895 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 485917008896 Uncharacterized glycoside hydrolase family 99-like domain; Region: GH99_GH71_like_2; cd11576 485917008897 putative ligand binding site [chemical binding]; other site 485917008898 putative catalytic site [active] 485917008899 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917008900 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917008901 active site 485917008902 metal binding site [ion binding]; metal-binding site 485917008903 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 485917008904 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 485917008905 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 485917008906 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 485917008907 Uncharacterized glycoside hydrolase family 99-like domain; Region: GH99_GH71_like_1; cd11578 485917008908 putative ligand binding site [chemical binding]; other site 485917008909 putative catalytic site [active] 485917008910 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 485917008911 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917008912 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917008913 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917008914 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917008915 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917008916 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917008917 active site 485917008918 metal binding site [ion binding]; metal-binding site 485917008919 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917008920 Uncharacterized glycoside hydrolase family 99-like domain; Region: GH99_GH71_like_1; cd11578 485917008921 putative ligand binding site [chemical binding]; other site 485917008922 putative catalytic site [active] 485917008923 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 485917008924 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917008925 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917008926 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917008927 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917008928 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917008929 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917008930 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 485917008931 putative substrate translocation pore; other site 485917008932 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 485917008933 PAS fold; Region: PAS_4; pfam08448 485917008934 PAS fold; Region: PAS_3; pfam08447 485917008935 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485917008936 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 485917008937 putative active site [active] 485917008938 heme pocket [chemical binding]; other site 485917008939 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 485917008940 dimer interface [polypeptide binding]; other site 485917008941 phosphorylation site [posttranslational modification] 485917008942 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 485917008943 ATP binding site [chemical binding]; other site 485917008944 Mg2+ binding site [ion binding]; other site 485917008945 G-X-G motif; other site 485917008946 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917008947 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917008948 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917008949 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 485917008950 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917008951 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917008952 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917008953 SusD family; Region: SusD; pfam07980 485917008954 Sulfatase; Region: Sulfatase; pfam00884 485917008955 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917008956 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917008957 Sulfatase; Region: Sulfatase; pfam00884 485917008958 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 485917008959 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 485917008960 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 485917008961 Chromate transporter; Region: Chromate_transp; pfam02417 485917008962 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 485917008963 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917008964 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917008965 GTPase CgtA; Reviewed; Region: obgE; PRK12299 485917008966 GTP1/OBG; Region: GTP1_OBG; pfam01018 485917008967 Obg GTPase; Region: Obg; cd01898 485917008968 G1 box; other site 485917008969 GTP/Mg2+ binding site [chemical binding]; other site 485917008970 Switch I region; other site 485917008971 G2 box; other site 485917008972 G3 box; other site 485917008973 Switch II region; other site 485917008974 G4 box; other site 485917008975 G5 box; other site 485917008976 adenylate kinase; Reviewed; Region: adk; PRK00279 485917008977 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 485917008978 AMP-binding site [chemical binding]; other site 485917008979 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 485917008980 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917008981 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917008982 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 485917008983 DNA binding residues [nucleotide binding] 485917008984 FecR protein; Region: FecR; pfam04773 485917008985 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917008986 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917008987 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917008988 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917008989 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917008990 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 485917008991 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917008992 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 485917008993 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917008994 catalytic residues [active] 485917008995 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 485917008996 Uncharacterized conserved protein [Function unknown]; Region: COG2353 485917008997 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917008998 Sulfatase; Region: Sulfatase; pfam00884 485917008999 FecR protein; Region: FecR; pfam04773 485917009000 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 485917009001 Mechanosensitive ion channel; Region: MS_channel; pfam00924 485917009002 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 485917009003 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 485917009004 putative substrate translocation pore; other site 485917009005 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 485917009006 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917009007 putative substrate translocation pore; other site 485917009008 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 485917009009 active site 485917009010 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 485917009011 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 485917009012 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917009013 glucose/galactose transporter; Region: gluP; TIGR01272 485917009014 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 485917009015 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 485917009016 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917009017 active site 485917009018 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 485917009019 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 485917009020 putative active site [active] 485917009021 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 485917009022 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 485917009023 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 485917009024 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 485917009025 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 485917009026 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 485917009027 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 485917009028 putative substrate binding site [chemical binding]; other site 485917009029 active site 485917009030 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 485917009031 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917009032 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917009033 SusD family; Region: SusD; pfam07980 485917009034 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917009035 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009036 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917009037 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917009038 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 485917009039 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917009040 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485917009041 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 485917009042 active site 485917009043 phosphorylation site [posttranslational modification] 485917009044 intermolecular recognition site; other site 485917009045 dimerization interface [polypeptide binding]; other site 485917009046 LytTr DNA-binding domain; Region: LytTR; smart00850 485917009047 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 485917009048 ligand binding site [chemical binding]; other site 485917009049 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917009050 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 485917009051 binding surface 485917009052 TPR motif; other site 485917009053 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485917009054 Histidine kinase; Region: His_kinase; pfam06580 485917009055 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 485917009056 Mg2+ binding site [ion binding]; other site 485917009057 G-X-G motif; other site 485917009058 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 485917009059 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 485917009060 NADP binding site [chemical binding]; other site 485917009061 active site 485917009062 putative substrate binding site [chemical binding]; other site 485917009063 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 485917009064 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 485917009065 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 485917009066 alpha subunit interaction interface [polypeptide binding]; other site 485917009067 Walker A motif; other site 485917009068 ATP binding site [chemical binding]; other site 485917009069 Walker B motif; other site 485917009070 inhibitor binding site; inhibition site 485917009071 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 485917009072 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 485917009073 gamma subunit interface [polypeptide binding]; other site 485917009074 LBP interface [polypeptide binding]; other site 485917009075 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 485917009076 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 485917009077 homodimer interface [polypeptide binding]; other site 485917009078 substrate-cofactor binding pocket; other site 485917009079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917009080 catalytic residue [active] 485917009081 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 485917009082 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 485917009083 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 485917009084 PYR/PP interface [polypeptide binding]; other site 485917009085 dimer interface [polypeptide binding]; other site 485917009086 TPP binding site [chemical binding]; other site 485917009087 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 485917009088 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 485917009089 TPP-binding site [chemical binding]; other site 485917009090 dimer interface [polypeptide binding]; other site 485917009091 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 485917009092 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 485917009093 putative valine binding site [chemical binding]; other site 485917009094 dimer interface [polypeptide binding]; other site 485917009095 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 485917009096 DinB superfamily; Region: DinB_2; pfam12867 485917009097 ketol-acid reductoisomerase; Validated; Region: PRK05225 485917009098 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 485917009099 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 485917009100 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 485917009101 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917009102 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 485917009103 Walker A/P-loop; other site 485917009104 ATP binding site [chemical binding]; other site 485917009105 Q-loop/lid; other site 485917009106 ABC transporter signature motif; other site 485917009107 Walker B; other site 485917009108 D-loop; other site 485917009109 H-loop/switch region; other site 485917009110 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917009111 Walker A/P-loop; other site 485917009112 ATP binding site [chemical binding]; other site 485917009113 Q-loop/lid; other site 485917009114 ABC transporter signature motif; other site 485917009115 Walker B; other site 485917009116 D-loop; other site 485917009117 H-loop/switch region; other site 485917009118 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 485917009119 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 485917009120 active site 485917009121 catalytic residues [active] 485917009122 metal binding site [ion binding]; metal-binding site 485917009123 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 485917009124 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 485917009125 substrate binding site [chemical binding]; other site 485917009126 ligand binding site [chemical binding]; other site 485917009127 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 485917009128 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 485917009129 substrate binding site [chemical binding]; other site 485917009130 (R)-citramalate synthase; Provisional; Region: PRK09389 485917009131 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 485917009132 active site 485917009133 catalytic residues [active] 485917009134 metal binding site [ion binding]; metal-binding site 485917009135 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 485917009136 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 485917009137 tartrate dehydrogenase; Region: TTC; TIGR02089 485917009138 threonine dehydratase; Validated; Region: PRK08639 485917009139 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 485917009140 tetramer interface [polypeptide binding]; other site 485917009141 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917009142 catalytic residue [active] 485917009143 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 485917009144 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 485917009145 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485917009146 DNA binding residues [nucleotide binding] 485917009147 dimer interface [polypeptide binding]; other site 485917009148 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 485917009149 PAS fold; Region: PAS_4; pfam08448 485917009150 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917009151 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 485917009152 putative substrate translocation pore; other site 485917009153 L-fucose transporter; Provisional; Region: PRK10133; cl17665 485917009154 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 485917009155 Predicted acetyltransferase [General function prediction only]; Region: COG2388 485917009156 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009157 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 485917009158 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917009159 Walker A/P-loop; other site 485917009160 ATP binding site [chemical binding]; other site 485917009161 Q-loop/lid; other site 485917009162 ABC transporter signature motif; other site 485917009163 Walker B; other site 485917009164 D-loop; other site 485917009165 H-loop/switch region; other site 485917009166 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917009167 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 485917009168 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 485917009169 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 485917009170 substrate binding site [chemical binding]; other site 485917009171 active site 485917009172 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917009173 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 485917009174 active site 485917009175 phosphorylation site [posttranslational modification] 485917009176 intermolecular recognition site; other site 485917009177 dimerization interface [polypeptide binding]; other site 485917009178 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 485917009179 DNA binding site [nucleotide binding] 485917009180 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 485917009181 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 485917009182 dimer interface [polypeptide binding]; other site 485917009183 phosphorylation site [posttranslational modification] 485917009184 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 485917009185 ATP binding site [chemical binding]; other site 485917009186 Mg2+ binding site [ion binding]; other site 485917009187 G-X-G motif; other site 485917009188 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 485917009189 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 485917009190 inhibitor-cofactor binding pocket; inhibition site 485917009191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917009192 catalytic residue [active] 485917009193 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 485917009194 dimer interface [polypeptide binding]; other site 485917009195 active site 485917009196 Schiff base residues; other site 485917009197 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 485917009198 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 485917009199 domain interfaces; other site 485917009200 active site 485917009201 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 485917009202 active site 485917009203 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 485917009204 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 485917009205 tRNA; other site 485917009206 putative tRNA binding site [nucleotide binding]; other site 485917009207 putative NADP binding site [chemical binding]; other site 485917009208 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485917009209 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 485917009210 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917009211 putative substrate translocation pore; other site 485917009212 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917009213 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485917009214 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 485917009215 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 485917009216 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 485917009217 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 485917009218 RDD family; Region: RDD; pfam06271 485917009219 PspC domain; Region: PspC; pfam04024 485917009220 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 485917009221 classical (c) SDRs; Region: SDR_c; cd05233 485917009222 NAD(P) binding site [chemical binding]; other site 485917009223 active site 485917009224 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 485917009225 Permease; Region: Permease; pfam02405 485917009226 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 485917009227 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 485917009228 Walker A/P-loop; other site 485917009229 ATP binding site [chemical binding]; other site 485917009230 Q-loop/lid; other site 485917009231 ABC transporter signature motif; other site 485917009232 Walker B; other site 485917009233 D-loop; other site 485917009234 H-loop/switch region; other site 485917009235 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 485917009236 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_5; cd07238 485917009237 dimer interface [polypeptide binding]; other site 485917009238 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485917009239 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 485917009240 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 485917009241 Zn binding site [ion binding]; other site 485917009242 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 485917009243 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 485917009244 CAP-like domain; other site 485917009245 active site 485917009246 Family of unknown function (DUF490); Region: DUF490; pfam04357 485917009247 Surface antigen; Region: Bac_surface_Ag; pfam01103 485917009248 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 485917009249 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 485917009250 dimer interface [polypeptide binding]; other site 485917009251 phosphorylation site [posttranslational modification] 485917009252 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 485917009253 ATP binding site [chemical binding]; other site 485917009254 Mg2+ binding site [ion binding]; other site 485917009255 G-X-G motif; other site 485917009256 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485917009257 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 485917009258 active site 485917009259 phosphorylation site [posttranslational modification] 485917009260 intermolecular recognition site; other site 485917009261 dimerization interface [polypeptide binding]; other site 485917009262 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 485917009263 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 485917009264 ATP binding site [chemical binding]; other site 485917009265 Mg2+ binding site [ion binding]; other site 485917009266 G-X-G motif; other site 485917009267 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 485917009268 ATP binding site [chemical binding]; other site 485917009269 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 485917009270 active site 485917009271 putative metal-binding site [ion binding]; other site 485917009272 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 485917009273 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 485917009274 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 485917009275 ATP binding site [chemical binding]; other site 485917009276 Mg++ binding site [ion binding]; other site 485917009277 motif III; other site 485917009278 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 485917009279 nucleotide binding region [chemical binding]; other site 485917009280 ATP-binding site [chemical binding]; other site 485917009281 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 485917009282 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 485917009283 motif II; other site 485917009284 Class I aldolases; Region: Aldolase_Class_I; cl17187 485917009285 catalytic residue [active] 485917009286 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 485917009287 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485917009288 putative substrate translocation pore; other site 485917009289 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917009290 ligand binding site [chemical binding]; other site 485917009291 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 485917009292 BON domain; Region: BON; pfam04972 485917009293 Bacterial SH3 domain; Region: SH3_3; pfam08239 485917009294 Fatty acid desaturase; Region: FA_desaturase; pfam00487 485917009295 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 485917009296 putative di-iron ligands [ion binding]; other site 485917009297 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 485917009298 Cupin domain; Region: Cupin_2; cl17218 485917009299 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 485917009300 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917009301 Sulfatase; Region: Sulfatase; cl17466 485917009302 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917009303 Sulfatase; Region: Sulfatase; cl17466 485917009304 pectate lyase, PelA/Pel-15E family; Region: pec_lyase; TIGR02474 485917009305 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917009306 Domain of unknown function (DUF718); Region: DUF718; pfam05336 485917009307 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 485917009308 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917009309 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917009310 SusD family; Region: SusD; pfam07980 485917009311 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917009312 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009313 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917009314 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 485917009315 META domain; Region: META; pfam03724 485917009316 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 485917009317 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 485917009318 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 485917009319 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 485917009320 catalytic core [active] 485917009321 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 485917009322 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917009323 nucleotide binding site [chemical binding]; other site 485917009324 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 485917009325 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917009326 nucleotide binding site [chemical binding]; other site 485917009327 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 485917009328 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 485917009329 putative ligand binding site [chemical binding]; other site 485917009330 putative NAD binding site [chemical binding]; other site 485917009331 catalytic site [active] 485917009332 polyol permease family; Region: 2A0118; TIGR00897 485917009333 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 485917009334 putative substrate translocation pore; other site 485917009335 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917009336 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 485917009337 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917009338 Response regulator receiver domain; Region: Response_reg; pfam00072 485917009339 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 485917009340 active site 485917009341 phosphorylation site [posttranslational modification] 485917009342 intermolecular recognition site; other site 485917009343 dimerization interface [polypeptide binding]; other site 485917009344 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 485917009345 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 485917009346 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 485917009347 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 485917009348 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 485917009349 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 485917009350 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 485917009351 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 485917009352 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917009353 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485917009354 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917009355 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917009356 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917009357 acetyl-CoA synthetase; Provisional; Region: PRK00174 485917009358 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 485917009359 active site 485917009360 CoA binding site [chemical binding]; other site 485917009361 acyl-activating enzyme (AAE) consensus motif; other site 485917009362 AMP binding site [chemical binding]; other site 485917009363 acetate binding site [chemical binding]; other site 485917009364 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917009365 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 485917009366 ligand binding site [chemical binding]; other site 485917009367 flexible hinge region; other site 485917009368 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917009369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917009370 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485917009371 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 485917009372 ribosomal protein L33; Region: rpl33; CHL00104 485917009373 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 485917009374 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 485917009375 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 485917009376 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 485917009377 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 485917009378 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 485917009379 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 485917009380 FeS/SAM binding site; other site 485917009381 TRAM domain; Region: TRAM; cl01282 485917009382 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 485917009383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 485917009384 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 485917009385 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 485917009386 Catalytic site [active] 485917009387 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 485917009388 dihydrodipicolinate reductase; Provisional; Region: PRK00048 485917009389 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 485917009390 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 485917009391 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 485917009392 ParB-like nuclease domain; Region: ParBc; pfam02195 485917009393 KorB domain; Region: KorB; pfam08535 485917009394 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 485917009395 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 485917009396 P-loop; other site 485917009397 Magnesium ion binding site [ion binding]; other site 485917009398 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 485917009399 Magnesium ion binding site [ion binding]; other site 485917009400 Predicted flavoprotein [General function prediction only]; Region: COG0431 485917009401 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485917009402 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485917009403 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 485917009404 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009405 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 485917009406 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917009407 Sulfatase; Region: Sulfatase; pfam00884 485917009408 aminoacyl-tRNA ligase; Region: PLN02563 485917009409 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917009410 active site 485917009411 HIGH motif; other site 485917009412 nucleotide binding site [chemical binding]; other site 485917009413 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917009414 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 485917009415 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917009416 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917009417 active site 485917009418 KMSKS motif; other site 485917009419 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 485917009420 tRNA binding surface [nucleotide binding]; other site 485917009421 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 485917009422 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 485917009423 Cl- selectivity filter; other site 485917009424 Cl- binding residues [ion binding]; other site 485917009425 pore gating glutamate residue; other site 485917009426 dimer interface [polypeptide binding]; other site 485917009427 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 485917009428 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 485917009429 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 485917009430 PAS fold; Region: PAS_3; pfam08447 485917009431 putative active site [active] 485917009432 heme pocket [chemical binding]; other site 485917009433 PAS fold; Region: PAS_3; pfam08447 485917009434 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917009435 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 485917009436 dimer interface [polypeptide binding]; other site 485917009437 phosphorylation site [posttranslational modification] 485917009438 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 485917009439 ATP binding site [chemical binding]; other site 485917009440 Mg2+ binding site [ion binding]; other site 485917009441 G-X-G motif; other site 485917009442 Response regulator receiver domain; Region: Response_reg; pfam00072 485917009443 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 485917009444 active site 485917009445 phosphorylation site [posttranslational modification] 485917009446 intermolecular recognition site; other site 485917009447 dimerization interface [polypeptide binding]; other site 485917009448 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 485917009449 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 485917009450 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 485917009451 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 485917009452 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 485917009453 RNA binding site [nucleotide binding]; other site 485917009454 active site 485917009455 Uncharacterized conserved protein [Function unknown]; Region: COG1284 485917009456 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 485917009457 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 485917009458 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 485917009459 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 485917009460 active site 485917009461 Riboflavin kinase; Region: Flavokinase; pfam01687 485917009462 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 485917009463 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 485917009464 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 485917009465 TrkA-C domain; Region: TrkA_C; pfam02080 485917009466 TrkA-C domain; Region: TrkA_C; pfam02080 485917009467 LysE type translocator; Region: LysE; cl00565 485917009468 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 485917009469 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 485917009470 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 485917009471 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 485917009472 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 485917009473 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917009474 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 485917009475 DNA binding residues [nucleotide binding] 485917009476 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 485917009477 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 485917009478 minor groove reading motif; other site 485917009479 helix-hairpin-helix signature motif; other site 485917009480 substrate binding pocket [chemical binding]; other site 485917009481 active site 485917009482 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 485917009483 recombinase A; Provisional; Region: recA; PRK09354 485917009484 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 485917009485 hexamer interface [polypeptide binding]; other site 485917009486 Walker A motif; other site 485917009487 ATP binding site [chemical binding]; other site 485917009488 Walker B motif; other site 485917009489 UGMP family protein; Validated; Region: PRK09604 485917009490 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 485917009491 Family of unknown function (DUF490); Region: DUF490; pfam04357 485917009492 Family of unknown function (DUF490); Region: DUF490; pfam04357 485917009493 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 485917009494 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 485917009495 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 485917009496 dimerization interface [polypeptide binding]; other site 485917009497 active site 485917009498 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 485917009499 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 485917009500 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 485917009501 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 485917009502 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 485917009503 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 485917009504 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 485917009505 active site 485917009506 catalytic tetrad [active] 485917009507 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 485917009508 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 485917009509 inhibitor-cofactor binding pocket; inhibition site 485917009510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917009511 catalytic residue [active] 485917009512 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 485917009513 D-galactonate transporter; Region: 2A0114; TIGR00893 485917009514 putative substrate translocation pore; other site 485917009515 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 485917009516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917009517 NAD(P) binding site [chemical binding]; other site 485917009518 active site 485917009519 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 485917009520 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 485917009521 active site 485917009522 catalytic tetrad [active] 485917009523 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 485917009524 Kelch motif; Region: Kelch_5; pfam13854 485917009525 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 485917009526 Strictosidine synthase; Region: Str_synth; pfam03088 485917009527 Uncharacterized conserved protein [Function unknown]; Region: COG5476 485917009528 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 485917009529 MlrC C-terminus; Region: MlrC_C; pfam07171 485917009530 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 485917009531 homotrimer interaction site [polypeptide binding]; other site 485917009532 putative active site [active] 485917009533 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 485917009534 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 485917009535 inhibitor site; inhibition site 485917009536 active site 485917009537 dimer interface [polypeptide binding]; other site 485917009538 catalytic residue [active] 485917009539 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 485917009540 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 485917009541 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917009542 catalytic residue [active] 485917009543 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 485917009544 classical (c) SDRs; Region: SDR_c; cd05233 485917009545 NAD(P) binding site [chemical binding]; other site 485917009546 active site 485917009547 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 485917009548 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 485917009549 active site 485917009550 Zn binding site [ion binding]; other site 485917009551 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 485917009552 BNR repeat-like domain; Region: BNR_2; pfam13088 485917009553 catalytic site [active] 485917009554 Asp-box motif; other site 485917009555 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917009556 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917009557 SusD family; Region: SusD; pfam07980 485917009558 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917009559 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009560 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917009561 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917009562 transcriptional regulator NanR; Provisional; Region: PRK03837 485917009563 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917009564 DNA-binding site [nucleotide binding]; DNA binding site 485917009565 FCD domain; Region: FCD; pfam07729 485917009566 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 485917009567 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 485917009568 inhibitor site; inhibition site 485917009569 active site 485917009570 dimer interface [polypeptide binding]; other site 485917009571 catalytic residue [active] 485917009572 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 485917009573 active site 485917009574 catalytic triad [active] 485917009575 oxyanion hole [active] 485917009576 BNR repeat-like domain; Region: BNR_2; pfam13088 485917009577 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 485917009578 Asp-box motif; other site 485917009579 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 485917009580 BNR repeat-like domain; Region: BNR_2; pfam13088 485917009581 Asp-box motif; other site 485917009582 phosphoenolpyruvate synthase; Validated; Region: PRK06464 485917009583 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485917009584 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 485917009585 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 485917009586 Cupin domain; Region: Cupin_2; pfam07883 485917009587 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917009588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917009589 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 485917009590 putative transporter; Provisional; Region: PRK10484 485917009591 Na binding site [ion binding]; other site 485917009592 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 485917009593 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485917009594 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 485917009595 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 485917009596 active site 485917009597 catalytic triad [active] 485917009598 oxyanion hole [active] 485917009599 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 485917009600 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 485917009601 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917009602 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917009603 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917009604 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009605 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917009606 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917009607 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917009608 DNA-binding site [nucleotide binding]; DNA binding site 485917009609 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 485917009610 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 485917009611 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 485917009612 active site 485917009613 catalytic triad [active] 485917009614 Fic family protein [Function unknown]; Region: COG3177 485917009615 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 485917009616 Fic/DOC family; Region: Fic; pfam02661 485917009617 CoA binding domain; Region: CoA_binding_2; pfam13380 485917009618 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 485917009619 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 485917009620 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 485917009621 Repair protein; Region: Repair_PSII; pfam04536 485917009622 Repair protein; Region: Repair_PSII; pfam04536 485917009623 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 485917009624 dimer interface [polypeptide binding]; other site 485917009625 ADP-ribose binding site [chemical binding]; other site 485917009626 active site 485917009627 nudix motif; other site 485917009628 metal binding site [ion binding]; metal-binding site 485917009629 DnaA N-terminal domain; Region: DnaA_N; pfam11638 485917009630 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 485917009631 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 485917009632 Walker A motif; other site 485917009633 ATP binding site [chemical binding]; other site 485917009634 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 485917009635 Walker B motif; other site 485917009636 arginine finger; other site 485917009637 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 485917009638 DnaA box-binding interface [nucleotide binding]; other site 485917009639 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 485917009640 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 485917009641 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485917009642 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485917009643 FtsX-like permease family; Region: FtsX; pfam02687 485917009644 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 485917009645 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 485917009646 NAD binding site [chemical binding]; other site 485917009647 substrate binding site [chemical binding]; other site 485917009648 homodimer interface [polypeptide binding]; other site 485917009649 active site 485917009650 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 485917009651 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 485917009652 NAD binding site [chemical binding]; other site 485917009653 homodimer interface [polypeptide binding]; other site 485917009654 active site 485917009655 substrate binding site [chemical binding]; other site 485917009656 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485917009657 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 485917009658 NAD binding site [chemical binding]; other site 485917009659 putative substrate binding site 2 [chemical binding]; other site 485917009660 putative substrate binding site 1 [chemical binding]; other site 485917009661 active site 485917009662 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 485917009663 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 485917009664 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485917009665 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 485917009666 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 485917009667 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 485917009668 ferrochelatase; Reviewed; Region: hemH; PRK00035 485917009669 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 485917009670 C-terminal domain interface [polypeptide binding]; other site 485917009671 active site 485917009672 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 485917009673 active site 485917009674 N-terminal domain interface [polypeptide binding]; other site 485917009675 LytB protein; Region: LYTB; cl00507 485917009676 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 485917009677 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 485917009678 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 485917009679 putative acyl-acceptor binding pocket; other site 485917009680 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485917009681 active site 485917009682 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 485917009683 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 485917009684 S-adenosylmethionine binding site [chemical binding]; other site 485917009685 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917009686 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485917009687 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 485917009688 iron-sulfur cluster [ion binding]; other site 485917009689 [2Fe-2S] cluster binding site [ion binding]; other site 485917009690 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 485917009691 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 485917009692 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 485917009693 dimer interface [polypeptide binding]; other site 485917009694 motif 1; other site 485917009695 active site 485917009696 motif 2; other site 485917009697 motif 3; other site 485917009698 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 485917009699 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 485917009700 substrate-cofactor binding pocket; other site 485917009701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917009702 catalytic residue [active] 485917009703 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009704 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 485917009705 active site 485917009706 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 485917009707 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 485917009708 active site residue [active] 485917009709 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917009710 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 485917009711 DNA binding residues [nucleotide binding] 485917009712 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917009713 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009714 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917009715 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917009716 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917009717 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917009718 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 485917009719 intermolecular salt bridges; other site 485917009720 Bacterial Ig-like domain; Region: Big_5; pfam13205 485917009721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 485917009722 Putative glucoamylase; Region: Glycoamylase; pfam10091 485917009723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 485917009724 Putative glucoamylase; Region: Glycoamylase; pfam10091 485917009725 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 485917009726 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 485917009727 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 485917009728 Predicted peptidase [General function prediction only]; Region: COG4099 485917009729 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917009730 hypothetical protein; Provisional; Region: PRK12378 485917009731 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485917009732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917009733 NAD(P) binding site [chemical binding]; other site 485917009734 active site 485917009735 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 485917009736 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 485917009737 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 485917009738 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 485917009739 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917009740 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917009741 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 485917009742 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 485917009743 Cytochrome c; Region: Cytochrom_C; cl11414 485917009744 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917009745 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917009746 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 485917009747 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 485917009748 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 485917009749 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917009750 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 485917009751 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 485917009752 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 485917009753 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 485917009754 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 485917009755 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 485917009756 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 485917009757 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 485917009758 active site 485917009759 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 485917009760 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 485917009761 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 485917009762 active site 485917009763 shikimate kinase; Reviewed; Region: aroK; PRK00131 485917009764 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 485917009765 ADP binding site [chemical binding]; other site 485917009766 magnesium binding site [ion binding]; other site 485917009767 putative shikimate binding site; other site 485917009768 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485917009769 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 485917009770 dimer interface [polypeptide binding]; other site 485917009771 conserved gate region; other site 485917009772 putative PBP binding loops; other site 485917009773 ABC-ATPase subunit interface; other site 485917009774 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 485917009775 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 485917009776 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 485917009777 dihydropteroate synthase; Region: DHPS; TIGR01496 485917009778 substrate binding pocket [chemical binding]; other site 485917009779 dimer interface [polypeptide binding]; other site 485917009780 inhibitor binding site; inhibition site 485917009781 TIGR00159 family protein; Region: TIGR00159 485917009782 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 485917009783 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 485917009784 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 485917009785 Walker A motif; other site 485917009786 ATP binding site [chemical binding]; other site 485917009787 Walker B motif; other site 485917009788 arginine finger; other site 485917009789 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 485917009790 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 485917009791 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917009792 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 485917009793 dimerization interface [polypeptide binding]; other site 485917009794 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 485917009795 dimer interface [polypeptide binding]; other site 485917009796 phosphorylation site [posttranslational modification] 485917009797 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 485917009798 ATP binding site [chemical binding]; other site 485917009799 Mg2+ binding site [ion binding]; other site 485917009800 G-X-G motif; other site 485917009801 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485917009802 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 485917009803 active site 485917009804 phosphorylation site [posttranslational modification] 485917009805 intermolecular recognition site; other site 485917009806 dimerization interface [polypeptide binding]; other site 485917009807 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 485917009808 DNA binding site [nucleotide binding] 485917009809 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 485917009810 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 485917009811 homotetramer interface [polypeptide binding]; other site 485917009812 ligand binding site [chemical binding]; other site 485917009813 catalytic site [active] 485917009814 NAD binding site [chemical binding]; other site 485917009815 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 485917009816 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 485917009817 Mechanosensitive ion channel; Region: MS_channel; pfam00924 485917009818 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 485917009819 active site 485917009820 hydrophilic channel; other site 485917009821 dimerization interface [polypeptide binding]; other site 485917009822 catalytic residues [active] 485917009823 active site lid [active] 485917009824 glycine dehydrogenase; Provisional; Region: PRK05367 485917009825 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 485917009826 tetramer interface [polypeptide binding]; other site 485917009827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917009828 catalytic residue [active] 485917009829 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 485917009830 tetramer interface [polypeptide binding]; other site 485917009831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917009832 catalytic residue [active] 485917009833 YceI-like domain; Region: YceI; pfam04264 485917009834 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 485917009835 active site 485917009836 phosphorylation site [posttranslational modification] 485917009837 intermolecular recognition site; other site 485917009838 dimerization interface [polypeptide binding]; other site 485917009839 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 485917009840 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 485917009841 DHH family; Region: DHH; pfam01368 485917009842 DHHA1 domain; Region: DHHA1; pfam02272 485917009843 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 485917009844 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 485917009845 Walker A/P-loop; other site 485917009846 ATP binding site [chemical binding]; other site 485917009847 Q-loop/lid; other site 485917009848 ABC transporter signature motif; other site 485917009849 Walker B; other site 485917009850 D-loop; other site 485917009851 H-loop/switch region; other site 485917009852 GH3 auxin-responsive promoter; Region: GH3; pfam03321 485917009853 FOG: CBS domain [General function prediction only]; Region: COG0517 485917009854 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 485917009855 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 485917009856 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 485917009857 active site 485917009858 Zn binding site [ion binding]; other site 485917009859 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 485917009860 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917009861 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917009862 active site 485917009863 metal binding site [ion binding]; metal-binding site 485917009864 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917009865 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917009866 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 485917009867 DNA binding residues [nucleotide binding] 485917009868 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917009869 FecR protein; Region: FecR; pfam04773 485917009870 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009871 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917009872 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 485917009873 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 485917009874 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 485917009875 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 485917009876 Pirin-related protein [General function prediction only]; Region: COG1741 485917009877 Pirin; Region: Pirin; pfam02678 485917009878 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 485917009879 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 485917009880 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 485917009881 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 485917009882 substrate binding site [chemical binding]; other site 485917009883 ATP binding site [chemical binding]; other site 485917009884 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 485917009885 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 485917009886 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917009887 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 485917009888 DNA binding residues [nucleotide binding] 485917009889 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 485917009890 FAD binding domain; Region: FAD_binding_4; pfam01565 485917009891 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 485917009892 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917009893 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485917009894 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917009895 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485917009896 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 485917009897 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917009898 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917009899 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917009900 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485917009901 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 485917009902 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 485917009903 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485917009904 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 485917009905 Predicted acyl esterases [General function prediction only]; Region: COG2936 485917009906 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917009907 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 485917009908 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 485917009909 Zn binding site [ion binding]; other site 485917009910 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 485917009911 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 485917009912 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 485917009913 E3 interaction surface; other site 485917009914 lipoyl attachment site [posttranslational modification]; other site 485917009915 e3 binding domain; Region: E3_binding; pfam02817 485917009916 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 485917009917 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 485917009918 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 485917009919 TPP-binding site [chemical binding]; other site 485917009920 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 485917009921 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485917009922 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 485917009923 DNA binding residues [nucleotide binding] 485917009924 B12 binding domain; Region: B12-binding_2; pfam02607 485917009925 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 485917009926 DNA photolyase; Region: DNA_photolyase; pfam00875 485917009927 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 485917009928 TIGR01777 family protein; Region: yfcH 485917009929 putative NAD(P) binding site [chemical binding]; other site 485917009930 putative active site [active] 485917009931 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 485917009932 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 485917009933 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 485917009934 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 485917009935 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 485917009936 active site 485917009937 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 485917009938 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 485917009939 dimer interface [polypeptide binding]; other site 485917009940 active site 485917009941 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 485917009942 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 485917009943 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 485917009944 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 485917009945 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 485917009946 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 485917009947 substrate binding site [chemical binding]; other site 485917009948 oxyanion hole (OAH) forming residues; other site 485917009949 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485917009950 MarR family; Region: MarR_2; pfam12802 485917009951 AAA domain; Region: AAA_14; pfam13173 485917009952 AAA domain; Region: AAA_22; pfam13401 485917009953 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 485917009954 Pleckstrin homology-like domain; Region: PH-like; cl17171 485917009955 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485917009956 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 485917009957 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917009958 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917009959 ligand binding site [chemical binding]; other site 485917009960 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 485917009961 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 485917009962 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 485917009963 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 485917009964 putative AMP binding site [chemical binding]; other site 485917009965 putative active site [active] 485917009966 acyl-activating enzyme (AAE) consensus motif; other site 485917009967 putative CoA binding site [chemical binding]; other site 485917009968 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 485917009969 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 485917009970 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 485917009971 protein binding site [polypeptide binding]; other site 485917009972 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485917009973 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917009974 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917009975 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485917009976 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 485917009977 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 485917009978 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 485917009979 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 485917009980 GAF domain; Region: GAF; cl17456 485917009981 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 485917009982 Right handed beta helix region; Region: Beta_helix; pfam13229 485917009983 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917009984 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 485917009985 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917009986 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917009987 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917009988 ligand binding site [chemical binding]; other site 485917009989 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 485917009990 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 485917009991 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 485917009992 Putative Ig domain; Region: He_PIG; pfam05345 485917009993 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 485917009994 Fibronectin type 3 domain; Region: FN3; smart00060 485917009995 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917009996 Uncharacterized conserved protein [Function unknown]; Region: COG4938 485917009997 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 485917009998 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 485917009999 active site 485917010000 catalytic triad [active] 485917010001 Predicted transcriptional regulator [Transcription]; Region: COG1959 485917010002 Transcriptional regulator; Region: Rrf2; pfam02082 485917010003 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485917010004 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 485917010005 active site 485917010006 phosphorylation site [posttranslational modification] 485917010007 intermolecular recognition site; other site 485917010008 dimerization interface [polypeptide binding]; other site 485917010009 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 485917010010 Walker A motif; other site 485917010011 ATP binding site [chemical binding]; other site 485917010012 Walker B motif; other site 485917010013 arginine finger; other site 485917010014 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 485917010015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917010016 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 485917010017 dimer interface [polypeptide binding]; other site 485917010018 phosphorylation site [posttranslational modification] 485917010019 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 485917010020 ATP binding site [chemical binding]; other site 485917010021 Mg2+ binding site [ion binding]; other site 485917010022 G-X-G motif; other site 485917010023 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 485917010024 Response regulator receiver domain; Region: Response_reg; pfam00072 485917010025 active site 485917010026 phosphorylation site [posttranslational modification] 485917010027 intermolecular recognition site; other site 485917010028 dimerization interface [polypeptide binding]; other site 485917010029 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 485917010030 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 485917010031 active site 485917010032 nucleophile elbow; other site 485917010033 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 485917010034 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 485917010035 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485917010036 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 485917010037 dimerization interface [polypeptide binding]; other site 485917010038 H+ Antiporter protein; Region: 2A0121; TIGR00900 485917010039 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 485917010040 putative substrate translocation pore; other site 485917010041 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917010042 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 485917010043 ligand binding site [chemical binding]; other site 485917010044 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 485917010045 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 485917010046 conserved cys residue [active] 485917010047 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485917010048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917010049 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 485917010050 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 485917010051 AP (apurinic/apyrimidinic) site pocket; other site 485917010052 DNA interaction; other site 485917010053 Metal-binding active site; metal-binding site 485917010054 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917010055 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917010056 DNA binding site [nucleotide binding] 485917010057 domain linker motif; other site 485917010058 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 485917010059 dimerization interface [polypeptide binding]; other site 485917010060 ligand binding site [chemical binding]; other site 485917010061 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 485917010062 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 485917010063 putative active site [active] 485917010064 catalytic site [active] 485917010065 putative metal binding site [ion binding]; other site 485917010066 oligomer interface [polypeptide binding]; other site 485917010067 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 485917010068 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 485917010069 putative substrate binding site [chemical binding]; other site 485917010070 putative ATP binding site [chemical binding]; other site 485917010071 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 485917010072 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 485917010073 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 485917010074 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 485917010075 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 485917010076 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 485917010077 TM-ABC transporter signature motif; other site 485917010078 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 485917010079 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 485917010080 Walker A/P-loop; other site 485917010081 ATP binding site [chemical binding]; other site 485917010082 Q-loop/lid; other site 485917010083 ABC transporter signature motif; other site 485917010084 Walker B; other site 485917010085 D-loop; other site 485917010086 H-loop/switch region; other site 485917010087 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 485917010088 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 485917010089 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 485917010090 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 485917010091 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 485917010092 active site 485917010093 catalytic site [active] 485917010094 metal binding site [ion binding]; metal-binding site 485917010095 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 485917010096 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 485917010097 NAD(P) binding site [chemical binding]; other site 485917010098 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917010099 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 485917010100 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485917010101 active site 485917010102 metal binding site [ion binding]; metal-binding site 485917010103 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 485917010104 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917010105 SusD family; Region: SusD; pfam07980 485917010106 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010107 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010108 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917010109 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 485917010110 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 485917010111 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485917010112 putative catalytic site [active] 485917010113 putative metal binding site [ion binding]; other site 485917010114 putative phosphate binding site [ion binding]; other site 485917010115 Family description; Region: VCBS; pfam13517 485917010116 Family description; Region: VCBS; pfam13517 485917010117 Family description; Region: VCBS; pfam13517 485917010118 GTPase Era; Reviewed; Region: era; PRK00089 485917010119 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 485917010120 G1 box; other site 485917010121 GTP/Mg2+ binding site [chemical binding]; other site 485917010122 Switch I region; other site 485917010123 G2 box; other site 485917010124 Switch II region; other site 485917010125 G3 box; other site 485917010126 G4 box; other site 485917010127 G5 box; other site 485917010128 KH domain; Region: KH_2; pfam07650 485917010129 GTP-binding protein Der; Reviewed; Region: PRK00093 485917010130 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 485917010131 G1 box; other site 485917010132 GTP/Mg2+ binding site [chemical binding]; other site 485917010133 Switch I region; other site 485917010134 G2 box; other site 485917010135 Switch II region; other site 485917010136 G3 box; other site 485917010137 G4 box; other site 485917010138 G5 box; other site 485917010139 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 485917010140 G1 box; other site 485917010141 GTP/Mg2+ binding site [chemical binding]; other site 485917010142 Switch I region; other site 485917010143 G2 box; other site 485917010144 G3 box; other site 485917010145 Switch II region; other site 485917010146 G4 box; other site 485917010147 G5 box; other site 485917010148 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 485917010149 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 485917010150 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 485917010151 protein binding site [polypeptide binding]; other site 485917010152 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 485917010153 Catalytic dyad [active] 485917010154 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 485917010155 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 485917010156 putative active site [active] 485917010157 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 485917010158 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 485917010159 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 485917010160 methionine sulfoxide reductase A; Provisional; Region: PRK14054 485917010161 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 485917010162 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 485917010163 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 485917010164 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485917010165 putative catalytic site [active] 485917010166 putative metal binding site [ion binding]; other site 485917010167 putative phosphate binding site [ion binding]; other site 485917010168 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 485917010169 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917010170 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917010171 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010172 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010173 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917010174 FecR protein; Region: FecR; pfam04773 485917010175 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917010176 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917010177 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 485917010178 DNA binding residues [nucleotide binding] 485917010179 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 485917010180 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 485917010181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917010182 homodimer interface [polypeptide binding]; other site 485917010183 catalytic residue [active] 485917010184 prephenate dehydrogenase; Validated; Region: PRK08507 485917010185 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 485917010186 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 485917010187 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917010188 DNA-binding site [nucleotide binding]; DNA binding site 485917010189 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 485917010190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917010191 homodimer interface [polypeptide binding]; other site 485917010192 catalytic residue [active] 485917010193 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010194 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 485917010195 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917010196 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 485917010197 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 485917010198 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 485917010199 substrate binding pocket [chemical binding]; other site 485917010200 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 485917010201 B12 binding site [chemical binding]; other site 485917010202 cobalt ligand [ion binding]; other site 485917010203 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 485917010204 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 485917010205 FAD binding site [chemical binding]; other site 485917010206 META domain; Region: META; pfam03724 485917010207 threonine synthase; Validated; Region: PRK09225 485917010208 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 485917010209 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917010210 catalytic residue [active] 485917010211 homoserine kinase; Provisional; Region: PRK01212 485917010212 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 485917010213 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 485917010214 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 485917010215 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 485917010216 putative catalytic residues [active] 485917010217 nucleotide binding site [chemical binding]; other site 485917010218 aspartate binding site [chemical binding]; other site 485917010219 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 485917010220 dimer interface [polypeptide binding]; other site 485917010221 putative threonine allosteric regulatory site; other site 485917010222 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 485917010223 putative threonine allosteric regulatory site; other site 485917010224 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 485917010225 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 485917010226 GTPase RsgA; Reviewed; Region: PRK00098 485917010227 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 485917010228 RNA binding site [nucleotide binding]; other site 485917010229 homodimer interface [polypeptide binding]; other site 485917010230 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 485917010231 GTPase/Zn-binding domain interface [polypeptide binding]; other site 485917010232 GTP/Mg2+ binding site [chemical binding]; other site 485917010233 G4 box; other site 485917010234 G5 box; other site 485917010235 G1 box; other site 485917010236 Switch I region; other site 485917010237 G2 box; other site 485917010238 G3 box; other site 485917010239 Switch II region; other site 485917010240 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 485917010241 putative active site [active] 485917010242 dimerization interface [polypeptide binding]; other site 485917010243 putative tRNAtyr binding site [nucleotide binding]; other site 485917010244 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 485917010245 homodimer interface [polypeptide binding]; other site 485917010246 metal binding site [ion binding]; metal-binding site 485917010247 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 485917010248 nucleotide binding site/active site [active] 485917010249 HIT family signature motif; other site 485917010250 catalytic residue [active] 485917010251 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 485917010252 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 485917010253 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 485917010254 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 485917010255 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 485917010256 putative ligand binding site [chemical binding]; other site 485917010257 putative NAD binding site [chemical binding]; other site 485917010258 catalytic site [active] 485917010259 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 485917010260 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 485917010261 S-adenosylmethionine binding site [chemical binding]; other site 485917010262 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 485917010263 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 485917010264 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 485917010265 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 485917010266 putative phosphate acyltransferase; Provisional; Region: PRK05331 485917010267 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 485917010268 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 485917010269 dimer interface [polypeptide binding]; other site 485917010270 active site 485917010271 CoA binding pocket [chemical binding]; other site 485917010272 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 485917010273 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 485917010274 carboxyltransferase (CT) interaction site; other site 485917010275 biotinylation site [posttranslational modification]; other site 485917010276 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 485917010277 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485917010278 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 485917010279 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 485917010280 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 485917010281 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 485917010282 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 485917010283 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 485917010284 PA/protease or protease-like domain interface [polypeptide binding]; other site 485917010285 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 485917010286 Peptidase family M28; Region: Peptidase_M28; pfam04389 485917010287 metal binding site [ion binding]; metal-binding site 485917010288 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 485917010289 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 485917010290 4Fe-4S binding domain; Region: Fer4; pfam00037 485917010291 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 485917010292 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 485917010293 TPP-binding site [chemical binding]; other site 485917010294 tetramer interface [polypeptide binding]; other site 485917010295 heterodimer interface [polypeptide binding]; other site 485917010296 phosphorylation loop region [posttranslational modification] 485917010297 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 485917010298 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 485917010299 alpha subunit interface [polypeptide binding]; other site 485917010300 TPP binding site [chemical binding]; other site 485917010301 heterodimer interface [polypeptide binding]; other site 485917010302 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485917010303 SprT homologues; Region: SprT; cl01182 485917010304 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 485917010305 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 485917010306 G1 box; other site 485917010307 GTP/Mg2+ binding site [chemical binding]; other site 485917010308 Switch I region; other site 485917010309 G2 box; other site 485917010310 G3 box; other site 485917010311 Switch II region; other site 485917010312 G4 box; other site 485917010313 G5 box; other site 485917010314 Nucleoside recognition; Region: Gate; pfam07670 485917010315 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 485917010316 Nucleoside recognition; Region: Gate; pfam07670 485917010317 FeoA domain; Region: FeoA; pfam04023 485917010318 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 485917010319 lipoyl attachment site [posttranslational modification]; other site 485917010320 cell surface protein SprA; Region: surface_SprA; TIGR04189 485917010321 Motility related/secretion protein; Region: SprA_N; pfam14349 485917010322 Motility related/secretion protein; Region: SprA_N; pfam14349 485917010323 Motility related/secretion protein; Region: SprA_N; pfam14349 485917010324 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 485917010325 RuvA N terminal domain; Region: RuvA_N; pfam01330 485917010326 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 485917010327 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 485917010328 Malic enzyme, N-terminal domain; Region: malic; pfam00390 485917010329 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 485917010330 putative NAD(P) binding site [chemical binding]; other site 485917010331 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 485917010332 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 485917010333 N-acetyl-D-glucosamine binding site [chemical binding]; other site 485917010334 catalytic residue [active] 485917010335 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485917010336 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 485917010337 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 485917010338 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 485917010339 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 485917010340 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 485917010341 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 485917010342 Peptidase family M23; Region: Peptidase_M23; pfam01551 485917010343 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 485917010344 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 485917010345 binding surface 485917010346 TPR motif; other site 485917010347 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 485917010348 TPR motif; other site 485917010349 binding surface 485917010350 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 485917010351 trimer interface [polypeptide binding]; other site 485917010352 active site 485917010353 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 485917010354 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 485917010355 Acylphosphatase; Region: Acylphosphatase; pfam00708 485917010356 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 485917010357 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 485917010358 FMN binding site [chemical binding]; other site 485917010359 substrate binding site [chemical binding]; other site 485917010360 putative catalytic residue [active] 485917010361 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 485917010362 Amidohydrolase; Region: Amidohydro_4; pfam13147 485917010363 active site 485917010364 Predicted transcriptional regulator [Transcription]; Region: COG2378 485917010365 HTH domain; Region: HTH_11; pfam08279 485917010366 WYL domain; Region: WYL; pfam13280 485917010367 Predicted transcriptional regulators [Transcription]; Region: COG1733 485917010368 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 485917010369 putative DNA binding site [nucleotide binding]; other site 485917010370 putative Zn2+ binding site [ion binding]; other site 485917010371 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 485917010372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917010373 NAD(P) binding site [chemical binding]; other site 485917010374 active site 485917010375 Domain of unknown function (DUF303); Region: DUF303; pfam03629 485917010376 Cupin domain; Region: Cupin_2; cl17218 485917010377 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917010378 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917010379 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 485917010380 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 485917010381 putative substrate translocation pore; other site 485917010382 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485917010383 Sulfatase; Region: Sulfatase; pfam00884 485917010384 DinB family; Region: DinB; cl17821 485917010385 DinB superfamily; Region: DinB_2; pfam12867 485917010386 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 485917010387 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 485917010388 RNA binding surface [nucleotide binding]; other site 485917010389 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 485917010390 probable active site [active] 485917010391 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 485917010392 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 485917010393 FeS/SAM binding site; other site 485917010394 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 485917010395 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485917010396 active site 485917010397 GAF domain; Region: GAF; pfam01590 485917010398 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485917010399 PAS domain S-box; Region: sensory_box; TIGR00229 485917010400 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 485917010401 putative active site [active] 485917010402 heme pocket [chemical binding]; other site 485917010403 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485917010404 putative active site [active] 485917010405 heme pocket [chemical binding]; other site 485917010406 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 485917010407 dimer interface [polypeptide binding]; other site 485917010408 phosphorylation site [posttranslational modification] 485917010409 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 485917010410 ATP binding site [chemical binding]; other site 485917010411 Mg2+ binding site [ion binding]; other site 485917010412 G-X-G motif; other site 485917010413 Response regulator receiver domain; Region: Response_reg; pfam00072 485917010414 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 485917010415 active site 485917010416 phosphorylation site [posttranslational modification] 485917010417 intermolecular recognition site; other site 485917010418 dimerization interface [polypeptide binding]; other site 485917010419 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 485917010420 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 485917010421 dimer interface [polypeptide binding]; other site 485917010422 active site 485917010423 glycine-pyridoxal phosphate binding site [chemical binding]; other site 485917010424 folate binding site [chemical binding]; other site 485917010425 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 485917010426 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 485917010427 TPP-binding site; other site 485917010428 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 485917010429 PYR/PP interface [polypeptide binding]; other site 485917010430 dimer interface [polypeptide binding]; other site 485917010431 TPP binding site [chemical binding]; other site 485917010432 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485917010433 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917010434 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 485917010435 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917010436 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 485917010437 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 485917010438 substrate binding site [chemical binding]; other site 485917010439 catalytic residues [active] 485917010440 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917010441 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917010442 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917010443 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917010444 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917010445 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 485917010446 TPR motif; other site 485917010447 binding surface 485917010448 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 485917010449 binding surface 485917010450 TPR motif; other site 485917010451 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 485917010452 binding surface 485917010453 TPR motif; other site 485917010454 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 485917010455 binding surface 485917010456 TPR repeat; Region: TPR_11; pfam13414 485917010457 TPR motif; other site 485917010458 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 485917010459 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 485917010460 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 485917010461 putative substrate translocation pore; other site 485917010462 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 485917010463 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 485917010464 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 485917010465 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917010466 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917010467 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 485917010468 active site 485917010469 catalytic triad [active] 485917010470 oxyanion hole [active] 485917010471 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917010472 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 485917010473 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 485917010474 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 485917010475 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917010476 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917010477 SusD family; Region: SusD; pfam07980 485917010478 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010479 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917010480 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917010481 SusD family; Region: SusD; pfam07980 485917010482 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010483 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010484 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917010485 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917010486 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 485917010487 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485917010488 DNA-binding site [nucleotide binding]; DNA binding site 485917010489 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 485917010490 putative dimerization interface [polypeptide binding]; other site 485917010491 putative ligand binding site [chemical binding]; other site 485917010492 Transcriptional regulators [Transcription]; Region: PurR; COG1609 485917010493 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485917010494 nucleotide binding site [chemical binding]; other site 485917010495 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 485917010496 short chain dehydrogenase; Validated; Region: PRK08324 485917010497 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 485917010498 active site 485917010499 Zn2+ binding site [ion binding]; other site 485917010500 intersubunit interface [polypeptide binding]; other site 485917010501 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 485917010502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917010503 NAD(P) binding site [chemical binding]; other site 485917010504 active site 485917010505 rhamnose-proton symporter; Provisional; Region: PRK13499 485917010506 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917010507 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 485917010508 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917010509 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 485917010510 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 485917010511 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 485917010512 metal-binding site 485917010513 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 485917010514 SLBB domain; Region: SLBB; pfam10531 485917010515 Chain length determinant protein; Region: Wzz; cl15801 485917010516 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 485917010517 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 485917010518 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 485917010519 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 485917010520 transcriptional activator RfaH; Region: RfaH; TIGR01955 485917010521 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 485917010522 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010523 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 485917010524 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 485917010525 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 485917010526 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 485917010527 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 485917010528 Walker A/P-loop; other site 485917010529 ATP binding site [chemical binding]; other site 485917010530 Q-loop/lid; other site 485917010531 ABC transporter signature motif; other site 485917010532 Walker B; other site 485917010533 D-loop; other site 485917010534 H-loop/switch region; other site 485917010535 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 485917010536 putative carbohydrate binding site [chemical binding]; other site 485917010537 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 485917010538 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485917010539 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 485917010540 S-adenosylmethionine binding site [chemical binding]; other site 485917010541 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 485917010542 putative active site [active] 485917010543 putative metal binding site [ion binding]; other site 485917010544 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485917010545 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 485917010546 active site 485917010547 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 485917010548 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 485917010549 Probable Catalytic site; other site 485917010550 metal-binding site 485917010551 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 485917010552 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 485917010553 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010554 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010555 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 485917010556 putative ADP-binding pocket [chemical binding]; other site 485917010557 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 485917010558 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010559 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 485917010560 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010562 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 485917010563 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010564 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 485917010565 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485917010566 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 485917010567 putative metal binding site; other site 485917010568 putative acyl transferase; Provisional; Region: PRK10502 485917010569 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 485917010570 putative trimer interface [polypeptide binding]; other site 485917010571 putative active site [active] 485917010572 putative substrate binding site [chemical binding]; other site 485917010573 putative CoA binding site [chemical binding]; other site 485917010574 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 485917010575 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 485917010576 Mg++ binding site [ion binding]; other site 485917010577 putative catalytic motif [active] 485917010578 substrate binding site [chemical binding]; other site 485917010579 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 485917010580 PAS fold; Region: PAS_3; pfam08447 485917010581 putative active site [active] 485917010582 heme pocket [chemical binding]; other site 485917010583 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917010584 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 485917010585 phosphorylation site [posttranslational modification] 485917010586 dimer interface [polypeptide binding]; other site 485917010587 CheB methylesterase; Region: CheB_methylest; pfam01339 485917010588 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485917010589 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485917010590 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 485917010591 PAS domain; Region: PAS_10; pfam13596 485917010592 PAS fold; Region: PAS_3; pfam08447 485917010593 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 485917010594 putative active site [active] 485917010595 heme pocket [chemical binding]; other site 485917010596 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917010597 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 485917010598 dimer interface [polypeptide binding]; other site 485917010599 phosphorylation site [posttranslational modification] 485917010600 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 485917010601 ATP binding site [chemical binding]; other site 485917010602 Mg2+ binding site [ion binding]; other site 485917010603 G-X-G motif; other site 485917010604 PAS fold; Region: PAS_2; pfam08446 485917010605 GAF domain; Region: GAF; pfam01590 485917010606 Phytochrome region; Region: PHY; pfam00360 485917010607 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 485917010608 heme binding pocket [chemical binding]; other site 485917010609 heme ligand [chemical binding]; other site 485917010610 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917010611 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 485917010612 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 485917010613 NADP binding site [chemical binding]; other site 485917010614 active site 485917010615 putative substrate binding site [chemical binding]; other site 485917010616 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 485917010617 CoA binding domain; Region: CoA_binding; cl17356 485917010618 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 485917010619 NAD(P) binding site [chemical binding]; other site 485917010620 homodimer interface [polypeptide binding]; other site 485917010621 substrate binding site [chemical binding]; other site 485917010622 active site 485917010623 Bacterial sugar transferase; Region: Bac_transf; pfam02397 485917010624 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485917010625 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 485917010626 inhibitor-cofactor binding pocket; inhibition site 485917010627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917010628 catalytic residue [active] 485917010629 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485917010630 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 485917010631 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010632 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485917010633 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 485917010634 NAD binding site [chemical binding]; other site 485917010635 putative substrate binding site 2 [chemical binding]; other site 485917010636 putative substrate binding site 1 [chemical binding]; other site 485917010637 active site 485917010638 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 485917010639 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 485917010640 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485917010641 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 485917010642 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010643 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 485917010644 putative glycosyl transferase; Provisional; Region: PRK10063 485917010645 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 485917010646 active site 485917010647 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 485917010648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485917010649 NAD(P) binding site [chemical binding]; other site 485917010650 active site 485917010651 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010652 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 485917010653 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 485917010654 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 485917010655 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 485917010656 Ligand Binding Site [chemical binding]; other site 485917010657 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 485917010658 substrate binding site [chemical binding]; other site 485917010659 glutamase interaction surface [polypeptide binding]; other site 485917010660 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 485917010661 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 485917010662 putative active site [active] 485917010663 oxyanion strand; other site 485917010664 catalytic triad [active] 485917010665 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 485917010666 Ligand Binding Site [chemical binding]; other site 485917010667 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 485917010668 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 485917010669 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 485917010670 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 485917010671 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485917010672 inhibitor-cofactor binding pocket; inhibition site 485917010673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917010674 catalytic residue [active] 485917010675 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485917010676 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485917010677 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 485917010678 ligand binding site; other site 485917010679 tetramer interface; other site 485917010680 pseudaminic acid synthase; Region: PseI; TIGR03586 485917010681 NeuB family; Region: NeuB; pfam03102 485917010682 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 485917010683 NeuB binding interface [polypeptide binding]; other site 485917010684 putative substrate binding site [chemical binding]; other site 485917010685 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 485917010686 active site 485917010687 substrate binding site [chemical binding]; other site 485917010688 methionyl-tRNA formyltransferase; Region: fmt; TIGR00460 485917010689 cosubstrate binding site; other site 485917010690 catalytic site [active] 485917010691 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 485917010692 active site 485917010693 hexamer interface [polypeptide binding]; other site 485917010694 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 485917010695 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485917010696 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 485917010697 inhibitor-cofactor binding pocket; inhibition site 485917010698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917010699 catalytic residue [active] 485917010700 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 485917010701 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 485917010702 NAD(P) binding site [chemical binding]; other site 485917010703 homodimer interface [polypeptide binding]; other site 485917010704 substrate binding site [chemical binding]; other site 485917010705 active site 485917010706 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 485917010707 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 485917010708 SLBB domain; Region: SLBB; pfam10531 485917010709 SLBB domain; Region: SLBB; pfam10531 485917010710 SLBB domain; Region: SLBB; pfam10531 485917010711 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 485917010712 SLBB domain; Region: SLBB; pfam10531 485917010713 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 485917010714 non-specific DNA binding site [nucleotide binding]; other site 485917010715 salt bridge; other site 485917010716 sequence-specific DNA binding site [nucleotide binding]; other site 485917010717 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 485917010718 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 485917010719 NAD binding site [chemical binding]; other site 485917010720 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485917010721 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 485917010722 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 485917010723 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 485917010724 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 485917010725 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 485917010726 Carbon starvation protein CstA; Region: CstA; pfam02554 485917010727 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 485917010728 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 485917010729 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 485917010730 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917010731 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917010732 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917010733 SusD family; Region: SusD; pfam07980 485917010734 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917010735 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010736 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010737 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917010738 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917010739 FecR protein; Region: FecR; pfam04773 485917010740 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917010741 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917010742 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917010743 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 485917010744 DNA binding residues [nucleotide binding] 485917010745 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917010746 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917010747 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 485917010748 DNA binding residues [nucleotide binding] 485917010749 Surface antigen; Region: Bac_surface_Ag; pfam01103 485917010750 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 485917010751 sugar binding site [chemical binding]; other site 485917010752 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 485917010753 substrate binding site [chemical binding]; other site 485917010754 catalytic residues [active] 485917010755 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 485917010756 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 485917010757 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917010758 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 485917010759 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 485917010760 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 485917010761 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917010762 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 485917010763 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 485917010764 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917010765 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 485917010766 substrate binding site [chemical binding]; other site 485917010767 catalytic residues [active] 485917010768 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917010769 SusD family; Region: SusD; pfam07980 485917010770 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010771 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010772 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917010773 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917010774 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 485917010775 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 485917010776 dimerization interface [polypeptide binding]; other site 485917010777 putative active cleft [active] 485917010778 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 485917010779 active site 485917010780 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 485917010781 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 485917010782 putative substrate translocation pore; other site 485917010783 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 485917010784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485917010785 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 485917010786 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917010787 catalytic residues [active] 485917010788 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917010789 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917010790 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917010791 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010792 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010793 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917010794 FecR protein; Region: FecR; pfam04773 485917010795 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917010796 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917010797 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 485917010798 DNA binding residues [nucleotide binding] 485917010799 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 485917010800 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 485917010801 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917010802 catalytic residues [active] 485917010803 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 485917010804 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 485917010805 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917010806 catalytic residues [active] 485917010807 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 485917010808 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 485917010809 sugar binding site [chemical binding]; other site 485917010810 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917010811 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917010812 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917010813 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010814 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010815 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917010816 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917010817 FecR protein; Region: FecR; pfam04773 485917010818 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917010819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917010820 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 485917010821 DNA binding residues [nucleotide binding] 485917010822 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 485917010823 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 485917010824 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 485917010825 putative active site [active] 485917010826 putative substrate binding site [chemical binding]; other site 485917010827 putative cosubstrate binding site; other site 485917010828 catalytic site [active] 485917010829 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 485917010830 EamA-like transporter family; Region: EamA; pfam00892 485917010831 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 485917010832 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 485917010833 NADP-binding site; other site 485917010834 homotetramer interface [polypeptide binding]; other site 485917010835 substrate binding site [chemical binding]; other site 485917010836 homodimer interface [polypeptide binding]; other site 485917010837 active site 485917010838 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 485917010839 active site 485917010840 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917010841 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010842 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010843 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917010844 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917010845 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 485917010846 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 485917010847 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917010848 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 485917010849 dimer interface [polypeptide binding]; other site 485917010850 phosphorylation site [posttranslational modification] 485917010851 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 485917010852 ATP binding site [chemical binding]; other site 485917010853 Mg2+ binding site [ion binding]; other site 485917010854 G-X-G motif; other site 485917010855 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485917010856 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 485917010857 active site 485917010858 phosphorylation site [posttranslational modification] 485917010859 intermolecular recognition site; other site 485917010860 dimerization interface [polypeptide binding]; other site 485917010861 Helix-turn-helix domain; Region: HTH_18; pfam12833 485917010862 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 485917010863 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485917010864 catalytic residues [active] 485917010865 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917010866 starch binding outer membrane protein SusD; Region: SusD; cd08977 485917010867 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485917010868 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917010869 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917010870 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917010871 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 485917010872 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 485917010873 FecR protein; Region: FecR; pfam04773 485917010874 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 485917010875 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917010876 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 485917010877 DNA binding residues [nucleotide binding] 485917010878 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 485917010879 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 485917010880 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 485917010881 active site 485917010882 short chain dehydrogenase; Provisional; Region: PRK08628 485917010883 classical (c) SDRs; Region: SDR_c; cd05233 485917010884 NAD(P) binding site [chemical binding]; other site 485917010885 active site 485917010886 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 485917010887 Amidohydrolase; Region: Amidohydro_2; pfam04909 485917010888 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 485917010889 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 485917010890 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 485917010891 classical (c) SDRs; Region: SDR_c; cd05233 485917010892 NAD(P) binding site [chemical binding]; other site 485917010893 active site 485917010894 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 485917010895 galactarate dehydratase; Region: galactar-dH20; TIGR03248 485917010896 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 485917010897 Domain of unknown function (DUF718); Region: DUF718; pfam05336 485917010898 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917010899 L-fucose transporter; Provisional; Region: PRK10133; cl17665 485917010900 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 485917010901 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 485917010902 substrate binding site; other site 485917010903 tetramer interface; other site 485917010904 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 485917010905 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 485917010906 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 485917010907 SurA N-terminal domain; Region: SurA_N_3; cl07813 485917010908 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 485917010909 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 485917010910 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 485917010911 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 485917010912 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 485917010913 pantothenate kinase; Reviewed; Region: PRK13320 485917010914 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 485917010915 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917010916 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 485917010917 putative active site [active] 485917010918 putative metal binding site [ion binding]; other site 485917010919 Predicted membrane protein [Function unknown]; Region: COG4485 485917010920 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 485917010921 excinuclease ABC subunit B; Provisional; Region: PRK05298 485917010922 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 485917010923 ATP binding site [chemical binding]; other site 485917010924 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 485917010925 nucleotide binding region [chemical binding]; other site 485917010926 ATP-binding site [chemical binding]; other site 485917010927 Ultra-violet resistance protein B; Region: UvrB; pfam12344 485917010928 UvrB/uvrC motif; Region: UVR; pfam02151 485917010929 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 485917010930 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485917010931 active site 485917010932 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 485917010933 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 485917010934 motif II; other site 485917010935 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 485917010936 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 485917010937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 485917010938 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 485917010939 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 485917010940 active site 485917010941 Rhomboid family; Region: Rhomboid; pfam01694 485917010942 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485917010943 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 485917010944 S-adenosylmethionine binding site [chemical binding]; other site 485917010945 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 485917010946 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 485917010947 trimer interface [polypeptide binding]; other site 485917010948 active site 485917010949 substrate binding site [chemical binding]; other site 485917010950 CoA binding site [chemical binding]; other site 485917010951 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485917010952 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 485917010953 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 485917010954 metal-binding site 485917010955 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 485917010956 classical (c) SDRs; Region: SDR_c; cd05233 485917010957 NAD(P) binding site [chemical binding]; other site 485917010958 active site 485917010959 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 485917010960 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 485917010961 G1 box; other site 485917010962 putative GEF interaction site [polypeptide binding]; other site 485917010963 GTP/Mg2+ binding site [chemical binding]; other site 485917010964 Switch I region; other site 485917010965 G2 box; other site 485917010966 G3 box; other site 485917010967 Switch II region; other site 485917010968 G4 box; other site 485917010969 G5 box; other site 485917010970 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 485917010971 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 485917010972 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 485917010973 ATP-grasp domain; Region: ATP-grasp_4; cl17255 485917010974 carboxylate-amine ligase; Provisional; Region: PRK13515 485917010975 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 485917010976 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 485917010977 conserved cys residue [active] 485917010978 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917010979 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 485917010980 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 485917010981 Uncharacterized conserved protein [Function unknown]; Region: COG2353 485917010982 Pirin-related protein [General function prediction only]; Region: COG1741 485917010983 Pirin; Region: Pirin; pfam02678 485917010984 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 485917010985 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 485917010986 homotrimer interaction site [polypeptide binding]; other site 485917010987 zinc binding site [ion binding]; other site 485917010988 CDP-binding sites; other site 485917010989 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 485917010990 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 485917010991 carboxyltransferase (CT) interaction site; other site 485917010992 biotinylation site [posttranslational modification]; other site 485917010993 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 485917010994 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 485917010995 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 485917010996 Domain of unknown function DUF21; Region: DUF21; pfam01595 485917010997 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 485917010998 Transporter associated domain; Region: CorC_HlyC; smart01091 485917010999 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 485917011000 dimer interface [polypeptide binding]; other site 485917011001 substrate binding site [chemical binding]; other site 485917011002 metal binding sites [ion binding]; metal-binding site 485917011003 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 485917011004 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 485917011005 NADH dehydrogenase subunit 2; Validated; Region: ND2; MTH00011 485917011006 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 485917011007 NADH dehydrogenase subunit 4; Provisional; Region: ND4; MTH00206 485917011008 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 485917011009 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 485917011010 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 485917011011 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 485917011012 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 485917011013 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 485917011014 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 485917011015 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 485917011016 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 485917011017 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 485917011018 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 485917011019 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 485917011020 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 485917011021 catalytic loop [active] 485917011022 iron binding site [ion binding]; other site 485917011023 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 485917011024 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 485917011025 SLBB domain; Region: SLBB; pfam10531 485917011026 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 485917011027 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 485917011028 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 485917011029 putative dimer interface [polypeptide binding]; other site 485917011030 [2Fe-2S] cluster binding site [ion binding]; other site 485917011031 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 485917011032 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 485917011033 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 485917011034 NADH dehydrogenase subunit B; Provisional; Region: PRK14820 485917011035 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 485917011036 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 485917011037 binding surface 485917011038 TPR motif; other site 485917011039 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 485917011040 binding surface 485917011041 TPR motif; other site 485917011042 PBP superfamily domain; Region: PBP_like_2; pfam12849 485917011043 potential frameshift: common BLAST hit: gi|146298253|ref|YP_001192844.1| TonB family protein 485917011044 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 485917011045 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 485917011046 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 485917011047 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 485917011048 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 485917011049 active site 485917011050 substrate-binding site [chemical binding]; other site 485917011051 metal-binding site [ion binding] 485917011052 ATP binding site [chemical binding]; other site 485917011053 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 485917011054 putative rRNA binding site [nucleotide binding]; other site 485917011055 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 485917011056 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 485917011057 S-adenosylmethionine synthetase; Validated; Region: PRK05250 485917011058 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 485917011059 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 485917011060 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 485917011061 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 485917011062 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 485917011063 sugar binding site [chemical binding]; other site 485917011064 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 485917011065 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 485917011066 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917011067 SusD family; Region: SusD; pfam07980 485917011068 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917011069 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917011070 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917011071 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 485917011072 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 485917011073 Peptidase family M28; Region: Peptidase_M28; pfam04389 485917011074 metal binding site [ion binding]; metal-binding site 485917011075 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 485917011076 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 485917011077 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 485917011078 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 485917011079 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917011080 SusD family; Region: SusD; pfam07980 485917011081 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917011082 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917011083 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917011084 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917011085 Right handed beta helix region; Region: Beta_helix; pfam13229 485917011086 Right handed beta helix region; Region: Beta_helix; pfam13229 485917011087 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 485917011088 putative ligand binding site [chemical binding]; other site 485917011089 Methyltransferase domain; Region: Methyltransf_11; pfam08241 485917011090 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 485917011091 DNA binding site [nucleotide binding] 485917011092 domain linker motif; other site 485917011093 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 485917011094 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 485917011095 ligand binding site [chemical binding]; other site 485917011096 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 485917011097 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 485917011098 binding surface 485917011099 TPR motif; other site 485917011100 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 485917011101 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 485917011102 TPR motif; other site 485917011103 binding surface 485917011104 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 485917011105 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 485917011106 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 485917011107 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 485917011108 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 485917011109 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 485917011110 peptide chain release factor 1; Validated; Region: prfA; PRK00591 485917011111 PCRF domain; Region: PCRF; pfam03462 485917011112 RF-1 domain; Region: RF-1; pfam00472 485917011113 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485917011114 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 485917011115 putative active site [active] 485917011116 putative metal binding site [ion binding]; other site 485917011117 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 485917011118 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485917011119 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 485917011120 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 485917011121 catalytic loop [active] 485917011122 iron binding site [ion binding]; other site 485917011123 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 485917011124 C-terminal peptidase (prc); Region: prc; TIGR00225 485917011125 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 485917011126 protein binding site [polypeptide binding]; other site 485917011127 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 485917011128 Catalytic dyad [active] 485917011129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 485917011130 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 485917011131 5-formaminoimidazole-4-carboxamide-1-beta-D- ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]; Region: COG1759 485917011132 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917011133 SusD family; Region: SusD; pfam07980 485917011134 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917011135 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917011136 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 485917011137 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917011138 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917011139 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 485917011140 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917011141 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 485917011142 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 485917011143 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 485917011144 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 485917011145 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917011146 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917011147 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917011148 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917011149 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917011150 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917011151 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917011152 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 485917011153 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917011154 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 485917011155 binding surface 485917011156 TPR motif; other site 485917011157 PAS fold; Region: PAS_3; pfam08447 485917011158 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485917011159 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 485917011160 DNA binding residues [nucleotide binding] 485917011161 dimerization interface [polypeptide binding]; other site 485917011162 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917011163 starch binding outer membrane protein SusD; Region: SusD; cl17845 485917011164 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 485917011165 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917011166 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 485917011167 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 485917011168 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 485917011169 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 485917011170 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 485917011171 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 485917011172 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 485917011173 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 485917011174 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 485917011175 active site 485917011176 trimer interface [polypeptide binding]; other site 485917011177 allosteric site; other site 485917011178 active site lid [active] 485917011179 hexamer (dimer of trimers) interface [polypeptide binding]; other site 485917011180 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 485917011181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 485917011182 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917011183 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485917011184 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917011185 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485917011186 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485917011187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 485917011188 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 485917011189 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917011190 HAMP domain; Region: HAMP; pfam00672 485917011191 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 485917011192 dimer interface [polypeptide binding]; other site 485917011193 phosphorylation site [posttranslational modification] 485917011194 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 485917011195 ATP binding site [chemical binding]; other site 485917011196 Mg2+ binding site [ion binding]; other site 485917011197 G-X-G motif; other site 485917011198 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 485917011199 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 485917011200 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 485917011201 homodecamer interface [polypeptide binding]; other site 485917011202 GTP cyclohydrolase I; Provisional; Region: PLN03044 485917011203 active site 485917011204 putative catalytic site residues [active] 485917011205 zinc binding site [ion binding]; other site 485917011206 GTP-CH-I/GFRP interaction surface; other site 485917011207 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 485917011208 active site 485917011209 futalosine nucleosidase; Region: fut_nucase; TIGR03664 485917011210 nucleosidase; Provisional; Region: PRK05634 485917011211 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 485917011212 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 485917011213 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 485917011214 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485917011215 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 485917011216 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 485917011217 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 485917011218 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 485917011219 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 485917011220 shikimate binding site; other site 485917011221 NAD(P) binding site [chemical binding]; other site 485917011222 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 485917011223 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 485917011224 binding surface 485917011225 TPR motif; other site 485917011226 TPR repeat; Region: TPR_11; pfam13414 485917011227 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 485917011228 binding surface 485917011229 TPR motif; other site 485917011230 TPR repeat; Region: TPR_11; pfam13414 485917011231 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 485917011232 binding surface 485917011233 TPR repeat; Region: TPR_11; pfam13414 485917011234 TPR motif; other site 485917011235 TPR repeat; Region: TPR_11; pfam13414 485917011236 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 485917011237 binding surface 485917011238 TPR motif; other site 485917011239 TPR repeat; Region: TPR_11; pfam13414 485917011240 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 485917011241 binding surface 485917011242 Tetratricopeptide repeat; Region: TPR_16; pfam13432 485917011243 TPR motif; other site 485917011244 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 485917011245 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 485917011246 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 485917011247 ATP binding site [chemical binding]; other site 485917011248 putative Mg++ binding site [ion binding]; other site 485917011249 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 485917011250 nucleotide binding region [chemical binding]; other site 485917011251 ATP-binding site [chemical binding]; other site 485917011252 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 485917011253 Uncharacterized conserved protein [Function unknown]; Region: COG4850 485917011254 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 485917011255 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 485917011256 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 485917011257 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 485917011258 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 485917011259 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 485917011260 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 485917011261 HflX GTPase family; Region: HflX; cd01878 485917011262 G1 box; other site 485917011263 GTP/Mg2+ binding site [chemical binding]; other site 485917011264 Switch I region; other site 485917011265 G2 box; other site 485917011266 G3 box; other site 485917011267 Switch II region; other site 485917011268 G4 box; other site 485917011269 G5 box; other site 485917011270 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 485917011271 active site 485917011272 ribulose/triose binding site [chemical binding]; other site 485917011273 phosphate binding site [ion binding]; other site 485917011274 substrate (anthranilate) binding pocket [chemical binding]; other site 485917011275 product (indole) binding pocket [chemical binding]; other site 485917011276 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 485917011277 Glutamine amidotransferase class-I; Region: GATase; pfam00117 485917011278 glutamine binding [chemical binding]; other site 485917011279 catalytic triad [active] 485917011280 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 485917011281 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 485917011282 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 485917011283 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 485917011284 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 485917011285 Amidohydrolase; Region: Amidohydro_4; pfam13147 485917011286 active site 485917011287 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 485917011288 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 485917011289 active site 485917011290 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 485917011291 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 485917011292 active site 485917011293 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 485917011294 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 485917011295 AsnC family; Region: AsnC_trans_reg; pfam01037 485917011296 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 485917011297 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 485917011298 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 485917011299 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 485917011300 RNA binding site [nucleotide binding]; other site 485917011301 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 485917011302 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 485917011303 alpha subunit interface [polypeptide binding]; other site 485917011304 TPP binding site [chemical binding]; other site 485917011305 heterodimer interface [polypeptide binding]; other site 485917011306 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485917011307 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 485917011308 Part of AAA domain; Region: AAA_19; pfam13245 485917011309 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 485917011310 Family description; Region: UvrD_C_2; pfam13538 485917011311 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 485917011312 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 485917011313 putative ATP binding site [chemical binding]; other site 485917011314 putative substrate interface [chemical binding]; other site 485917011315 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 485917011316 active site 485917011317 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 485917011318 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 485917011319 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917011320 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917011321 glycerol kinase; Provisional; Region: glpK; PRK00047 485917011322 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 485917011323 N- and C-terminal domain interface [polypeptide binding]; other site 485917011324 active site 485917011325 MgATP binding site [chemical binding]; other site 485917011326 catalytic site [active] 485917011327 metal binding site [ion binding]; metal-binding site 485917011328 glycerol binding site [chemical binding]; other site 485917011329 homotetramer interface [polypeptide binding]; other site 485917011330 homodimer interface [polypeptide binding]; other site 485917011331 FBP binding site [chemical binding]; other site 485917011332 protein IIAGlc interface [polypeptide binding]; other site 485917011333 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 485917011334 amphipathic channel; other site 485917011335 Asn-Pro-Ala signature motifs; other site 485917011336 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485917011337 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 485917011338 active site 485917011339 phosphorylation site [posttranslational modification] 485917011340 intermolecular recognition site; other site 485917011341 dimerization interface [polypeptide binding]; other site 485917011342 LytTr DNA-binding domain; Region: LytTR; smart00850 485917011343 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 485917011344 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 485917011345 domain interfaces; other site 485917011346 active site 485917011347 acyl carrier protein; Provisional; Region: acpP; PRK00982 485917011348 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 485917011349 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 485917011350 dimer interface [polypeptide binding]; other site 485917011351 active site 485917011352 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 485917011353 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 485917011354 dimerization interface [polypeptide binding]; other site 485917011355 active site 485917011356 metal binding site [ion binding]; metal-binding site 485917011357 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 485917011358 Cna protein B-type domain; Region: Cna_B_2; pfam13715 485917011359 hypothetical protein; Provisional; Region: PRK11820 485917011360 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 485917011361 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 485917011362 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 485917011363 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 485917011364 catalytic site [active] 485917011365 G-X2-G-X-G-K; other site 485917011366 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 485917011367 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 485917011368 active site 485917011369 (T/H)XGH motif; other site 485917011370 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 485917011371 putative SAM binding site [chemical binding]; other site 485917011372 homodimer interface [polypeptide binding]; other site 485917011373 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 485917011374 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 485917011375 G1 box; other site 485917011376 putative GEF interaction site [polypeptide binding]; other site 485917011377 GTP/Mg2+ binding site [chemical binding]; other site 485917011378 Switch I region; other site 485917011379 G2 box; other site 485917011380 G3 box; other site 485917011381 Switch II region; other site 485917011382 G4 box; other site 485917011383 G5 box; other site 485917011384 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 485917011385 argininosuccinate lyase; Provisional; Region: PRK00855 485917011386 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 485917011387 active sites [active] 485917011388 tetramer interface [polypeptide binding]; other site 485917011389 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 485917011390 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 485917011391 metal binding site [ion binding]; metal-binding site 485917011392 dimer interface [polypeptide binding]; other site 485917011393 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 485917011394 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 485917011395 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 485917011396 nucleotide binding site [chemical binding]; other site 485917011397 N-acetyl-L-glutamate binding site [chemical binding]; other site 485917011398 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 485917011399 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 485917011400 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 485917011401 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 485917011402 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 485917011403 inhibitor-cofactor binding pocket; inhibition site 485917011404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485917011405 catalytic residue [active] 485917011406 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 485917011407 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 485917011408 argininosuccinate synthase; Provisional; Region: PRK13820 485917011409 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 485917011410 Ligand Binding Site [chemical binding]; other site 485917011411 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 485917011412 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 485917011413 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 485917011414 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 485917011415 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 485917011416 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485917011417 DNA polymerase I; Region: pola; TIGR00593 485917011418 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 485917011419 active site 485917011420 metal binding site 1 [ion binding]; metal-binding site 485917011421 putative 5' ssDNA interaction site; other site 485917011422 metal binding site 3; metal-binding site 485917011423 metal binding site 2 [ion binding]; metal-binding site 485917011424 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 485917011425 putative DNA binding site [nucleotide binding]; other site 485917011426 putative metal binding site [ion binding]; other site 485917011427 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 485917011428 active site 485917011429 catalytic site [active] 485917011430 substrate binding site [chemical binding]; other site 485917011431 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 485917011432 active site 485917011433 DNA binding site [nucleotide binding] 485917011434 catalytic site [active] 485917011435 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 485917011436 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 485917011437 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 485917011438 DNA binding site [nucleotide binding] 485917011439 active site 485917011440 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 485917011441 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 485917011442 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 485917011443 NADP binding site [chemical binding]; other site 485917011444 active site 485917011445 putative substrate binding site [chemical binding]; other site 485917011446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 485917011447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485917011448 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 485917011449 dimerization interface [polypeptide binding]; other site 485917011450 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 485917011451 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 485917011452 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 485917011453 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 485917011454 nucleoside/Zn binding site; other site 485917011455 dimer interface [polypeptide binding]; other site 485917011456 catalytic motif [active] 485917011457 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 485917011458 dimer interface [polypeptide binding]; other site 485917011459 putative tRNA-binding site [nucleotide binding]; other site 485917011460 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 485917011461 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 485917011462 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 485917011463 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 485917011464 putative RNA binding site [nucleotide binding]; other site 485917011465 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 485917011466 S-adenosylmethionine binding site [chemical binding]; other site 485917011467 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 485917011468 putative substrate translocation pore; other site 485917011469 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 485917011470 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 485917011471 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 485917011472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485917011473 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 485917011474 DNA binding residues [nucleotide binding] 485917011475 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 485917011476 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 485917011477 dimer interface [polypeptide binding]; other site 485917011478 anticodon binding site; other site 485917011479 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 485917011480 homodimer interface [polypeptide binding]; other site 485917011481 motif 1; other site 485917011482 active site 485917011483 motif 2; other site 485917011484 GAD domain; Region: GAD; pfam02938 485917011485 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 485917011486 motif 3; other site 485917011487 YtxH-like protein; Region: YtxH; pfam12732 485917011488 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 485917011489 Domain of unknown function DUF20; Region: UPF0118; pfam01594 485917011490 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485917011491 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 485917011492 active site 485917011493 phosphorylation site [posttranslational modification] 485917011494 intermolecular recognition site; other site 485917011495 dimerization interface [polypeptide binding]; other site 485917011496 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 485917011497 Walker A motif; other site 485917011498 ATP binding site [chemical binding]; other site 485917011499 Walker B motif; other site 485917011500 arginine finger; other site 485917011501 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 485917011502 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 485917011503 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 485917011504 substrate binding site [chemical binding]; other site 485917011505 oxyanion hole (OAH) forming residues; other site 485917011506 trimer interface [polypeptide binding]; other site 485917011507 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 485917011508 B12 binding site [chemical binding]; other site 485917011509 cobalt ligand [ion binding]; other site 485917011510 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 485917011511 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485917011512 active site 485917011513 HIGH motif; other site 485917011514 nucleotide binding site [chemical binding]; other site 485917011515 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 485917011516 KMSKS motif; other site 485917011517 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 485917011518 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 485917011519 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 485917011520 amidase catalytic site [active] 485917011521 Zn binding residues [ion binding]; other site 485917011522 substrate binding site [chemical binding]; other site 485917011523 Nudix hydrolase homolog; Region: PLN02791 485917011524 Response regulator receiver domain; Region: Response_reg; pfam00072 485917011525 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 485917011526 active site 485917011527 phosphorylation site [posttranslational modification] 485917011528 intermolecular recognition site; other site 485917011529 dimerization interface [polypeptide binding]; other site 485917011530 CheB methylesterase; Region: CheB_methylest; pfam01339 485917011531 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485917011532 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485917011533 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 485917011534 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485917011535 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 485917011536 active site 485917011537 phosphorylation site [posttranslational modification] 485917011538 intermolecular recognition site; other site 485917011539 dimerization interface [polypeptide binding]; other site 485917011540 CHASE3 domain; Region: CHASE3; pfam05227 485917011541 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 485917011542 dimerization interface [polypeptide binding]; other site 485917011543 GAF domain; Region: GAF_2; pfam13185 485917011544 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 485917011545 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 485917011546 dimer interface [polypeptide binding]; other site 485917011547 phosphorylation site [posttranslational modification] 485917011548 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 485917011549 ATP binding site [chemical binding]; other site 485917011550 Mg2+ binding site [ion binding]; other site 485917011551 G-X-G motif; other site 485917011552 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485917011553 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 485917011554 active site 485917011555 phosphorylation site [posttranslational modification] 485917011556 intermolecular recognition site; other site 485917011557 dimerization interface [polypeptide binding]; other site 485917011558 Response regulator receiver domain; Region: Response_reg; pfam00072 485917011559 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 485917011560 active site 485917011561 phosphorylation site [posttranslational modification] 485917011562 intermolecular recognition site; other site 485917011563 Response regulator receiver domain; Region: Response_reg; pfam00072 485917011564 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 485917011565 active site 485917011566 phosphorylation site [posttranslational modification] 485917011567 intermolecular recognition site; other site 485917011568 dimerization interface [polypeptide binding]; other site 485917011569 Response regulator receiver domain; Region: Response_reg; pfam00072 485917011570 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 485917011571 active site 485917011572 phosphorylation site [posttranslational modification] 485917011573 intermolecular recognition site; other site 485917011574 dimerization interface [polypeptide binding]; other site 485917011575 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917011576 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 485917011577 dimer interface [polypeptide binding]; other site 485917011578 phosphorylation site [posttranslational modification] 485917011579 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 485917011580 ATP binding site [chemical binding]; other site 485917011581 Mg2+ binding site [ion binding]; other site 485917011582 G-X-G motif; other site 485917011583 Predicted metalloprotease [General function prediction only]; Region: COG2321 485917011584 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 485917011585 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 485917011586 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 485917011587 active site 485917011588 HIGH motif; other site 485917011589 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 485917011590 active site 485917011591 KMSKS motif; other site 485917011592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485917011593 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 485917011594 phosphorylation site [posttranslational modification] 485917011595 dimer interface [polypeptide binding]; other site 485917011596 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 485917011597 ATP binding site [chemical binding]; other site 485917011598 G-X-G motif; other site 485917011599 DinB superfamily; Region: DinB_2; pfam12867 485917011600 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485917011601 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 485917011602 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 485917011603 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 485917011604 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 485917011605 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 485917011606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485917011607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485917011608 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 485917011609 Outer membrane efflux protein; Region: OEP; pfam02321 485917011610 Outer membrane efflux protein; Region: OEP; pfam02321 485917011611 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 485917011612 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485917011613 HlyD family secretion protein; Region: HlyD_3; pfam13437 485917011614 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 485917011615 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 485917011616 putative substrate translocation pore; other site 485917011617 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 485917011618 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 485917011619 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 485917011620 catalytic residues [active] 485917011621 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 485917011622 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 485917011623 dimer interface [polypeptide binding]; other site 485917011624 decamer (pentamer of dimers) interface [polypeptide binding]; other site 485917011625 catalytic triad [active] 485917011626 peroxidatic and resolving cysteines [active] 485917011627 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 485917011628 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 485917011629 NAD(P) binding site [chemical binding]; other site 485917011630 catalytic residues [active] 485917011631 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 485917011632 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 485917011633 putative active site [active] 485917011634 metal binding site [ion binding]; metal-binding site 485917011635 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 485917011636 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 485917011637 active site 485917011638 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 485917011639 putative active site [active] 485917011640 putative catalytic site [active] 485917011641 putative DNA binding site [nucleotide binding]; other site 485917011642 putative phosphate binding site [ion binding]; other site 485917011643 metal binding site A [ion binding]; metal-binding site 485917011644 putative AP binding site [nucleotide binding]; other site 485917011645 putative metal binding site B [ion binding]; other site 485917011646 imidazolonepropionase; Validated; Region: PRK09356 485917011647 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 485917011648 active site 485917011649 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 485917011650 putative active site [active] 485917011651 putative metal binding site [ion binding]; other site 485917011652 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 485917011653 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 485917011654 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485917011655 ligand binding site [chemical binding]; other site 485917011656 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 485917011657 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 485917011658 elongation factor P; Validated; Region: PRK00529 485917011659 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 485917011660 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 485917011661 RNA binding site [nucleotide binding]; other site 485917011662 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 485917011663 RNA binding site [nucleotide binding]; other site 485917011664 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485917011665 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 485917011666 Walker A/P-loop; other site 485917011667 ATP binding site [chemical binding]; other site 485917011668 Q-loop/lid; other site 485917011669 ABC transporter signature motif; other site 485917011670 Walker B; other site 485917011671 D-loop; other site 485917011672 H-loop/switch region; other site 485917011673 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 485917011674 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 485917011675 active site 485917011676 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 485917011677 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 485917011678 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 485917011679 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 485917011680 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 485917011681 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 485917011682 trimer interface [polypeptide binding]; other site 485917011683 active site 485917011684 UDP-GlcNAc binding site [chemical binding]; other site 485917011685 lipid binding site [chemical binding]; lipid-binding site 485917011686 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 485917011687 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485917011688 Zn2+ binding site [ion binding]; other site 485917011689 Mg2+ binding site [ion binding]; other site 485917011690 Response regulator receiver domain; Region: Response_reg; pfam00072 485917011691 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 485917011692 active site 485917011693 phosphorylation site [posttranslational modification] 485917011694 intermolecular recognition site; other site 485917011695 dimerization interface [polypeptide binding]; other site 485917011696 PglZ domain; Region: PglZ; pfam08665 485917011697 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 485917011698 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 485917011699 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 485917011700 hexamer interface [polypeptide binding]; other site 485917011701 ligand binding site [chemical binding]; other site 485917011702 putative active site [active] 485917011703 NAD(P) binding site [chemical binding]; other site 485917011704 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 485917011705 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 485917011706 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485917011707 catalytic residue [active] 485917011708 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429