1EZF,1FPS,1UBX,1UBY


Conserved Protein Domain Family
Trans_IPPS

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cd00867: Trans_IPPS 
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Trans-Isoprenyl Diphosphate Synthases
Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. The head-to-head (HH) IPPS catalyze the successive 1'-1 condensation of 2 farnesyl or 2 geranylgeranyl isoprenoid diphosphates. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational changes that close the active site to solvent, stabilizing reactive carbocation intermediates. Mechanistically and structurally distinct, cis-IPPS are not included in this CD.
Statistics
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PSSM-Id: 173836
View PSSM: cd00867
Aligned: 233 rows
Threshold Bit Score: 61.2055
Threshold Setting Gi: 22983070
Created: 6-Mar-2002
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 12 residues -Click on image for an interactive view with Cn3D
Feature 1:substrate binding pocket [chemical binding site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1        #                                   #  ##  #   #                               
1EZF_A       23 SFAAVIQALdg-----------------emRNAVCIFYLVLRALDTLEDDmtisvekkvpllhnfhsflyq-----pdwr 80  human
1UBX         73 NRGLTVVAAyrelsgpgqkdaeslrcalavGWCIELFQAASLVADDIMDQsltrrgqlcwykk----------------- 135 chicken
P55351       17 NFPVASWIIhp-----------------rhRALILAFYRFVRMADDIADHatlapdekllyld----------------- 62  Rhizobium sp. NG...
CAA04732     36 NFPVASFLInp-----------------eyRPIIMAFYQFARQADDVADNviaskkdrlaile----------------- 81  Zymomonas mobilis
NP_274529    13 NFPVGSLILpr-----------------rlRKPVHAVYAFARTADDMADEgsmpsearlaglegl--------------- 60  Neisseria mening...
NP_519773    30 DLYYSVLFLap-----------------erRRATVALEAVRRELEDAVRDasdpavvqsklqww---------------- 76  Ralstonia solana...
NP_630831    24 NFPVAPFFLpr-----------------awRTDLMAVYGFARLVDDIGDGdlapggadarllgvpedraddrllmldafe 86  Streptomyces coe...
ZP_00013061  29 NFPVGSVLLpa-----------------rlRPHVARFYAFARAIDDIADSpdldaaakidrlqgf--------------- 76  Rhodospirillum r...
ZP_00024286  17 SFYYSSLLLps-----------------drRNALTALQAWRQELDAIVNEnhdagvahqrldww---------------- 63  Ralstonia metall...
ZP_00028278  17 STYYALRQApa-----------------asQPLLTALFALRREFEETVKEtsdptigrtklaww---------------- 63  Burkholderia fun...
Feature 1                                                                                       
1EZF_A       81 fmeskekdrqvledfpTISLEFRNLae---------kyQTVIADICRRMGIGMAEFldkh--------vtseQEWDKYCH 143 human
1UBX        136 ---egvgldaindsflLESSVYRVLkkycrqrpyyvhlLELFLQTAYQTELGQMLDlitapvskvdlshfseERYKAIVK 212 chicken
P55351       63 ---lleaellgkgetrAEAVHLRTAld----------rRGMPPRHALDLLTAFRMDvtkqr-------yenwDEVIDYCR 122 Rhizobium sp. NG...
CAA04732     82 ---dmrssltgesqsePNAVVLRQTlin--------hgLDHTIVHGLDLLEAFRRDvsvnr-------yenwDALMDYCR 143 Zymomonas mobilis
NP_274529    61 -qreldvlasggrsahPLIARLDAEav---------vpFGLDLQPFYDLLSAFSQDvvktr-------ygnfGELADYCR 123 Neisseria mening...
NP_519773    77 --rqelarlfdgrpehPATKALQPHla----------aYDIGAVHLGELFAGVEADamqnr-------yldwPNLRRHGD 137 Ralstonia solana...
NP_630831    87 adlrrvfdgsdgaprhPLLRRLVPTvr----------rRALTPEPFLGLIAANRQDqlvar-------yetyDDLLAYCE 149 Streptomyces coe...
ZP_00013061  77 --eeaitgrdttdpayAKGHALRVSle----------aTGVPAIHGVELIAAFKQDavkgr-------yatwAEMMDYCR 137 Rhodospirillum r...
ZP_00024286  64 --raelrrlydggaahPVSQALQPHl------------DALPQAEMAEMLAATEMDlaqsr-------yldeIGLLRYCR 122 Ralstonia metall...
ZP_00028278  64 --qneiaalasdspshPVSKALAAYlp----------dVKTEYPALQTLLAGFEMDldqar-------yldyPNLRRYVQ 124 Burkholderia fun...
Feature 1            #                                  ##  #   #   #                           
1EZF_A      144 Y-VAGLVGIGLSRLFSasefed--plvgedTERANSMGLFLQKTNIIRDYLEDq----------qGGREFWPQEVWsryv 210 human
1UBX        213 YkTAFYSFYLPVAAAMymvgidskeehenaKAILLEMGEYFQIQDDYLDCFGDpaltgkvgtdiqDNKCSWLVVQClqrv 292 chicken
P55351      123 Y-SAMPVGRFVLDVHGesa---------atWPASDVLCAGLQVCNHLQDCGKDfl---------nLNRVYIPRDALsasg 183 Rhizobium sp. NG...
CAA04732    144 Y-SASPVGRFVLDVHKesr---------nlWPMNDALCTALQVINHLQDCGKDyr---------mMNRIYIPSDIMeavg 204 Zymomonas mobilis
NP_274529   124 R-SANPVGRIMLALYGktd--------avcVAQSDGICTALQLVNFWQDVAVDw----------qKGRVYIPQDDLlkfg 184 Neisseria mening...
NP_519773   138 Q-VAGVAGRLAARIAGhaq--------grtLEFARLLALAEQLVHFIRNLGDDv----------rNNRVYIPVDELqrfn 198 Ralstonia solana...
NP_630831   150 L-SANPVGRLVLAVTGtst--------perIRRSDEICTALQIVEHLQDVAEDl----------gRDRIYLPAEDMkrfh 210 Streptomyces coe...
ZP_00013061 138 L-SAAPVGRYLIDLHGgsr---------agYASSDALCVALQVINHLQDCQDDfr---------vLDRVYLPADWLaaeg 198 Rhodospirillum r...
ZP_00024286 123 A-SGGTFGKLTARVLGhtd--------prtLDAAEQLGLSLQRVRIVKDIGGDa----------rHGRIYIPVDTLqrle 183 Ralstonia metall...
ZP_00028278 125 G-VGGTFASLVARATAkda--------aqaSNWSAPLGEALMLAQFVVETGHDa----------rHGRIYIPIDEMqrfn 185 Burkholderia fun...
Feature 1                                                                                
1EZF_A      211 kklgdfa--------------kpenidlavqcLNELITNALHHIPDVITYlsrlrnqsvfnFCAIPQVMAIAT 269 human
1UBX        293 tpeqrqllednygrkepekvakvkelyeavgmRAAFQQYEESSYRRLQELiekhsnrlpkeIFLGLAQKIYKR 365 chicken
P55351      184 asieelg--------------aaksslqmlqcLRSLAAKAEVLLNGGGALvsqvk-dfrlrFEVSVILSFADK 241 Rhizobium sp. NGR234
CAA04732    205 atagdlg--------------cfhaslplrqaIETAALKTKSLLKRSSSFsvaih-dkrlgVEVAVIQRLAES 262 Zymomonas mobilis
NP_274529   185 vseeqia--------------agradaafqrlMAYECRRAFRMLKAGSPLareln--grigLELRMIVLGAQL 241 Neisseria meningitidis ...
NP_519773   199 vpaadlf--------------nrrysdgfkalMGFQAERARATHREALAAlpaed--rraqRPALIRGVLAMR 255 Ralstonia solanacearum
NP_630831   211 vqeadla--------------apsanasvralIAYEAARARDLLNEGAPLvgsvh--grlrLLLAGFVAGGRA 267 Streptomyces coelicolor...
ZP_00013061 199 asvsdld--------------raactpglrrvLDRCLEGTRRLLDAARPLpgdii-drrlgLEAAVIVSIAQT 256 Rhodospirillum rubrum
ZP_00024286 184 vpaadil--------------qsrhsdrfvalMREQATQARALYGEALAAlprad--rrsqRAQLAFAAIQHA 240 Ralstonia metallidurans
ZP_00028278 186 vtaadli--------------nrkyteaftelMRFETKRARDALQSALGAvpgse--rrtqRTLVAQAALASA 242 Burkholderia fungorum

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