Citrus Sinensis ID: 026139

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240---
MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASEIL
ccccccccHHHHHHHHHHccccccccHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHcccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHcHHHHHHHHHHHcc
cccccHHHHHHHHHHHHHcccccccHcHHHHHHHHHHccccccccccccHHHHccHHcHHHHHHHHHHHHHHHHHHHHHcEEccHHHHHHHHHHHHHHHcccHEHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHccccccHHHHccccHHHHHHHHHHc
MVVAEVPKLASAAEYFFKMgvegkrfrPTVLLLMATALnvrvpeplhdgvEDALATELRTRQQCIAEITEMIHVASLLhddvlddadtrrgigslnFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGetmqmttssdqrcsmdyYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLdftgtsaslgkgslsdiRHVIYLSLLFIASEIL
mvvaevpklasaAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVtgetmqmttssdqrcsMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSAslgkgslsdirHVIYLSLLFIASEIL
MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNtevvtllatvvehlvtGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASEIL
********LASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTT**DQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIA****
**VAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASEIL
MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASEIL
*VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASEIL
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASEIL
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query243 2.2.26 [Sep-21-2011]
Q5HZ00422 Solanesyl diphosphate syn no no 0.995 0.573 0.794 1e-108
Q653T6430 Solanesyl-diphosphate syn yes no 0.991 0.560 0.767 1e-104
Q7S565449 Probable hexaprenyl pyrop N/A no 0.901 0.487 0.459 2e-51
Q33DR2409 Decaprenyl-diphosphate sy yes no 0.860 0.511 0.461 3e-50
Q5T2R2415 Decaprenyl-diphosphate sy yes no 0.860 0.503 0.452 6e-49
Q54VJ9456 Decaprenyl-diphosphate sy yes no 0.827 0.440 0.429 3e-47
P72580323 Prenyl transferase OS=Syn N/A no 0.868 0.653 0.436 5e-47
Q6CBH3452 Probable hexaprenyl pyrop yes no 0.901 0.484 0.391 9e-45
Q0INZ4372 Probable solanesyl-diphos no no 0.880 0.575 0.422 9e-45
Q75HZ9403 Solanesyl-diphosphate syn no no 0.880 0.531 0.418 2e-44
>sp|Q5HZ00|SPS3_ARATH Solanesyl diphosphate synthase 3, chloroplastic/mitochondrial OS=Arabidopsis thaliana GN=SPS3 PE=1 SV=1 Back     alignment and function desciption
 Score =  392 bits (1006), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 193/243 (79%), Positives = 217/243 (89%), Gaps = 1/243 (0%)

Query: 1   MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
           MV+AEVPKLASAAEYFFK GV+GK+FR T+LLLMATALNVRVPE L     D + +ELR 
Sbjct: 102 MVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRV 161

Query: 61  RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
           RQ+ IAEITEMIHVASLLHDDVLDDADTRRG+GSLN VMGNK++VLAGDFLLSRAC ALA
Sbjct: 162 RQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALA 221

Query: 121 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
           +LKNTEVV LLAT VEHLVTGETM++T+S++QR SMDYYMQKTYYKTASLISNSCKA+A+
Sbjct: 222 ALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAV 281

Query: 181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-VIYLSLLFIA 239
           L GQTAEVA+LAF+YG+NLGLA+QLIDD+LDFTGTSASLGKGSLSDIRH VI   +LF  
Sbjct: 282 LTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAM 341

Query: 240 SEI 242
            E 
Sbjct: 342 EEF 344
May be involved in the supply of solanesyl diphosphate for ubiquinone-9 biosynthesis in mitochondria. Synthesizes C25 to C45 medium / long-chain products depending on the type of substrate available. Can use geranyl diphosphate, farnesyl diphosphate or geranylgeranyl diphosphate as substrates, but not dimethylallyl diphosphate.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 8EC: 5
>sp|Q653T6|SPS1_ORYSJ Solanesyl-diphosphate synthase 1, mitochondrial OS=Oryza sativa subsp. japonica GN=SPS1 PE=1 SV=1 Back     alignment and function description
>sp|Q7S565|COQ1_NEUCR Probable hexaprenyl pyrophosphate synthase, mitochondrial OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=NCU02305 PE=3 SV=1 Back     alignment and function description
>sp|Q33DR2|DPS1_MOUSE Decaprenyl-diphosphate synthase subunit 1 OS=Mus musculus GN=Pdss1 PE=1 SV=1 Back     alignment and function description
>sp|Q5T2R2|DPS1_HUMAN Decaprenyl-diphosphate synthase subunit 1 OS=Homo sapiens GN=PDSS1 PE=1 SV=1 Back     alignment and function description
>sp|Q54VJ9|DPS1_DICDI Decaprenyl-diphosphate synthase OS=Dictyostelium discoideum GN=coq1 PE=3 SV=1 Back     alignment and function description
>sp|P72580|PREA_SYNY3 Prenyl transferase OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=preA PE=3 SV=2 Back     alignment and function description
>sp|Q6CBH3|COQ1_YARLI Probable hexaprenyl pyrophosphate synthase, mitochondrial OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=COQ1 PE=3 SV=1 Back     alignment and function description
>sp|Q0INZ4|SPS3_ORYSJ Probable solanesyl-diphosphate synthase 3, chloroplastic (Fragment) OS=Oryza sativa subsp. japonica GN=SPS3 PE=3 SV=1 Back     alignment and function description
>sp|Q75HZ9|SPS2_ORYSJ Solanesyl-diphosphate synthase 2, chloroplastic OS=Oryza sativa subsp. japonica GN=SPS2 PE=1 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query243
27261729 426 geranylgeranyl diphosphate synthase [Cit 0.991 0.565 0.958 1e-130
11322972321 geranyl diphosphate synthase [Citrus sin 0.991 0.750 0.954 1e-130
255578548 417 geranylgeranyl pyrophosphate synthase, p 0.991 0.577 0.883 1e-119
164605004330 geranyl-diphosphate synthase [Hevea bras 0.971 0.715 0.885 1e-118
343466169 423 geranyl diphosphate synthase [Siraitia g 0.995 0.572 0.868 1e-117
350538483 415 geranyl pyrophosphate synthase [Solanum 0.991 0.580 0.858 1e-115
359489044 422 PREDICTED: decaprenyl-diphosphate syntha 0.995 0.573 0.851 1e-115
449433571 423 PREDICTED: solanesyl diphosphate synthas 0.995 0.572 0.847 1e-115
12055493 416 geranyl diphosphat synthase [Quercus rob 0.995 0.581 0.855 1e-115
224068584321 predicted protein [Populus trichocarpa] 0.991 0.750 0.858 1e-114
>gi|27261729|gb|AAN86061.1| geranylgeranyl diphosphate synthase [Citrus unshiu] Back     alignment and taxonomy information
 Score =  470 bits (1209), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 232/242 (95%), Positives = 235/242 (97%), Gaps = 1/242 (0%)

Query: 1   MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
           MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT
Sbjct: 106 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 165

Query: 61  RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
           RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA
Sbjct: 166 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 225

Query: 121 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
           SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL
Sbjct: 226 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 285

Query: 181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-VIYLSLLFIA 239
           LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDI+H +I   +LF  
Sbjct: 286 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIQHGIITAPILFAM 345

Query: 240 SE 241
            E
Sbjct: 346 EE 347

Source: Citrus unshiu

Species: Citrus unshiu

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|11322972|emb|CAC16851.1| geranyl diphosphate synthase [Citrus sinensis] Back     alignment and taxonomy information
>gi|255578548|ref|XP_002530137.1| geranylgeranyl pyrophosphate synthase, putative [Ricinus communis] gi|223530362|gb|EEF32253.1| geranylgeranyl pyrophosphate synthase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|164605004|dbj|BAF98298.1| geranyl-diphosphate synthase [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|343466169|gb|AEM42978.1| geranyl diphosphate synthase [Siraitia grosvenorii] Back     alignment and taxonomy information
>gi|350538483|ref|NP_001234089.1| geranyl pyrophosphate synthase [Solanum lycopersicum] gi|82659078|gb|ABB88703.1| geranyl pyrophosphate synthase [Solanum lycopersicum] Back     alignment and taxonomy information
>gi|359489044|ref|XP_002268229.2| PREDICTED: decaprenyl-diphosphate synthase subunit 1 [Vitis vinifera] gi|296090181|emb|CBI40000.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|449433571|ref|XP_004134571.1| PREDICTED: solanesyl diphosphate synthase 3, chloroplastic/mitochondrial-like [Cucumis sativus] gi|449490572|ref|XP_004158644.1| PREDICTED: solanesyl diphosphate synthase 3, chloroplastic/mitochondrial-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|12055493|emb|CAC20852.1| geranyl diphosphat synthase [Quercus robur] Back     alignment and taxonomy information
>gi|224068584|ref|XP_002326151.1| predicted protein [Populus trichocarpa] gi|222833344|gb|EEE71821.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query243
TAIR|locus:2062315422 GPS1 "geranyl diphosphate synt 0.991 0.571 0.739 1.6e-88
ASPGD|ASPL0000038406456 AN10340 [Emericella nidulans ( 0.683 0.364 0.508 6.7e-43
ZFIN|ZDB-GENE-030131-4430411 pdss1 "prenyl (decaprenyl) dip 0.860 0.508 0.429 4e-42
UNIPROTKB|E1BZW8366 PDSS1 "Uncharacterized protein 0.884 0.587 0.409 1.2e-40
UNIPROTKB|F1RTW8410 PDSS1 "Uncharacterized protein 0.860 0.509 0.434 1.6e-40
MGI|MGI:1889278409 Pdss1 "prenyl (solanesyl) diph 0.860 0.511 0.425 1.6e-40
UNIPROTKB|F1PV51365 PDSS1 "Uncharacterized protein 0.860 0.572 0.429 3.3e-40
UNIPROTKB|F6RJN8418 PDSS1 "Uncharacterized protein 0.860 0.5 0.420 5.3e-40
SGD|S000000207 473 COQ1 "Hexaprenyl pyrophosphate 0.440 0.226 0.472 6.5e-40
UNIPROTKB|Q5T2R2415 PDSS1 "Decaprenyl-diphosphate 0.860 0.503 0.420 8.7e-40
TAIR|locus:2062315 GPS1 "geranyl diphosphate synthase 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 884 (316.2 bits), Expect = 1.6e-88, P = 1.6e-88
 Identities = 179/242 (73%), Positives = 203/242 (83%)

Query:     1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
             MV+AEVPKLASAAEYFFK GV+GK+FR T+LLLMATALNVRVPE L     D + +ELR 
Sbjct:   102 MVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRV 161

Query:    61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
             RQ+ IAEITEMIHVASLLHDDVLDDADTRRG+GSLN VMGNK++VLAGDFLLSRAC ALA
Sbjct:   162 RQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALA 221

Query:   121 SLKNXXXXXXXXXXXXXXXXGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
             +LKN                GETM++T+S++QR SMDYYMQKTYYKTASLISNSCKA+A+
Sbjct:   222 ALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAV 281

Query:   181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-VIYLSLLFIA 239
             L GQTAEVA+LAF+YG+NLGLA+QLIDD+LDFTGTSASLGKGSLSDIRH VI   +LF  
Sbjct:   282 LTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAM 341

Query:   240 SE 241
              E
Sbjct:   342 EE 343
GO:0005739 "mitochondrion" evidence=ISM;IDA
GO:0008299 "isoprenoid biosynthetic process" evidence=IEA
GO:0004161 "dimethylallyltranstransferase activity" evidence=IGI;IDA
GO:0009507 "chloroplast" evidence=IDA
GO:0009536 "plastid" evidence=IDA
GO:0009790 "embryo development" evidence=IMP
GO:0004659 "prenyltransferase activity" evidence=IDA
GO:0006744 "ubiquinone biosynthetic process" evidence=IMP
GO:0050347 "trans-octaprenyltranstransferase activity" evidence=IMP
ASPGD|ASPL0000038406 AN10340 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-4430 pdss1 "prenyl (decaprenyl) diphosphate synthase, subunit 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E1BZW8 PDSS1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1RTW8 PDSS1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:1889278 Pdss1 "prenyl (solanesyl) diphosphate synthase, subunit 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1PV51 PDSS1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F6RJN8 PDSS1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
SGD|S000000207 COQ1 "Hexaprenyl pyrophosphate synthetase" [Saccharomyces cerevisiae (taxid:4932)] Back     alignment and assigned GO terms
UNIPROTKB|Q5T2R2 PDSS1 "Decaprenyl-diphosphate synthase subunit 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q653T6SPS1_ORYSJ2, ., 5, ., 1, ., 8, 40.76760.99170.5604yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer2.5.10.691

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query243
PLN02890422 PLN02890, PLN02890, geranyl diphosphate synthase 1e-156
cd00685259 cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphat 4e-68
TIGR02749322 TIGR02749, prenyl_cyano, solanesyl diphosphate syn 7e-68
CHL00151323 CHL00151, preA, prenyl transferase; Reviewed 2e-63
PLN02857416 PLN02857, PLN02857, octaprenyl-diphosphate synthas 1e-62
COG0142322 COG0142, IspA, Geranylgeranyl pyrophosphate syntha 2e-56
cd00867236 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate S 5e-46
pfam00348260 pfam00348, polyprenyl_synt, Polyprenyl synthetase 2e-45
PRK10888323 PRK10888, PRK10888, octaprenyl diphosphate synthas 1e-37
TIGR02748319 TIGR02748, GerC3_HepT, heptaprenyl diphosphate syn 6e-36
cd00385243 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynth 2e-33
PRK10581299 PRK10581, PRK10581, geranyltranstransferase; Provi 4e-15
>gnl|CDD|178478 PLN02890, PLN02890, geranyl diphosphate synthase Back     alignment and domain information 
 Score =  441 bits (1135), Expect = e-156
 Identities = 205/242 (84%), Positives = 223/242 (92%), Gaps = 1/242 (0%)

Query: 1   MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
           MVVAEVPKLASAAEYFFK+GVEGKRFRPTVLLLMATALNV +PE    GV D +A+ELRT
Sbjct: 102 MVVAEVPKLASAAEYFFKVGVEGKRFRPTVLLLMATALNVPLPESTEGGVLDIVASELRT 161

Query: 61  RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
           RQQ IAEITEMIHVASLLHDDVLDDADTRRG+GSLN VMGNKL+VLAGDFLLSRACVALA
Sbjct: 162 RQQNIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALA 221

Query: 121 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
           +LKNTEVV+LLAT VEHLVTGETMQ+T+S +QR SMDYYMQKTYYKTASLISNSCKA+A+
Sbjct: 222 ALKNTEVVSLLATAVEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAI 281

Query: 181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-VIYLSLLFIA 239
           LAGQTAEVA+LAF+YG+NLGLA+QLIDDVLDFTGTSASLGKGSLSDIRH VI   +LF  
Sbjct: 282 LAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGTSASLGKGSLSDIRHGVITAPILFAM 341

Query: 240 SE 241
            E
Sbjct: 342 EE 343

Length = 422
>gnl|CDD|173833 cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphate Synthases, head-to-tail Back     alignment and domain information
>gnl|CDD|131796 TIGR02749, prenyl_cyano, solanesyl diphosphate synthase Back     alignment and domain information
>gnl|CDD|164542 CHL00151, preA, prenyl transferase; Reviewed Back     alignment and domain information
>gnl|CDD|215462 PLN02857, PLN02857, octaprenyl-diphosphate synthase Back     alignment and domain information
>gnl|CDD|223220 COG0142, IspA, Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism] Back     alignment and domain information
>gnl|CDD|173836 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate Synthases Back     alignment and domain information
>gnl|CDD|215873 pfam00348, polyprenyl_synt, Polyprenyl synthetase Back     alignment and domain information
>gnl|CDD|182813 PRK10888, PRK10888, octaprenyl diphosphate synthase; Provisional Back     alignment and domain information
>gnl|CDD|131795 TIGR02748, GerC3_HepT, heptaprenyl diphosphate synthase component II Back     alignment and domain information
>gnl|CDD|173830 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynthesis enzymes, Class 1 Back     alignment and domain information
>gnl|CDD|182567 PRK10581, PRK10581, geranyltranstransferase; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 243
PLN02890422 geranyl diphosphate synthase 100.0
TIGR02749322 prenyl_cyano solanesyl diphosphate synthase. Membe 100.0
COG0142322 IspA Geranylgeranyl pyrophosphate synthase [Coenzy 100.0
TIGR02748319 GerC3_HepT heptaprenyl diphosphate synthase compon 100.0
PRK10888323 octaprenyl diphosphate synthase; Provisional 100.0
CHL00151323 preA prenyl transferase; Reviewed 100.0
PLN02857416 octaprenyl-diphosphate synthase 100.0
PRK10581299 geranyltranstransferase; Provisional 100.0
cd00685259 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthase 100.0
PF00348260 polyprenyl_synt: Polyprenyl synthetase; InterPro: 100.0
KOG0776384 consensus Geranylgeranyl pyrophosphate synthase/Po 100.0
cd00867236 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. 100.0
KOG0777322 consensus Geranylgeranyl pyrophosphate synthase/Po 100.0
KOG0711347 consensus Polyprenyl synthetase [Coenzyme transpor 100.0
cd00385243 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzym 99.91
PF07307212 HEPPP_synt_1: Heptaprenyl diphosphate synthase (HE 98.12
TIGR01559 336 squal_synth farnesyl-diphosphate farnesyltransfera 96.51
PF00494267 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR 96.1
cd00683265 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthase 95.77
PLN02632334 phytoene synthase 95.65
TIGR03464266 HpnC squalene synthase HpnC. This family of genes 95.53
TIGR03465266 HpnD squalene synthase HpnD. The genes of this fam 94.57
cd00687303 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cycl 93.15
PRK12884279 ubiA prenyltransferase; Reviewed 90.12
cd00868284 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terp 85.66
PRK12882276 ubiA prenyltransferase; Reviewed 85.25
>PLN02890 geranyl diphosphate synthase Back     alignment and domain information 
Probab=100.00  E-value=2.4e-62  Score=446.22  Aligned_cols=241  Identities=83%  Similarity=1.163  Sum_probs=216.3

Q ss_pred             CCCCchhHHHHHHHHHhCCCCCCchHHHHHHHHHHhcCCCCCCCCCCCchhhHhhHhHHHHHHHHHHHHHHHHHHHHHhh
Q 026139            2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDD   81 (243)
Q Consensus         2 ~~~~~~~l~~~~~y~~~~g~~GK~~Rp~l~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lA~aiEliH~asLIhDD   81 (243)
                      +.+..|.+.++++|++..|.+|||+||+|++++++++|.+.++..+....+..+.+..++++.+|+++|+||+|||||||
T Consensus       103 v~~~~~~l~~a~~y~~~~G~~GKrlRP~LvLL~a~a~g~~~~~~~~~~~~~~~~~~~~~~~~~~AaavEliH~ASLVHDD  182 (422)
T PLN02890        103 VVAEVPKLASAAEYFFKVGVEGKRFRPTVLLLMATALNVPLPESTEGGVLDIVASELRTRQQNIAEITEMIHVASLLHDD  182 (422)
T ss_pred             HccCChHHHHHHHHHHhCCCCCccHhHHHHHHHHHHcCCCcccccccccchhhccchhhhHHHHHHHHHHHHHHHHHHcc
Confidence            45678999999999998766799999999999999998653221000000001123456789999999999999999999


Q ss_pred             ccCCCCCCCCCCchhhhhchHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhHHhhcccCCCCCCHHHHHH
Q 026139           82 VLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQ  161 (243)
Q Consensus        82 I~D~s~~RRg~pt~~~~~G~~~Ail~Gd~ll~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~d~~~~~~~~~~~~~y~~  161 (243)
                      |||+|++|||+||+|.+||++.||++||||+++|+..+++..+.++++.+++++..+++||++|+.+..+...++++|++
T Consensus       183 IiD~s~~RRG~pt~~~~~G~~~AIlaGD~Lla~A~~~l~~~~~~~~~~~~s~a~~~l~~Gq~ld~~~~~~~~~s~~~Yl~  262 (422)
T PLN02890        183 VLDDADTRRGVGSLNVVMGNKLSVLAGDFLLSRACVALAALKNTEVVSLLATAVEHLVTGETMQITSSREQRRSMDYYMQ  262 (422)
T ss_pred             cccCCCCcCCCcChhhhcChHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHH
Confidence            99999999999999999999999999999999999999988889999999999999999999999988777889999999


Q ss_pred             HHhhhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhHHHhhhcccCCccccCCCchhHhhcccchHHHHHHhh
Q 026139          162 KTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASE  241 (243)
Q Consensus       162 ~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~~D~~~~~~~~gk~~~~Dl~~gk~T~p~~~al~  241 (243)
                      ++.+|||+||+.||++|++++|++++..+.+++||+++|++|||+||++||+++++.+||+.++||++||+|+|++++++
T Consensus       263 ~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~g~~~~~GK~~g~DL~eGk~TlPvl~al~  342 (422)
T PLN02890        263 KTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGTSASLGKGSLSDIRHGVITAPILFAME  342 (422)
T ss_pred             HHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChhhhCCCchhhHhcCCccHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999986


Q ss_pred             c
Q 026139          242 I  242 (243)
Q Consensus       242 ~  242 (243)
                      +
T Consensus       343 ~  343 (422)
T PLN02890        343 E  343 (422)
T ss_pred             c
Confidence            3

>TIGR02749 prenyl_cyano solanesyl diphosphate synthase Back     alignment and domain information
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism] Back     alignment and domain information
>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II Back     alignment and domain information
>PRK10888 octaprenyl diphosphate synthase; Provisional Back     alignment and domain information
>CHL00151 preA prenyl transferase; Reviewed Back     alignment and domain information
>PLN02857 octaprenyl-diphosphate synthase Back     alignment and domain information
>PRK10581 geranyltranstransferase; Provisional Back     alignment and domain information
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail Back     alignment and domain information
>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms Back     alignment and domain information
>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism] Back     alignment and domain information
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases Back     alignment and domain information
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism] Back     alignment and domain information
>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism] Back     alignment and domain information
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1 Back     alignment and domain information
>PF07307 HEPPP_synt_1: Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; InterPro: IPR009920 This family contains subunit 1 of bacterial heptaprenyl diphosphate synthase (HEPPP synthase) (2 Back     alignment and domain information
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase Back     alignment and domain information
>PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2 Back     alignment and domain information
>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head Back     alignment and domain information
>PLN02632 phytoene synthase Back     alignment and domain information
>TIGR03464 HpnC squalene synthase HpnC Back     alignment and domain information
>TIGR03465 HpnD squalene synthase HpnD Back     alignment and domain information
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1 Back     alignment and domain information
>PRK12884 ubiA prenyltransferase; Reviewed Back     alignment and domain information
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1 Back     alignment and domain information
>PRK12882 ubiA prenyltransferase; Reviewed Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query243
3apz_A348 Apo Form Of Arabidopsis MediumLONG-Chain Length Pre 1e-100
3aq0_A348 Ligand-Bound Form Of Arabidopsis MediumLONG-Chain L 9e-99
3mzv_A341 Crystal Structure Of A Decaprenyl Diphosphate Synth 8e-27
3oyr_A345 Crystal Structure Of Polyprenyl Synthase From Caulo 2e-23
3aqb_B325 M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphospha 3e-23
3n3d_A335 Crystal Structure Of Geranylgeranyl Pyrophosphate S 7e-22
3pko_A334 Crystal Structure Of Geranylgeranyl Pyrophosphate S 8e-22
1wy0_A342 Crystal Structure Of Geranylgeranyl Pyrophosphate S 5e-19
3tc1_A315 Crystal Structure Of Octaprenyl Pyrophosphate Synth 2e-18
3rmg_A334 Crystal Structure Of Geranylgeranyl Pyrophosphate S 8e-17
3lmd_A360 Crystal Structure Of Geranylgeranyl Pyrophosphate S 1e-16
1vg4_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 3e-15
1v4i_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 3e-15
1wl0_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 3e-15
1v4e_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 3e-15
1wkz_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 3e-15
1v4h_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 4e-15
2azl_A299 Crystal Structure For The Mutant F117e Of Thermotog 5e-15
1vg7_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 7e-15
1vg6_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 7e-15
3ipi_A295 Crystal Structure Of A Geranyltranstransferase From 1e-14
1v4j_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 1e-14
1vg2_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 2e-14
1v4k_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 2e-14
1wl2_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 3e-14
1wl3_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 3e-14
1vg3_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 8e-14
4dhd_A358 Crystal Structure Of Isoprenoid Synthase A3msh1 (Ta 1e-13
3nf2_A352 Crystal Structure Of Polyprenyl Synthetase From Str 2e-13
3kra_A295 Mint Heterotetrameric Geranyl Pyrophosphate Synthas 7e-13
3npk_A291 The Crystal Structure Of Geranyltranstransferase Fr 5e-12
3uca_A324 Crystal Structure Of Isoprenoid Synthase (Target Ef 7e-12
3p8l_A302 Crystal Structure Of Polyprenyl Synthase From Enter 4e-11
1wl1_A299 Crystal Structure Of Octaprenyl Pyrophosphate Synth 4e-11
2ftz_A284 Crystal Structure Of Geranyltranstransferase (Ec 2. 5e-11
4f62_A317 Crystal Structure Of A Putative Farnesyl-Diphosphat 2e-10
3lom_A313 Crystal Structure Of Geranyltransferase From Legion 8e-10
3lvs_A298 Crystal Structure Of Farnesyl Diphosphate Synthase 2e-09
1rtr_A301 Crystal Structure Of S. Aureus Farnesyl Pyrophospha 3e-09
3m9u_A309 Crystal Structure Of Geranylgeranyl Pyrophosphate S 4e-09
2j1p_A293 Geranylgeranyl Diphosphate Synthase From Sinapis Al 7e-09
4fp4_A285 Crystal Structure Of Isoprenoid Synthase A3mx09 (Ta 5e-08
2azk_A289 Crystal Structure For The Mutant W136e Of Sulfolobu 1e-07
3p8r_A302 Crystal Structure Of Polyprenyl Synthase From Vibri 2e-07
3lk5_A380 Crystal Structure Of Putative Geranylgeranyl Pyroph 2e-07
1rqj_A299 Active Conformation Of Farnesyl Pyrophosphate Synth 9e-07
2for_A323 Crystal Structure Of The Shigella Flexneri Farnesyl 9e-07
1rqi_A300 Active Conformation Of Farnesyl Pyrophosphate Synth 9e-07
2azj_A289 Crystal Structure For The Mutant D81c Of Sulfolobus 2e-06
3q1o_A310 Crystal Structure Of Geranyltransferase From Helico 1e-05
3llw_A311 Crystal Structure Of Geranyltransferase From Helico 1e-05
2h8o_A335 The 1.6a Crystal Structure Of The Geranyltransferas 1e-05
3m0g_A297 Crystal Structure Of Putative Farnesyl Diphosphate 3e-05
2j1o_A268 Geranylgeranyl Diphosphate Synthase From Sinapis Al 4e-05
3p41_A303 Crystal Structure Of Polyprenyl Synthetase From Pse 2e-04
3lji_A304 Crystal Structure Of Putative Geranyltranstransfera 2e-04
1wmw_A330 Crystal Structure Of Geranulgeranyl Diphosphate Syn 3e-04
2q80_A301 Crystal Structure Of Human Geranylgeranyl Pyrophosp 5e-04
>pdb|3APZ|A Chain A, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl Pyrophosphate Synthase Length = 348 Back     alignment and structure 
Iteration: 1

 Score =  360 bits (923), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 178/242 (73%), Positives = 203/242 (83%), Gaps = 1/242 (0%)
Query: 1   MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
           MV+AEVPKLASAAEYFFK GV+GK+FR T+LLLMATAL+VRVPE L     D + +ELR 
Sbjct: 28  MVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALDVRVPEALIGESTDIVTSELRV 87
Query: 61  RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
           RQ+ IAEITEMIHVASLLHDDVLDDADTRRG+GSLN VMGNK++VLAGDFLLSRAC ALA
Sbjct: 88  RQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALA 147
Query: 121 SLKNXXXXXXXXXXXXXXXXGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
           +LKN                GETM++T+S++QR SMDYYMQKTYYKTASLISNSCKA+A+
Sbjct: 148 ALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAV 207
Query: 181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-VIYLSLLFIA 239
           L GQTAEVA+LAF+YG+NLGLA+QLIDD+LDFTGTSASLGKGSLSDIRH VI   +LF  
Sbjct: 208 LTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAM 267
Query: 240 SE 241
            E
Sbjct: 268 EE 269
>pdb|3AQ0|A Chain A, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length Prenyl Pyrophosphate Synthase (Surface Polar Residue Mutant) Length = 348 Back     alignment and structure
>pdb|3MZV|A Chain A, Crystal Structure Of A Decaprenyl Diphosphate Synthase From Rhodobacter Capsulatus Length = 341 Back     alignment and structure
>pdb|3OYR|A Chain A, Crystal Structure Of Polyprenyl Synthase From Caulobacter Crescentus Cb15 Complexed With Calcium And Isoprenyl Diphosphate Length = 345 Back     alignment and structure
>pdb|3AQB|B Chain B, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate Synthase In Complex With Magnesium Length = 325 Back     alignment and structure
>pdb|3N3D|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Lactobacillus Brevis Atcc 367 Length = 335 Back     alignment and structure
>pdb|3PKO|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Lactobacillus Brevis Atcc 367 Complexed With Citrate Length = 334 Back     alignment and structure
>pdb|1WY0|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthetase From Pyrococcus Horikoshii Ot3 Length = 342 Back     alignment and structure
>pdb|3TC1|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Helicobacter Pylori Length = 315 Back     alignment and structure
>pdb|3RMG|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Bacteroides Thetaiotaomicron Length = 334 Back     alignment and structure
>pdb|3LMD|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Corynebacterium Glutamicum Atcc 13032 Length = 360 Back     alignment and structure
>pdb|1VG4|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132aL128A MUTANT Length = 299 Back     alignment and structure
>pdb|1V4I|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132a Mutant Length = 299 Back     alignment and structure
>pdb|1WL0|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima R44a Mutant Length = 299 Back     alignment and structure
>pdb|1V4E|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima Length = 299 Back     alignment and structure
>pdb|1WKZ|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima K41a Mutant Length = 299 Back     alignment and structure
>pdb|1V4H|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F52a Mutant Length = 299 Back     alignment and structure
>pdb|2AZL|A Chain A, Crystal Structure For The Mutant F117e Of Thermotoga Maritima Octaprenyl Pyrophosphate Synthase Length = 299 Back     alignment and structure
>pdb|1VG7|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132aL128AI123AD62A MUTANT Length = 299 Back     alignment and structure
>pdb|1VG6|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132aL128AI123A MUTANT Length = 299 Back     alignment and structure
>pdb|3IPI|A Chain A, Crystal Structure Of A Geranyltranstransferase From The Methanosarcina Mazei Length = 295 Back     alignment and structure
>pdb|1V4J|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima V73y Mutant Length = 299 Back     alignment and structure
>pdb|1VG2|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima A76y Mutant Length = 299 Back     alignment and structure
>pdb|1V4K|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima S77f Mutant Length = 299 Back     alignment and structure
>pdb|1WL2|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima R90a Mutant Length = 299 Back     alignment and structure
>pdb|1WL3|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima R91a Mutant Length = 299 Back     alignment and structure
>pdb|1VG3|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima A76yS77F MUTANT Length = 299 Back     alignment and structure
>pdb|4DHD|A Chain A, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target Efi-501992) From Pyrobaculum Calidifontis Length = 358 Back     alignment and structure
>pdb|3NF2|A Chain A, Crystal Structure Of Polyprenyl Synthetase From Streptomyces Coelicolor A3(2) Length = 352 Back     alignment and structure
>pdb|3KRA|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In Complex With Magnesium Length = 295 Back     alignment and structure
>pdb|3NPK|A Chain A, The Crystal Structure Of Geranyltranstransferase From Campylobacter Jejuni Length = 291 Back     alignment and structure
>pdb|3UCA|A Chain A, Crystal Structure Of Isoprenoid Synthase (Target Efi-501974) From Clostridium Perfringens Length = 324 Back     alignment and structure
>pdb|3P8L|A Chain A, Crystal Structure Of Polyprenyl Synthase From Enterococcus Faecalis V583 Length = 302 Back     alignment and structure
>pdb|1WL1|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima H74a Mutant Length = 299 Back     alignment and structure
>pdb|2FTZ|A Chain A, Crystal Structure Of Geranyltranstransferase (Ec 2.5.1.10) (Tm0161) From Thermotoga Maritima At 1.90 A Resolution Length = 284 Back     alignment and structure
>pdb|4F62|A Chain A, Crystal Structure Of A Putative Farnesyl-Diphosphate Synthase From Marinomonas Sp. Med121 (Target Efi-501980) Length = 317 Back     alignment and structure
>pdb|3LOM|A Chain A, Crystal Structure Of Geranyltransferase From Legionella Pneumophila Length = 313 Back     alignment and structure
>pdb|3LVS|A Chain A, Crystal Structure Of Farnesyl Diphosphate Synthase From Rhodobacter Capsulatus Sb1003 Length = 298 Back     alignment and structure
>pdb|1RTR|A Chain A, Crystal Structure Of S. Aureus Farnesyl Pyrophosphate Synthase Length = 301 Back     alignment and structure
>pdb|3M9U|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Lactobacillus Brevis Atcc 367 Length = 309 Back     alignment and structure
>pdb|2J1P|A Chain A, Geranylgeranyl Diphosphate Synthase From Sinapis Alba In Complex With Ggpp Length = 293 Back     alignment and structure
>pdb|4FP4|A Chain A, Crystal Structure Of Isoprenoid Synthase A3mx09 (Target Efi-501993) From Pyrobaculum Calidifontis Length = 285 Back     alignment and structure
>pdb|2AZK|A Chain A, Crystal Structure For The Mutant W136e Of Sulfolobus Solfataricus Hexaprenyl Pyrophosphate Synthase Length = 289 Back     alignment and structure
>pdb|3P8R|A Chain A, Crystal Structure Of Polyprenyl Synthase From Vibrio Cholerae Length = 302 Back     alignment and structure
>pdb|3LK5|A Chain A, Crystal Structure Of Putative Geranylgeranyl Pyrophosphate Synthase From Corynebacterium Glutamicum Length = 380 Back     alignment and structure
>pdb|1RQJ|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase Bound To Isopentyl Pyrophosphate And Risedronate Length = 299 Back     alignment and structure
>pdb|2FOR|A Chain A, Crystal Structure Of The Shigella Flexneri Farnesyl Pyrophosphate Synthase Complex With An Isopentenyl Pyrophosphate Length = 323 Back     alignment and structure
>pdb|1RQI|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase Bound To Isopentyl Pyrophosphate And Dimethylallyl S- Thiolodiphosphate Length = 300 Back     alignment and structure
>pdb|2AZJ|A Chain A, Crystal Structure For The Mutant D81c Of Sulfolobus Solfataricus Hexaprenyl Pyrophosphate Synthase Length = 289 Back     alignment and structure
>pdb|3Q1O|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter Pylori Complexed With Magnesium And Isoprenyl Diphosphate Length = 310 Back     alignment and structure
>pdb|3LLW|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter Pylori 26695 Length = 311 Back     alignment and structure
>pdb|2H8O|A Chain A, The 1.6a Crystal Structure Of The Geranyltransferase From Agrobacterium Tumefaciens Length = 335 Back     alignment and structure
>pdb|3M0G|A Chain A, Crystal Structure Of Putative Farnesyl Diphosphate Synthase From Rhodobacter Capsulatus Length = 297 Back     alignment and structure
>pdb|2J1O|A Chain A, Geranylgeranyl Diphosphate Synthase From Sinapis Alba Length = 268 Back     alignment and structure
>pdb|3P41|A Chain A, Crystal Structure Of Polyprenyl Synthetase From Pseudomonas Fluorescens Pf-5 Complexed With Magnesium And Isoprenyl Pyrophosphate Length = 303 Back     alignment and structure
>pdb|3LJI|A Chain A, Crystal Structure Of Putative Geranyltranstransferase From Pseudomonas Fluorescens Pf-5 Length = 304 Back     alignment and structure
>pdb|1WMW|A Chain A, Crystal Structure Of Geranulgeranyl Diphosphate Synthase From Thermus Thermophilus Length = 330 Back     alignment and structure
>pdb|2Q80|A Chain A, Crystal Structure Of Human Geranylgeranyl Pyrophosphate Synthase Bound To Ggpp Length = 301 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query243
3apz_A348 Geranyl diphosphate synthase; prenyltransferase, a 1e-108
3pko_A334 Geranylgeranyl pyrophosphate synthase; isoprenyl d 1e-68
3aqb_B325 Component B of hexaprenyl diphosphate synthase; pr 3e-67
3oyr_A345 Trans-isoprenyl diphosphate synthase; isoprenyl sy 8e-65
3rmg_A334 Octaprenyl-diphosphate synthase; structural genomi 2e-64
3mzv_A341 Decaprenyl diphosphate synthase; transferase, stru 1e-62
3lmd_A360 Geranylgeranyl pyrophosphate synthase; isoprenyl d 7e-62
3tc1_A315 Octaprenyl pyrophosphate synthase; all alpha-helic 5e-61
1v4e_A299 Octoprenyl-diphosphate synthase; trans-type prenyl 2e-60
3ipi_A295 Geranyltranstransferase; isoprene biosynthesis, he 4e-59
1wy0_A342 Geranylgeranyl pyrophosphate synthetase; pyrococcu 4e-56
2q80_A301 Geranylgeranyl pyrophosphate synthetase; isoprenoi 2e-55
2azj_A289 Geranylgeranyl pyrophosphate synthetase; hexpps, t 8e-55
3nf2_A352 Putative polyprenyl synthetase; isoprenyl diphosph 5e-54
4dhd_A358 Polyprenyl synthetase; isoprenoid synthesis, isopr 9e-54
4fp4_A285 Polyprenyl synthetase; isoprenoid synthesis, isopr 4e-53
1wmw_A330 Geranylgeranyl diphosphate synthetase; GGPP, preny 1e-48
2e8v_A340 Geranylgeranyl pyrophosphate synthetase; prenyltra 3e-48
3lk5_A380 Geranylgeranyl pyrophosphate synthase; structural 3e-44
1uby_A367 FPS, farnesyl diphosphate synthase; transferase, i 1e-38
2her_A368 Fragment, farnesyl pyrophosphate synthase; farnesy 7e-36
3dyh_A390 Farnesyl pyrophosphate synthase; protein-bisphosph 3e-33
2ihi_A395 Pyrophosphate synthase; PV092040, structural genom 8e-33
2qis_A374 Farnesyl pyrophosphate synthetase; trans-prenyltra 2e-32
1yhl_A362 Farnesyl pyrophosphate synthase; farnesyl diphosph 3e-32
3llw_A311 Geranyltranstransferase (ISPA); structural genomic 3e-31
3npk_A291 Geranyltranstransferase; isoprene biosynthesis, SG 1e-29
2h8o_A335 Geranyltranstransferase; geranyltransferase,agroba 3e-28
3uca_A324 Geranyltranstransferase; isoprenoid synthesis, iso 4e-28
4f62_A317 Geranyltranstransferase; enzyme function initiativ 5e-28
1rtr_A301 Geranyltranstransferase; 2.50A {Staphylococcus aur 8e-28
3lom_A313 Geranyltranstransferase; geranyltransferase, struc 1e-27
3ts7_A324 Geranyltranstransferase; isoprenoid synthesis, far 2e-27
3lsn_A304 Geranyltranstransferase; structural genomics, prot 3e-27
3p8r_A302 Geranyltranstransferase; isoprenyl synthase, struc 4e-27
3p8l_A302 Geranyltranstransferase; isoprenyl synthase, struc 5e-27
1rqj_A299 Geranyltranstransferase; bisphosphonate, isoprenyl 6e-27
3pde_A309 Farnesyl-diphosphate synthase; isoprenyl diphospha 7e-27
3m0g_A297 Farnesyl diphosphate synthase; structural genomics 4e-26
3qkc_B273 Geranyl diphosphate synthase small subunit; struct 3e-25
2j1p_A293 Geranylgeranyl pyrophosphate synthetase; transfera 3e-24
2ftz_A284 Geranyltranstransferase; TM0161, structural GE joi 5e-21
3kra_B274 Geranyl diphosphate synthase small subunit; prenyl 1e-20
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-11
>3apz_A Geranyl diphosphate synthase; prenyltransferase, all alpha-helices fold, chroloplast, TRAN isoprenoid biosynthetic process; 2.60A {Arabidopsis thaliana} PDB: 3aq0_A* Length = 348 Back     alignment and structure
 Score =  315 bits (809), Expect = e-108
 Identities = 187/229 (81%), Positives = 211/229 (92%)

Query: 1   MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
           MV+AEVPKLASAAEYFFK GV+GK+FR T+LLLMATAL+VRVPE L     D + +ELR 
Sbjct: 28  MVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALDVRVPEALIGESTDIVTSELRV 87

Query: 61  RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
           RQ+ IAEITEMIHVASLLHDDVLDDADTRRG+GSLN VMGNK++VLAGDFLLSRAC ALA
Sbjct: 88  RQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALA 147

Query: 121 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
           +LKNTEVV LLAT VEHLVTGETM++T+S++QR SMDYYMQKTYYKTASLISNSCKA+A+
Sbjct: 148 ALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAV 207

Query: 181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH 229
           L GQTAEVA+LAF+YG+NLGLA+QLIDD+LDFTGTSASLGKGSLSDIRH
Sbjct: 208 LTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRH 256
>3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus brevis} PDB: 3n3d_A Length = 334 Back     alignment and structure
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B* Length = 325 Back     alignment and structure
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} Length = 345 Back     alignment and structure
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron} Length = 334 Back     alignment and structure
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} Length = 341 Back     alignment and structure
>3lmd_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, protein structure initiative, nysgrc; 1.90A {Corynebacterium glutamicum} PDB: 3q2q_A* Length = 360 Back     alignment and structure
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori} Length = 315 Back     alignment and structure
>1v4e_A Octoprenyl-diphosphate synthase; trans-type prenyltransferase, thermophilic; 2.28A {Thermotoga maritima} SCOP: a.128.1.1 PDB: 1v4j_A 1wkz_A 1vg2_A 1wl3_A 1wl0_A 1wl2_A 1v4h_A 1v4i_A 1v4k_A 2azl_A 1wl1_A 1vg4_A 1vg3_A 1vg6_A 1vg7_A Length = 299 Back     alignment and structure
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle, protein structure initiative II (PSI II), structural genomics, nysgxrc; 1.90A {Methanosarcina mazei} Length = 295 Back     alignment and structure
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii} Length = 342 Back     alignment and structure
>2q80_A Geranylgeranyl pyrophosphate synthetase; isoprenoid pathway, isopentenyl transferase, structural GENO structural genomics consortium, SGC; HET: GRG; 2.70A {Homo sapiens} SCOP: a.128.1.1 Length = 301 Back     alignment and structure
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_A Length = 289 Back     alignment and structure
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; 2.20A {Streptomyces coelicolor} Length = 352 Back     alignment and structure
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; 1.65A {Pyrobaculum calidifontis} Length = 358 Back     alignment and structure
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum calidifontis} Length = 285 Back     alignment and structure
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate synthase, structural genom riken structural genomics/proteomics initiative; 1.55A {Thermus thermophilus} Length = 330 Back     alignment and structure
>2e8v_A Geranylgeranyl pyrophosphate synthetase; prenyltransferase, farnesyl pyrophosphate, bisphosphonate; HET: GRG; 1.80A {Saccharomyces cerevisiae} PDB: 2e8t_A* 2e8u_A* 2dh4_A* 2e8w_A* 2e8x_A* 2e90_A* 2e91_A* 2e92_A* 2e93_A* 2e94_A* 2e95_A* 2z4v_A* 2z4w_A* 2z4x_A* 2z4y_A* 2z4z_A* 2z50_A* 2z52_A* 2z78_A* 2z7h_A* ... Length = 340 Back     alignment and structure
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein structure initiative, geranylge pyrophosphate synthase; 1.90A {Corynebacterium glutamicum} PDB: 3qqv_A* Length = 380 Back     alignment and structure
>1uby_A FPS, farnesyl diphosphate synthase; transferase, isoprene biosynthesis, cholesterol biosynthesis; HET: DMA; 2.40A {Gallus gallus} SCOP: a.128.1.1 PDB: 1ubw_A* 1ubv_A* 1ubx_A* 1fps_A Length = 367 Back     alignment and structure
>3dyh_A Farnesyl pyrophosphate synthase; protein-bisphosphonate complex, isoprene biosynthesis, transferase; HET: 721; 1.94A {Trypanosoma brucei} PDB: 2ewg_A* 2i19_A* 2p1c_A* 3dyf_A* 3dyg_A* 2ogd_A* 3efq_A* 3egt_A* Length = 390 Back     alignment and structure
>2qis_A Farnesyl pyrophosphate synthetase; trans-prenyltransferase, structural genomics, structural GEN consortium, SGC, transferase; HET: RIS; 1.80A {Homo sapiens} PDB: 4dem_F* 1yv5_A* 1yq7_A* 2opm_A* 2opn_A* 3cp6_A* 2rah_A* 2vf6_A* 1zw5_A* 3b7l_A* 3s4j_A* 3rye_A* 3n45_F* 2f89_F* 2f7m_F* 2f8z_F* 2f8c_F* 2f92_F* 2f9k_F* 3n1v_F* ... Length = 374 Back     alignment and structure
>1yhl_A Farnesyl pyrophosphate synthase; farnesyl diphosphate synthase, bisphosphonate, dimethyl ALLY pyrophosphate sulfate, FPPS, transferase; HET: DMA RIS; 1.95A {Trypanosoma cruzi} PDB: 1yhk_A* 1yhm_A* 3iba_A* 3ick_A* 3icm_A* 3icn_A* 3icz_A* 3id0_A* Length = 362 Back     alignment and structure
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Helicobacter pylori} PDB: 3q1o_A* Length = 311 Back     alignment and structure
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural genomics protein structure initiative; 1.50A {Campylobacter jejuni} Length = 291 Back     alignment and structure
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium tumefaciens, structural GEN PSI-2, protein structure initiative; 1.60A {Agrobacterium tumefaciens} Length = 335 Back     alignment and structure
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid diphosphate synthase; 2.00A {Clostridium perfringens} Length = 324 Back     alignment and structure
>4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP} Length = 317 Back     alignment and structure
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1 Length = 301 Back     alignment and structure
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp} Length = 313 Back     alignment and structure
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus} Length = 324 Back     alignment and structure
>3lsn_A Geranyltranstransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgxrc; HET: MSE; 1.35A {Pseudomonas fluorescens} PDB: 3lji_A* 3p41_A* Length = 304 Back     alignment and structure
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.50A {Vibrio cholerae} Length = 302 Back     alignment and structure
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis} Length = 302 Back     alignment and structure
>1rqj_A Geranyltranstransferase; bisphosphonate, isoprenyl synthase; HET: IPR RIS; 1.95A {Escherichia coli} SCOP: a.128.1.1 PDB: 1rqi_A* 2for_A* Length = 299 Back     alignment and structure
>3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative; HET: IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A* Length = 309 Back     alignment and structure
>3m0g_A Farnesyl diphosphate synthase; structural genomics, protein structure initiative, NYSGXRC, biosynthesis, transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB: 3lvs_A Length = 297 Back     alignment and structure
>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus} Length = 273 Back     alignment and structure
>2j1p_A Geranylgeranyl pyrophosphate synthetase; transferase, isoprene biosynthesis, multifunctional enzyme, carotenoid biosynthesis; HET: GRG; 1.8A {Sinapis alba} PDB: 2j1o_A 3kra_A 3krc_A* 3krf_A* 3kro_A* 3krp_A* 3oab_A* 3oac_A* Length = 293 Back     alignment and structure
>2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MLY; 1.90A {Thermotoga maritima} Length = 284 Back     alignment and structure
>3kra_B Geranyl diphosphate synthase small subunit; prenyltransferase, isoprene biosynthesis, isoprenyl pyrophosphate synthase, transferase; 1.90A {Mentha x piperita} PDB: 3krc_B* 3krf_B* 3kro_B* 3krp_B* 3oab_B* 3oac_B* Length = 274 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query243
3oyr_A345 Trans-isoprenyl diphosphate synthase; isoprenyl sy 100.0
3mzv_A341 Decaprenyl diphosphate synthase; transferase, stru 100.0
3nf2_A352 Putative polyprenyl synthetase; isoprenyl diphosph 100.0
3rmg_A334 Octaprenyl-diphosphate synthase; structural genomi 100.0
1wy0_A342 Geranylgeranyl pyrophosphate synthetase; pyrococcu 100.0
3aqb_B325 Component B of hexaprenyl diphosphate synthase; pr 100.0
3apz_A348 Geranyl diphosphate synthase; prenyltransferase, a 100.0
3pko_A334 Geranylgeranyl pyrophosphate synthase; isoprenyl d 100.0
3lmd_A360 Geranylgeranyl pyrophosphate synthase; isoprenyl d 100.0
3p8l_A302 Geranyltranstransferase; isoprenyl synthase, struc 100.0
3pde_A309 Farnesyl-diphosphate synthase; isoprenyl diphospha 100.0
4dhd_A358 Polyprenyl synthetase; isoprenoid synthesis, isopr 100.0
1wmw_A330 Geranylgeranyl diphosphate synthetase; GGPP, preny 100.0
1rtr_A301 Geranyltranstransferase; 2.50A {Staphylococcus aur 100.0
3uca_A324 Geranyltranstransferase; isoprenoid synthesis, iso 100.0
1v4e_A299 Octoprenyl-diphosphate synthase; trans-type prenyl 100.0
2e8v_A340 Geranylgeranyl pyrophosphate synthetase; prenyltra 100.0
3ts7_A324 Geranyltranstransferase; isoprenoid synthesis, far 100.0
4f62_A317 Geranyltranstransferase; enzyme function initiativ 100.0
2q80_A301 Geranylgeranyl pyrophosphate synthetase; isoprenoi 100.0
2h8o_A335 Geranyltranstransferase; geranyltransferase,agroba 100.0
3lsn_A304 Geranyltranstransferase; structural genomics, prot 100.0
1rqj_A299 Geranyltranstransferase; bisphosphonate, isoprenyl 100.0
3p8r_A302 Geranyltranstransferase; isoprenyl synthase, struc 100.0
3lom_A313 Geranyltranstransferase; geranyltransferase, struc 100.0
2ftz_A284 Geranyltranstransferase; TM0161, structural GE joi 100.0
3m0g_A297 Farnesyl diphosphate synthase; structural genomics 100.0
3lk5_A380 Geranylgeranyl pyrophosphate synthase; structural 100.0
3npk_A291 Geranyltranstransferase; isoprene biosynthesis, SG 100.0
3llw_A311 Geranyltranstransferase (ISPA); structural genomic 100.0
3tc1_A315 Octaprenyl pyrophosphate synthase; all alpha-helic 100.0
2qis_A374 Farnesyl pyrophosphate synthetase; trans-prenyltra 100.0
1uby_A367 FPS, farnesyl diphosphate synthase; transferase, i 100.0
3mav_A395 Farnesyl pyrophosphate synthase; PV092040, structu 100.0
1yhl_A362 Farnesyl pyrophosphate synthase; farnesyl diphosph 100.0
3ipi_A295 Geranyltranstransferase; isoprene biosynthesis, he 100.0
2ihi_A395 Pyrophosphate synthase; PV092040, structural genom 100.0
2q58_A368 Fragment, farnesyl pyrophosphate synthase; farnesy 100.0
2her_A368 Fragment, farnesyl pyrophosphate synthase; farnesy 100.0
3dyh_A390 Farnesyl pyrophosphate synthase; protein-bisphosph 100.0
2azj_A289 Geranylgeranyl pyrophosphate synthetase; hexpps, t 100.0
4fp4_A285 Polyprenyl synthetase; isoprenoid synthesis, isopr 100.0
2j1p_A293 Geranylgeranyl pyrophosphate synthetase; transfera 100.0
3kra_B274 Geranyl diphosphate synthase small subunit; prenyl 100.0
3qkc_B273 Geranyl diphosphate synthase small subunit; struct 100.0
4hd1_A294 Squalene synthase HPNC; MCSG, structural genomics, 96.18
3vj8_A 343 Squalene synthase; farnesyl-diphosphate farnesyltr 95.58
3kb9_A382 EPI-isozizaene synthase; terpenoid cyclase, alpha- 93.94
1ps1_A337 Pentalenene synthase; antibiotic biosynthesis, ses 91.84
3acx_A293 Dehydrosqualene synthase; CRTM, carotenoid biosynt 90.87
3aqb_A147 Component A of hexaprenyl diphosphate synthase; pr 87.79
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} Back     alignment and structure
Probab=100.00  E-value=1.6e-63  Score=445.62  Aligned_cols=222  Identities=33%  Similarity=0.472  Sum_probs=184.7

Q ss_pred             CCCCchhHHHHHHHHHhCCCCCCchHHHHHHHHHHhcCCCCCCCCCCCchhhHhhHhHHHHHHHHHHHHHHHHHHHHHhh
Q 026139            2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDD   81 (243)
Q Consensus         2 ~~~~~~~l~~~~~y~~~~g~~GK~~Rp~l~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lA~aiEliH~asLIhDD   81 (243)
                      +++.+|.+.++++|++..|  |||+||.|++++++++|++.+                 +++.+|+++|+||++||||||
T Consensus        46 l~~~~~~l~~~~~y~~~~g--GKrlRp~l~ll~~~~~g~~~~-----------------~~~~~A~aiEliH~asLiHDD  106 (345)
T 3oyr_A           46 MQSDVAIIPALAEHLIAAG--GKRLRPLMTVAAARLAGADND-----------------HFQKLAAAVEFIHTATLLHDD  106 (345)
T ss_dssp             TCCSSTHHHHHHHHHHTTT--CCCHHHHHHHHHHHHTTCCSS-----------------THHHHHHHHHHHHHHHHHTTT
T ss_pred             hccCChhHHHHHHHHHhCC--CCcHHHHHHHHHHHHhCCCHH-----------------HHHHHHHHHHHHHHHHHHHCc
Confidence            5678899999999999988  999999999999999987643                 367899999999999999999


Q ss_pred             ccCCCCCCCCCCchhhhhchHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhHHhhcccCCCCCCHHHHHH
Q 026139           82 VLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQ  161 (243)
Q Consensus        82 I~D~s~~RRg~pt~~~~~G~~~Ail~Gd~ll~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~d~~~~~~~~~~~~~y~~  161 (243)
                      |||+|++|||+||+|.+||++.|||+||||+++|++.+++..+.++++.+++++..++.||++|+.+..+..+++++|++
T Consensus       107 i~D~s~~RRG~pt~h~~~G~~~AIl~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~~~~~~~~y~~  186 (345)
T 3oyr_A          107 VVDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELMVETNSMKALEILARASRVIAEGEVLQLMRSHDLNLSQAVYLE  186 (345)
T ss_dssp             TC---------CCCSCCTTHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHTSSCSSCCHHHHHH
T ss_pred             ccCCCCCCCCCccHHHhhCHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            99999999999999999999999999999999999999999889999999999999999999999998777899999999


Q ss_pred             HHhhhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhHHHhhhcccCCccccCCCchhHhhcccchHHHHHHhh
Q 026139          162 KTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASE  241 (243)
Q Consensus       162 ~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~~D~~~~~~~~gk~~~~Dl~~gk~T~p~~~al~  241 (243)
                      |+++|||+||++||++|++++|++++..+.+++||.++|++|||+||++|++++++.+||+.|+||+|||+|||++++++
T Consensus       187 ~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~~d~~~~GK~~g~Dl~egK~TlP~i~al~  266 (345)
T 3oyr_A          187 IIQAKTAELFAAASEAGAVSAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIA  266 (345)
T ss_dssp             HHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHTTC-------------------CCHHHHHHHH
T ss_pred             HHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCChhhcCCCccchhhcCchHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999996


Q ss_pred             c
Q 026139          242 I  242 (243)
Q Consensus       242 ~  242 (243)
                      +
T Consensus       267 ~  267 (345)
T 3oyr_A          267 R  267 (345)
T ss_dssp             H
T ss_pred             h
Confidence            4
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} Back     alignment and structure
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; 2.20A {Streptomyces coelicolor} Back     alignment and structure
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron} Back     alignment and structure
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii} Back     alignment and structure
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B* Back     alignment and structure
>3apz_A Geranyl diphosphate synthase; prenyltransferase, all alpha-helices fold, chroloplast, TRAN isoprenoid biosynthetic process; 2.60A {Arabidopsis thaliana} PDB: 3aq0_A* Back     alignment and structure
>3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus brevis} PDB: 3n3d_A Back     alignment and structure
>3lmd_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, protein structure initiative, nysgrc; 1.90A {Corynebacterium glutamicum} PDB: 3q2q_A* Back     alignment and structure
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis} Back     alignment and structure
>3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative; HET: IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A* Back     alignment and structure
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; 1.65A {Pyrobaculum calidifontis} PDB: 4gp1_A* 4gp2_A* Back     alignment and structure
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate synthase, structural genom riken structural genomics/proteomics initiative; 1.55A {Thermus thermophilus} Back     alignment and structure
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1 Back     alignment and structure
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid diphosphate synthase; 2.00A {Clostridium perfringens} Back     alignment and structure
>1v4e_A Octoprenyl-diphosphate synthase; trans-type prenyltransferase, thermophilic; 2.28A {Thermotoga maritima} SCOP: a.128.1.1 PDB: 1v4j_A 1wkz_A 1vg2_A 1wl3_A 1wl0_A 1wl2_A 1v4h_A 1v4i_A 1v4k_A 2azl_A 1wl1_A 1vg4_A 1vg3_A 1vg6_A 1vg7_A Back     alignment and structure
>2e8v_A Geranylgeranyl pyrophosphate synthetase; prenyltransferase, farnesyl pyrophosphate, bisphosphonate; HET: GRG; 1.80A {Saccharomyces cerevisiae} PDB: 2e8t_A* 2e8u_A* 2dh4_A* 2e8w_A* 2e8x_A* 2e90_A* 2e91_A* 2e92_A* 2e93_A* 2e94_A* 2e95_A* 2z4v_A* 2z4w_A* 2z4x_A* 2z4y_A* 2z4z_A* 2z50_A* 2z52_A* 2z78_A* 2z7h_A* ... Back     alignment and structure
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus} Back     alignment and structure
>4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP} Back     alignment and structure
>2q80_A Geranylgeranyl pyrophosphate synthetase; isoprenoid pathway, isopentenyl transferase, structural GENO structural genomics consortium, SGC; HET: GRG; 2.70A {Homo sapiens} SCOP: a.128.1.1 Back     alignment and structure
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium tumefaciens, structural GEN PSI-2, protein structure initiative; 1.60A {Agrobacterium tumefaciens} Back     alignment and structure
>3lsn_A Geranyltranstransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgxrc; HET: MSE; 1.35A {Pseudomonas fluorescens} PDB: 3lji_A* 3p41_A* Back     alignment and structure
>1rqj_A Geranyltranstransferase; bisphosphonate, isoprenyl synthase; HET: IPR RIS; 1.95A {Escherichia coli} SCOP: a.128.1.1 PDB: 1rqi_A* 2for_A* Back     alignment and structure
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.50A {Vibrio cholerae} SCOP: a.128.1.1 Back     alignment and structure
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp} Back     alignment and structure
>2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MLY; 1.90A {Thermotoga maritima} Back     alignment and structure
>3m0g_A Farnesyl diphosphate synthase; structural genomics, protein structure initiative, NYSGXRC, biosynthesis, transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB: 3lvs_A Back     alignment and structure
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein structure initiative, geranylge pyrophosphate synthase; 1.90A {Corynebacterium glutamicum} PDB: 3qqv_A* Back     alignment and structure
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural genomics protein structure initiative; 1.50A {Campylobacter jejuni} Back     alignment and structure
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Helicobacter pylori} PDB: 3q1o_A* Back     alignment and structure
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori} Back     alignment and structure
>2qis_A Farnesyl pyrophosphate synthetase; trans-prenyltransferase, structural genomics, structural GEN consortium, SGC, transferase; HET: RIS; 1.80A {Homo sapiens} PDB: 4dem_F* 1yv5_A* 1yq7_A* 2opm_A* 2opn_A* 3cp6_A* 2rah_A* 2vf6_A* 1zw5_A* 3b7l_A* 3s4j_A* 3rye_A* 3n45_F* 2f89_F* 2f7m_F* 2f8z_F* 2f8c_F* 2f92_F* 2f9k_F* 3n1v_F* ... Back     alignment and structure
>1uby_A FPS, farnesyl diphosphate synthase; transferase, isoprene biosynthesis, cholesterol biosynthesis; HET: DMA; 2.40A {Gallus gallus} SCOP: a.128.1.1 PDB: 1ubw_A* 1ubv_A* 1ubx_A* 1fps_A Back     alignment and structure
>3mav_A Farnesyl pyrophosphate synthase; PV092040, structural genomics, structural genomics consortium, SGC, transferase, isoprene biosynthesis; 2.10A {Plasmodium vivax} PDB: 3cc9_A* 3ez3_A* 3ldw_A* 3mys_A* 3ph7_A* 3rbm_A* 3ryw_A* Back     alignment and structure
>1yhl_A Farnesyl pyrophosphate synthase; farnesyl diphosphate synthase, bisphosphonate, dimethyl ALLY pyrophosphate sulfate, FPPS, transferase; HET: DMA RIS; 1.95A {Trypanosoma cruzi} PDB: 1yhk_A* 1yhm_A* 3iba_A* 3ick_A* 3icm_A* 3icn_A* 3icz_A* 3id0_A* Back     alignment and structure
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle, protein structure initiative II (PSI II), structural genomics, nysgxrc; 1.90A {Methanosarcina mazei} Back     alignment and structure
>2q58_A Fragment, farnesyl pyrophosphate synthase; farnesyl diphosphate synthase, structural genomics, structur genomics consortium, SGC; HET: ZOL; 2.37A {Cryptosporidium parvum} PDB: 2o1o_A* Back     alignment and structure
>3dyh_A Farnesyl pyrophosphate synthase; protein-bisphosphonate complex, isoprene biosynthesis, transferase; HET: 721; 1.94A {Trypanosoma brucei} PDB: 2ewg_A* 2i19_A* 2p1c_A* 3dyf_A* 3dyg_A* 2ogd_A* 3efq_A* 3egt_A* Back     alignment and structure
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_A Back     alignment and structure
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum calidifontis} Back     alignment and structure
>2j1p_A Geranylgeranyl pyrophosphate synthetase; transferase, isoprene biosynthesis, multifunctional enzyme, carotenoid biosynthesis; HET: GRG; 1.8A {Sinapis alba} PDB: 2j1o_A 3kra_A 3krc_A* 3krf_A* 3kro_A* 3krp_A* 3oab_A* 3oac_A* Back     alignment and structure
>3kra_B Geranyl diphosphate synthase small subunit; prenyltransferase, isoprene biosynthesis, isoprenyl pyrophosphate synthase, transferase; 1.90A {Mentha x piperita} PDB: 3krc_B* 3krf_B* 3kro_B* 3krp_B* 3oab_B* 3oac_B* Back     alignment and structure
>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus} Back     alignment and structure
>4hd1_A Squalene synthase HPNC; MCSG, structural genomics, PSI-biology, midwest center for S genomics, transferase; 2.40A {Alicyclobacillus acidocaldarius subsp} Back     alignment and structure
>3vj8_A Squalene synthase; farnesyl-diphosphate farnesyltransferase, head-TO-head synth cholesterol biosynthesis, oxidoreductase, transferase; 1.52A {Homo sapiens} PDB: 3vj9_A 3vja_A 3vjb_A 3vjc_A* 3v66_A* 3lee_A* 3q2z_A* 3q30_A* 3asx_A* 1ezf_A* Back     alignment and structure
>3kb9_A EPI-isozizaene synthase; terpenoid cyclase, alpha-helical fold, farnesyl diphosphate, metal-binding, lyase, magnesium; HET: BTM; 1.60A {Streptomyces coelicolor} PDB: 3kbk_A 3lgk_A 3lg5_A* Back     alignment and structure
>1ps1_A Pentalenene synthase; antibiotic biosynthesis, sesquiterpene cyclase, lyase; 2.60A {Streptomyces SP} SCOP: a.128.1.4 PDB: 1hm7_A 1hm4_A Back     alignment and structure
>3acx_A Dehydrosqualene synthase; CRTM, carotenoid biosynthesis, staphyloxanthin biosynthesis, transferase, head-TO-head condensation, inhibitor; HET: 673; 1.31A {Staphylococcus aureus} PDB: 2zcp_A* 2zcq_A* 2zcr_A* 2zcs_A* 2zy1_A* 3acw_A* 2zco_A* 3acy_A* 3npr_A* 3nri_A* 3tfn_A* 3tfp_A* 3tfv_A* 3adz_A* 3lgz_B* 3vjd_A* 3vje_A* 3ae0_A* 4ea2_A* 4e9u_A* ... Back     alignment and structure
>3aqb_A Component A of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_A* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 243
d1rqja_299 a.128.1.1 (A:) Farnesyl diphosphate synthase (gera 7e-18
d2q80a1291 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate s 6e-14
d1rtra_290 a.128.1.1 (A:) Farnesyl diphosphate synthase (gera 3e-12
d1v4ea_280 a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Th 9e-12
d1fpsa_348 a.128.1.1 (A:) Farnesyl diphosphate synthase (gera 1e-10
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]} Length = 299 Back     information, alignment and structure

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Farnesyl diphosphate synthase (geranyltranstransferase)
species: Escherichia coli [TaxId: 562]

 Score = 78.5 bits (192), Expect = 7e-18
 Identities = 58/235 (24%), Positives = 96/235 (40%), Gaps = 33/235 (14%)

Query: 7   PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
             +    +Y   +G  GKR RP ++        V                         A
Sbjct: 30  TPVVETMQYGALLG--GKRLRPFLVYATGHMFGVS-----------------TNTLDAPA 70

Query: 67  EITEMIHVASLLHDDVLDDADTRR--GIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
              E IH  SL+HDD+    D     G+ + +   G   A+LAGD L + A   L+    
Sbjct: 71  AAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDADM 130

Query: 125 TEV----------VTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNS 174
            EV              A+ +  +  G+ + +  +  +   +D   +   +KT +LI  +
Sbjct: 131 PEVSDRDRISMISELASASGIAGMCGGQALDL-DAEGKHVPLDALERIHRHKTGALIRAA 189

Query: 175 CKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
            +  AL AG     A+   D Y +++GLA+Q+ DD+LD  G +A+LGK   +D +
Sbjct: 190 VRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQ 244
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} Length = 291 Back     information, alignment and structure
>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]} Length = 290 Back     information, alignment and structure
>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]} Length = 280 Back     information, alignment and structure
>d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Chicken (Gallus gallus) [TaxId: 9031]} Length = 348 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query243
d2q80a1291 Geranylgeranyl pyrophosphate synthetase {Human (Ho 100.0
d1v4ea_280 Octoprenyl-diphosphate synthase {Thermotoga mariti 100.0
d1fpsa_348 Farnesyl diphosphate synthase (geranyltranstransfe 100.0
d1rtra_290 Farnesyl diphosphate synthase (geranyltranstransfe 100.0
d1rqja_299 Farnesyl diphosphate synthase (geranyltranstransfe 100.0
d1ezfa_ 333 Squalene synthase {Human (Homo sapiens) [TaxId: 96 96.21
d1ps1a_311 Pentalenene synthase {Streptomyces sp., UC5319 [Ta 91.52
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Geranylgeranyl pyrophosphate synthetase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-59  Score=410.79  Aligned_cols=214  Identities=21%  Similarity=0.253  Sum_probs=194.0

Q ss_pred             chhHHHHHHHHHhCCCCCCchHHHHHHHHHHhcCCCCCCCCCCCchhhHhhHhHHHHHHHHHHHHHHHHHHHHHhhccCC
Q 026139            6 VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDD   85 (243)
Q Consensus         6 ~~~l~~~~~y~~~~g~~GK~~Rp~l~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lA~aiEliH~asLIhDDI~D~   85 (243)
                      .+.|.++++|++..|  |||+||.|++++++++|++.                 +.+..+|+++|+||+||||||||||+
T Consensus         4 ~~~l~e~~~y~~~~g--GKr~Rp~l~~~~~~~~~~~~-----------------~~~~~~a~aiEllH~asLihDDi~D~   64 (291)
T d2q80a1           4 QRILLEPYKYLLQLP--GKQVRTKLSQAFNHWLKVPE-----------------DKLQIIIEVTEMLHNASLLIDDIEDN   64 (291)
T ss_dssp             HHHHTHHHHHHTTSS--CHHHHHHHHHHHHHHHCCCH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHhCC--CchHHHHHHHHHHHHhCCCH-----------------HHHHHHHHHHHHHHHHHHHhcccccC
Confidence            467889999999988  99999999999999998652                 35788999999999999999999999


Q ss_pred             CCCCCCCCchhhhhchHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhHHhhcccCCC-CCCHHHHHHHHh
Q 026139           86 ADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQ-RCSMDYYMQKTY  164 (243)
Q Consensus        86 s~~RRg~pt~~~~~G~~~Ail~Gd~ll~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~d~~~~~~~-~~~~~~y~~~~~  164 (243)
                      |++|||+||+|.+||++.||++||+|++.+++.+++..++.+.+.+++++.++++||.+|+.+..+. .++.++|++|++
T Consensus        65 ~~~RRg~pt~~~~~G~~~Ail~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~gq~~d~~~~~~~~~~s~~~y~~ii~  144 (291)
T d2q80a1          65 SKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTLDHPDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVL  144 (291)
T ss_dssp             CSEETTEECHHHHHCHHHHHHHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             cccccCCCccccccchhhhhhHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhHhccccccccccccccCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999889999999999999999999998876543 468999999999


Q ss_pred             hhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhHHHhhhcccCCccccCCCchhHhhcccchHHHHHHhhc
Q 026139          165 YKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLLFIASEI  242 (243)
Q Consensus       165 ~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~~D~~~~~~~~gk~~~~Dl~~gk~T~p~~~al~~  242 (243)
                      +|||+||++||.+|+++++.+++    +++||+++|++|||+||++|++++++.+||+.++||++||+|||++++++.
T Consensus       145 ~KT~~Lf~~~~~~ga~~~~~~~~----l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~g~Dl~~gK~Tlpvi~al~~  218 (291)
T d2q80a1         145 QKTGGLFGLAVGLMQLFSDYKED----LKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWS  218 (291)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCCSC----CHHHHHHHHHHHHHHHHHHHHHCC------CTTHHHHHTCCCHHHHHHHHH
T ss_pred             hccchhhHhhhhhhhhhcccchh----hHHHHHHHHHHHHHHHHhhhhccchhhccccccchhccCCCcHHHHHHHHh
Confidence            99999999999999999998754    888999999999999999999999999999999999999999999999864
>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Chicken (Gallus gallus) [TaxId: 9031]} Back     information, alignment and structure
>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ezfa_ a.128.1.2 (A:) Squalene synthase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ps1a_ a.128.1.4 (A:) Pentalenene synthase {Streptomyces sp., UC5319 [TaxId: 1931]} Back     information, alignment and structure