Citrus Sinensis ID: 036368

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-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------38
MCSTFSIAANPCIGVSNDKIMCQKTTVAATRAGVTIAPRQRSSHIFPGLSRQGIPQSTALHVSEIVERQSQDNSLAMEDACRSKPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRAQSK
cccccccccccccccccccccccccccccccccEEEccccccccccccccccccccHHHHcHHHHHHHHHcccccHHHHccccccccccccHHHHHHHHHHHHHcccccHHHHHccccHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHccccHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHcc
ccccccccccccccccccccEEEEEEEEcccccEEEcccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHcHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccccHHHHHHHcccccccccccccHHHHHHHHHHHHHHHccEEccEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHcHHHccccEEccHHHHHHHcccHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHccccccHHccHHHHHHHHHHHHHHHHHHHccccccccEEEccHHHHHHHHHHHHHHHHcc
mcstfsiaanpcigvsndkimcQKTTVAATRagvtiaprqrsshifpglsrqgipqstaLHVSEIVERqsqdnslamedacrskpqfhpmFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRrtdelvdgpnatymgSVVLDRWEERLQdifygrpydmldAALTDtvfkfpldikpfrDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTvglmsvpvmgiapdssssaQSIYNGALNLGVGNQLTNILRDvgedasrgrvylpqdelaqfglcdkdvfarKVTDNWREFMKEQIKRARTFFNMAEEgasqldkdsrwpvwSSLLIYREILDAIeendydnltKRAYVGRMKKFLMLPQAYNRAQSK
mcstfsiaanpcigvsndKIMCQKTTVAATRAGVTIAPRQRSSHIFPGLSRQGIPQSTALHVSEIVERQSQDNSLAMEDACRSKPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTdelvdgpnatYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDelaqfglcdkdvFARKVTDNWREFMKEQIKRARTFFNMAEEgasqldkdsrwpVWSSLLIYREILDaieendydnlTKRAYVGRMKKFLmlpqaynraqsk
MCSTFSIAANPCIGVSNDKIMCQKTTVAATRAGVTIAPRQRSSHIFPGLSRQGIPQSTALHVSEIVERQSQDNSLAMEDACRSKPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRAQSK
****FSIAANPCIGVSNDKIMCQKTTVAATRAGVTIA*************************************************FHPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIA********SIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQ********
***************************************************QGIPQSTALHVSEI*************************FLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRAQS*
MCSTFSIAANPCIGVSNDKIMCQKTTVAATRAGVTIAPRQRSSHIFPGLSRQGIPQSTALHVSEIVERQSQDNSLAMEDACRSKPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAE*********SRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRAQSK
*CSTFSIAANPCIGVSNDKIMCQKTTVAATRAGVTIA*************RQGIPQSTALHVSEIVERQSQDNSLAMEDACRSKPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRAQS*
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MCSTFSIAANPCIGVSNDKIMCQKTTVAATRAGVTIAPRQRSSHIFPGLSRQGIPQSTALHVSEIVERQSQDNSLAMEDACRSKPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRAQSK
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 ?
Query378 2.2.26 [Sep-21-2011]
P49293422 Phytoene synthase, chloro N/A no 0.753 0.675 0.730 1e-127
P37271422 Phytoene synthase, chloro yes no 0.761 0.682 0.711 1e-126
P53797423 Phytoene synthase, chloro N/A no 0.933 0.834 0.566 1e-125
P37272419 Phytoene synthase, chloro N/A no 0.753 0.680 0.715 1e-125
P49085410 Phytoene synthase, chloro N/A no 0.751 0.692 0.711 1e-124
P08196412 Phytoene synthase 1, chlo N/A no 0.753 0.691 0.701 1e-123
P37273310 Phytoene synthase 2, chlo N/A no 0.753 0.919 0.708 1e-122
Q9SSU8398 Phytoene synthase, chloro N/A no 0.753 0.716 0.687 1e-120
P37269308 Phytoene synthase OS=Syne yes no 0.775 0.951 0.578 9e-96
O07333309 Phytoene synthase OS=Spir N/A no 0.761 0.932 0.576 2e-91
>sp|P49293|PSY_CUCME Phytoene synthase, chloroplastic OS=Cucumis melo GN=PSY PE=2 SV=1 Back     alignment and function desciption
 Score =  454 bits (1167), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 209/286 (73%), Positives = 241/286 (84%), Gaps = 1/286 (0%)

Query: 91  FLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSV 150
            L EAY+RC  +CAEYAKTFYLGT+LMT ERQKAIWAIYVWCRRTDELVDGPNA+++   
Sbjct: 132 LLNEAYDRCGEVCAEYAKTFYLGTMLMTPERQKAIWAIYVWCRRTDELVDGPNASHITPT 191

Query: 151 VLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQE 210
            LDRWE RL+++F GRP+DMLDAAL DTV KFP+DI+PF+DMIEGMRMD RK RY++F E
Sbjct: 192 ALDRWEARLEELFQGRPFDMLDAALADTVTKFPVDIQPFKDMIEGMRMDLRKSRYKNFDE 251

Query: 211 LYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQL-TNILRDVGEDASR 269
           LYLYCYYVAGTVGLMSVPVMGIAP+S +S +S+YN AL LG+ NQ   NILRDVGEDA R
Sbjct: 252 LYLYCYYVAGTVGLMSVPVMGIAPESQASTESVYNAALALGIANQAPPNILRDVGEDARR 311

Query: 270 GRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRW 329
           GR+YLPQDELAQ GL D+D+FA +VTD WR FMK QIKRAR FF+ AE+G  +L+K SRW
Sbjct: 312 GRIYLPQDELAQAGLSDEDIFAGRVTDKWRNFMKNQIKRARMFFDEAEKGVLELNKASRW 371

Query: 330 PVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRA 375
           PVW+SLL+YR+ILD IE NDYDN TKRAYV + KK L LP AY RA
Sbjct: 372 PVWASLLLYRQILDEIEANDYDNFTKRAYVSKAKKILALPMAYGRA 417
Catalyzes the reaction from prephytoene diphosphate to phytoene.
Cucumis melo (taxid: 3656)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 3EC: 2
>sp|P37271|PSY_ARATH Phytoene synthase, chloroplastic OS=Arabidopsis thaliana GN=PSY1 PE=2 SV=2 Back     alignment and function description
>sp|P53797|PSY_NARPS Phytoene synthase, chloroplastic OS=Narcissus pseudonarcissus GN=PSY PE=2 SV=1 Back     alignment and function description
>sp|P37272|PSY_CAPAN Phytoene synthase, chloroplastic OS=Capsicum annuum GN=PSY1 PE=2 SV=1 Back     alignment and function description
>sp|P49085|PSY_MAIZE Phytoene synthase, chloroplastic OS=Zea mays GN=Y1 PE=3 SV=1 Back     alignment and function description
>sp|P08196|PSY1_SOLLC Phytoene synthase 1, chloroplastic OS=Solanum lycopersicum GN=PSY1 PE=1 SV=2 Back     alignment and function description
>sp|P37273|PSY2_SOLLC Phytoene synthase 2, chloroplastic (Fragment) OS=Solanum lycopersicum GN=PSY2 PE=2 SV=1 Back     alignment and function description
>sp|Q9SSU8|PSY_DAUCA Phytoene synthase, chloroplastic OS=Daucus carota GN=PSY PE=2 SV=1 Back     alignment and function description
>sp|P37269|CRTB_SYNE7 Phytoene synthase OS=Synechococcus elongatus (strain PCC 7942) GN=crtB PE=3 SV=2 Back     alignment and function description
>sp|O07333|CRTY_SPIPL Phytoene synthase OS=Spirulina platensis GN=crtB PE=3 SV=1 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 ?
Query378
225435712419 PREDICTED: phytoene synthase 2, chloropl 0.984 0.887 0.792 1e-175
255572256385 Phytoene synthase, chloroplast precursor 0.992 0.974 0.761 1e-167
357462675387 Phytoene synthase [Medicago truncatula] 0.986 0.963 0.710 1e-156
449448822385 PREDICTED: phytoene synthase 1, chloropl 0.994 0.976 0.691 1e-152
334725693385 phytoene synthase [Cucumis melo] 0.962 0.945 0.706 1e-152
356569141397 PREDICTED: phytoene synthase, chloroplas 0.947 0.901 0.715 1e-150
297746444357 unnamed protein product [Vitis vinifera] 0.761 0.806 0.875 1e-150
224052972284 predicted protein [Populus trichocarpa] 0.751 1.0 0.859 1e-144
224073174298 predicted protein [Populus trichocarpa] 0.756 0.959 0.790 1e-134
255572258370 Phytoene synthase, chloroplast precursor 0.862 0.881 0.646 1e-132
>gi|225435712|ref|XP_002283501.1| PREDICTED: phytoene synthase 2, chloroplastic-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  620 bits (1599), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 298/376 (79%), Positives = 327/376 (86%), Gaps = 4/376 (1%)

Query: 1   MCSTFSIAANPCIGVSNDKIMCQKTTVAATRAGVTIAPRQRSS-HIFPGLSRQGIPQSTA 59
           M S FS+A  P +  SN K++ +K+T  A RA V +AP++R+S H  P LS+QGIP  T 
Sbjct: 1   MSSAFSLAVKPSVAWSNGKLLSRKSTRRAARAEVIVAPKKRTSTHNVPELSKQGIPH-TD 59

Query: 60  LHVSEIVERQSQDNSLAMEDACRSKPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTE 119
           LHV EIV+RQS D S +M D C+ KPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTE
Sbjct: 60  LHVREIVKRQSTDKS-SMFDVCQ-KPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTE 117

Query: 120 ERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTV 179
           ERQKAIWAIYVWCRRTDELVDGPNA YM S VLDRWEERL DIF GRPYDMLDAALTDT+
Sbjct: 118 ERQKAIWAIYVWCRRTDELVDGPNAAYMSSAVLDRWEERLHDIFNGRPYDMLDAALTDTI 177

Query: 180 FKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSS 239
           +KFPLDIKPFRDMIEGMRMDT+ FRYE+FQELYLYCYYVAGTVGLMSVPVMGIAP+S  S
Sbjct: 178 YKFPLDIKPFRDMIEGMRMDTKNFRYENFQELYLYCYYVAGTVGLMSVPVMGIAPESPVS 237

Query: 240 AQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWR 299
           AQSIYN AL LG+GNQLTNILRDVGED+ RGRVYLPQDELAQFGLCD+D+F+RKV D WR
Sbjct: 238 AQSIYNSALYLGIGNQLTNILRDVGEDSLRGRVYLPQDELAQFGLCDRDIFSRKVNDGWR 297

Query: 300 EFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYV 359
           EFMK+QI RAR +FN AEEGASQLDK SRWPVWSSLL+YR+ILDAIEENDYDNLTKRAYV
Sbjct: 298 EFMKQQITRARFYFNQAEEGASQLDKASRWPVWSSLLLYRKILDAIEENDYDNLTKRAYV 357

Query: 360 GRMKKFLMLPQAYNRA 375
           GR KK L LP AY+RA
Sbjct: 358 GRTKKLLTLPLAYSRA 373

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255572256|ref|XP_002527067.1| Phytoene synthase, chloroplast precursor, putative [Ricinus communis] gi|223533572|gb|EEF35311.1| Phytoene synthase, chloroplast precursor, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|357462675|ref|XP_003601619.1| Phytoene synthase [Medicago truncatula] gi|355490667|gb|AES71870.1| Phytoene synthase [Medicago truncatula] Back     alignment and taxonomy information
>gi|449448822|ref|XP_004142164.1| PREDICTED: phytoene synthase 1, chloroplastic-like [Cucumis sativus] gi|449522422|ref|XP_004168225.1| PREDICTED: phytoene synthase 1, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|334725693|gb|AEH03199.1| phytoene synthase [Cucumis melo] Back     alignment and taxonomy information
>gi|356569141|ref|XP_003552764.1| PREDICTED: phytoene synthase, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|297746444|emb|CBI16500.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224052972|ref|XP_002297643.1| predicted protein [Populus trichocarpa] gi|222844901|gb|EEE82448.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224073174|ref|XP_002304008.1| predicted protein [Populus trichocarpa] gi|222841440|gb|EEE78987.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255572258|ref|XP_002527068.1| Phytoene synthase, chloroplast precursor, putative [Ricinus communis] gi|223533573|gb|EEF35312.1| Phytoene synthase, chloroplast precursor, putative [Ricinus communis] 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 ?
Query378
UNIPROTKB|Q6ED64421 Q6ED64 "Phytoene synthase 1" [ 0.751 0.674 0.700 2e-111
TAIR|locus:2167225437 PSY "PHYTOENE SYNTHASE" [Arabi 0.759 0.656 0.678 1.3e-109
UNIPROTKB|P37295602 al-2 "Bifunctional lycopene cy 0.425 0.267 0.276 5.8e-09
UNIPROTKB|Q9UUQ6614 CARRP "Bifunctional lycopene c 0.544 0.335 0.247 8.2e-09
UNIPROTKB|Q8X0Z1612 carRA "Bifunctional lycopene c 0.574 0.354 0.251 1.9e-08
UNIPROTKB|Q67GH9608 carRA "Bifunctional lycopene c 0.589 0.366 0.241 6.1e-08
UNIPROTKB|Q7Z859673 crtYB "Bifunctional lycopene c 0.484 0.271 0.262 4.9e-07
UNIPROTKB|Q60AN4362 sqs "Squalene synthase" [Methy 0.246 0.256 0.357 6.2e-07
MGI|MGI:1924197333 Ndufaf6 "NADH dehydrogenase (u 0.619 0.702 0.202 1.2e-05
UNIPROTKB|Q9P854602 carRA "Bifunctional lycopene c 0.521 0.327 0.266 1.5e-05
UNIPROTKB|Q6ED64 Q6ED64 "Phytoene synthase 1" [Oryza sativa Indica Group (taxid:39946)] Back     alignment and assigned GO terms
 Score = 1100 (392.3 bits), Expect = 2.0e-111, P = 2.0e-111
 Identities = 199/284 (70%), Positives = 238/284 (83%)

Query:    92 LEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVV 151
             L++AY RC  IC EYAKTFYLGT+LMTE+R++AIWAIYVWCRRTDELVDGPNA+++    
Sbjct:   126 LKQAYHRCGEICEEYAKTFYLGTMLMTEDRRRAIWAIYVWCRRTDELVDGPNASHITPSA 185

Query:   152 LDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQEL 211
             LDRWE+RL D+F GRPYDMLDAAL+DT+ K P+DI+PFRDMIEGMR D RK RY++F EL
Sbjct:   186 LDRWEKRLDDLFTGRPYDMLDAALSDTISKSPIDIQPFRDMIEGMRSDLRKTRYKNFDEL 245

Query:   212 YLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGR 271
             Y+YCYYVAGTVGLMSVPVMGIAP+S ++ +S+Y+ AL LG+ NQLTNILRDVGEDA RGR
Sbjct:   246 YMYCYYVAGTVGLMSVPVMGIAPESKATTESVYSAALALGIANQLTNILRDVGEDARRGR 305

Query:   272 VYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPV 331
             +YLPQDELA+ GL D+D+F   VT+ WR FMK QIKRAR FF  AE G ++L + SRWPV
Sbjct:   306 IYLPQDELAEAGLSDEDIFNGVVTNKWRSFMKRQIKRARMFFEEAERGVTELSQASRWPV 365

Query:   332 WSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRA 375
             W+SLL+YR+ILD IE NDY+N TKR YVG+ KK L LP AY R+
Sbjct:   366 WASLLLYRQILDEIEANDYNNFTKRTYVGKAKKLLALPVAYGRS 409
GO:0009536 "plastid" evidence=IC
TAIR|locus:2167225 PSY "PHYTOENE SYNTHASE" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|P37295 al-2 "Bifunctional lycopene cyclase/phytoene synthase" [Neurospora crassa OR74A (taxid:367110)] Back     alignment and assigned GO terms
UNIPROTKB|Q9UUQ6 CARRP "Bifunctional lycopene cyclase/phytoene synthase" [Mucor circinelloides f. lusitanicus (taxid:29924)] Back     alignment and assigned GO terms
UNIPROTKB|Q8X0Z1 carRA "Bifunctional lycopene cyclase/phytoene synthase" [Fusarium fujikuroi (taxid:5127)] Back     alignment and assigned GO terms
UNIPROTKB|Q67GH9 carRA "Bifunctional lycopene cyclase/phytoene synthase" [Blakeslea trispora (taxid:4850)] Back     alignment and assigned GO terms
UNIPROTKB|Q7Z859 crtYB "Bifunctional lycopene cyclase/phytoene synthase" [Xanthophyllomyces dendrorhous (taxid:5421)] Back     alignment and assigned GO terms
UNIPROTKB|Q60AN4 sqs "Squalene synthase" [Methylococcus capsulatus str. Bath (taxid:243233)] Back     alignment and assigned GO terms
MGI|MGI:1924197 Ndufaf6 "NADH dehydrogenase (ubiquinone) complex I, assembly factor 6" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q9P854 carRA "Bifunctional lycopene cyclase/phytoene synthase" [Phycomyces blakesleeanus NRRL 1555(-) (taxid:763407)] 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) ?
P49085PSY_MAIZE2, ., 5, ., 1, ., 3, 20.71120.75130.6926N/Ano
P37269CRTB_SYNE72, ., 5, ., 1, ., 3, 20.57850.77510.9512yesno
P49293PSY_CUCME2, ., 5, ., 1, ., 3, 20.73070.75390.6753N/Ano
P53797PSY_NARPS2, ., 5, ., 1, ., 3, 20.56650.93380.8345N/Ano
P08196PSY1_SOLLC2, ., 5, ., 1, ., 3, 20.70170.75390.6917N/Ano
P37273PSY2_SOLLC2, ., 5, ., 1, ., 3, 20.70870.75390.9193N/Ano
P37272PSY_CAPAN2, ., 5, ., 1, ., 3, 20.71570.75390.6801N/Ano
P37271PSY_ARATH2, ., 5, ., 1, ., 3, 20.71180.76190.6824yesno

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 Layer2.5.1.320.946
3rd Layer2.5.10.963

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 ?
Query378
PLN02632334 PLN02632, PLN02632, phytoene synthase 0.0
cd00683265 cd00683, Trans_IPPS_HH, Trans-Isoprenyl Diphosphat 6e-99
pfam00494262 pfam00494, SQS_PSY, Squalene/phytoene synthase 1e-83
COG1562288 COG1562, ERG9, Phytoene/squalene synthetase [Lipid 2e-79
TIGR03465266 TIGR03465, HpnD, squalene synthase HpnD 1e-64
TIGR03464266 TIGR03464, HpnC, squalene synthase HpnC 3e-39
cd00385243 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynth 1e-35
cd00867236 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate S 3e-32
TIGR01559337 TIGR01559, squal_synth, farnesyl-diphosphate farne 7e-05
>gnl|CDD|215339 PLN02632, PLN02632, phytoene synthase Back     alignment and domain information 
 Score =  584 bits (1508), Expect = 0.0
 Identities = 230/324 (70%), Positives = 258/324 (79%), Gaps = 1/324 (0%)

Query: 54  IPQSTALHVSEIVERQSQDNSLAMEDACRS-KPQFHPMFLEEAYERCRNICAEYAKTFYL 112
              S+   V E+V +Q+     A   + R       P  LEEAY+RC  +CAEYAKTFYL
Sbjct: 6   AAASSEEKVYEVVLKQAALVRKAARRSVRPRATSLSPALLEEAYDRCGEVCAEYAKTFYL 65

Query: 113 GTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLD 172
           GTLLMT ER+KAIWAIYVWCRRTDELVDGPNA+++    LDRWE RL+D+F GRPYDMLD
Sbjct: 66  GTLLMTPERRKAIWAIYVWCRRTDELVDGPNASHITPAALDRWEARLEDLFDGRPYDMLD 125

Query: 173 AALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGI 232
           AAL DTV KFPLDI+PFRDMIEGMRMD  K RYE+F ELYLYCYYVAGTVGLMSVPVMGI
Sbjct: 126 AALADTVSKFPLDIQPFRDMIEGMRMDLVKSRYENFDELYLYCYYVAGTVGLMSVPVMGI 185

Query: 233 APDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFAR 292
           AP+S +S +S+YN AL LG+ NQLTNILRDVGEDA RGRVYLPQDELAQFGL D+D+FA 
Sbjct: 186 APESKASTESVYNAALALGIANQLTNILRDVGEDARRGRVYLPQDELAQFGLTDEDIFAG 245

Query: 293 KVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDN 352
           KVTD WR FMK QIKRAR +F  AEEG S+LD  SRWPVW+SLL+YR+ILDAIE NDYDN
Sbjct: 246 KVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPASRWPVWASLLLYRQILDAIEANDYDN 305

Query: 353 LTKRAYVGRMKKFLMLPQAYNRAQ 376
            TKRAYVG+ KK L LP AY RA 
Sbjct: 306 FTKRAYVGKWKKLLALPLAYARAL 329

Length = 334
>gnl|CDD|173831 cd00683, Trans_IPPS_HH, Trans-Isoprenyl Diphosphate Synthases, head-to-head Back     alignment and domain information
>gnl|CDD|215948 pfam00494, SQS_PSY, Squalene/phytoene synthase Back     alignment and domain information
>gnl|CDD|224478 COG1562, ERG9, Phytoene/squalene synthetase [Lipid metabolism] Back     alignment and domain information
>gnl|CDD|163278 TIGR03465, HpnD, squalene synthase HpnD Back     alignment and domain information
>gnl|CDD|188327 TIGR03464, HpnC, squalene synthase HpnC Back     alignment and domain information
>gnl|CDD|173830 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynthesis enzymes, Class 1 Back     alignment and domain information
>gnl|CDD|173836 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate Synthases Back     alignment and domain information
>gnl|CDD|188157 TIGR01559, squal_synth, farnesyl-diphosphate farnesyltransferase Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 378
PLN02632334 phytoene synthase 100.0
TIGR03464266 HpnC squalene synthase HpnC. This family of genes 100.0
TIGR03465266 HpnD squalene synthase HpnD. The genes of this fam 100.0
cd00683265 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthase 100.0
PF00494267 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR 100.0
COG1562288 ERG9 Phytoene/squalene synthetase [Lipid metabolis 100.0
TIGR01559336 squal_synth farnesyl-diphosphate farnesyltransfera 100.0
KOG4411292 consensus Phytoene/squalene synthetase [Lipid tran 100.0
KOG1459413 consensus Squalene synthetase [Lipid transport and 99.95
cd00867236 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. 99.87
cd00385243 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzym 99.81
KOG1459413 consensus Squalene synthetase [Lipid transport and 99.7
TIGR02749322 prenyl_cyano solanesyl diphosphate synthase. Membe 96.24
PLN02890422 geranyl diphosphate synthase 96.13
cd00685259 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthase 96.11
PRK10888323 octaprenyl diphosphate synthase; Provisional 95.58
TIGR02748319 GerC3_HepT heptaprenyl diphosphate synthase compon 95.19
PRK10581299 geranyltranstransferase; Provisional 94.76
PLN02857416 octaprenyl-diphosphate synthase 94.04
CHL00151323 preA prenyl transferase; Reviewed 92.73
COG0142322 IspA Geranylgeranyl pyrophosphate synthase [Coenzy 91.8
PF00348260 polyprenyl_synt: Polyprenyl synthetase; InterPro: 91.64
cd00868284 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terp 90.56
cd00684542 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, C 85.61
PF03936270 Terpene_synth_C: Terpene synthase family, metal bi 84.17
>PLN02632 phytoene synthase Back     alignment and domain information 
Probab=100.00  E-value=4.7e-70  Score=537.39  Aligned_cols=322  Identities=71%  Similarity=1.164  Sum_probs=299.0

Q ss_pred             CccchhhhHHHHHHhhhhhhhhhhh-hhccCCCCCChhhHHHHHHHHHHHHHhcCcchHHHHhcCCHHHHHHHHHHHHHH
Q 036368           54 IPQSTALHVSEIVERQSQDNSLAME-DACRSKPQFHPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWC  132 (378)
Q Consensus        54 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~a~~~C~~i~r~~s~sfyla~~llP~~~R~al~aLYAf~  132 (378)
                      +..+++++|++++++|+.....+.. .....+++..+..++++|++|.++++++|+|||++++|||++.|+++++||+||
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~c~~i~r~~s~sFyla~~lLP~~~R~ai~alYAf~   85 (334)
T PLN02632          6 AAASSEEKVYEVVLKQAALVRKAARRSVRPRATSLSPALLEEAYDRCGEVCAEYAKTFYLGTLLMTPERRKAIWAIYVWC   85 (334)
T ss_pred             CCCccHhHHHHHHHHHHHHHHHhcccccCCCCCCCCcccchHHHHHHHHHHhhcCchHHHHHHhCCHHHHHHHHHHHHHH
Confidence            5568999999999999998887622 111345566778999999999999999999999999999999999999999999


Q ss_pred             HHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhCCCChHHHHHHHHHHHhhcCCCCCCCHHHHH
Q 036368          133 RRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELY  212 (378)
Q Consensus       133 R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p~~pv~~aL~~~v~~~~l~~~~l~~lieg~~~DL~~~~~~t~~dL~  212 (378)
                      |++|||+|+++.+.++.++|+||++.|+.++.|.|.||+..+|.+++.+++|+.++|.+||+||++|+...+|+|++||+
T Consensus        86 R~~DdI~D~~~~~~~~~~~L~~w~~~l~~~~~g~~~~pv~~aL~~~~~~~~L~~~~~~~li~g~~~Dl~~~~~~t~~eL~  165 (334)
T PLN02632         86 RRTDELVDGPNASHITPAALDRWEARLEDLFDGRPYDMLDAALADTVSKFPLDIQPFRDMIEGMRMDLVKSRYENFDELY  165 (334)
T ss_pred             HHHhHHhcCCCCChhhHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHCCCChHHHHHHHHHHHHHhccCCCCCHHHHH
Confidence            99999999988877778899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCCCCHHhHHhcCCChHhhhhc
Q 036368          213 LYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFAR  292 (378)
Q Consensus       213 ~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A~~LG~AlQLtNiLRDl~eD~~~GR~YLP~d~L~~~Gvs~edl~~~  292 (378)
                      .|||+|||+||+|+++++|..+......+.+.+.|.++|+|+|||||||||+||+++||||||.|+|++||+++++++.+
T Consensus       166 ~Ycy~vAgtVG~l~l~vlg~~~~~~~~~~~~~~~A~~lG~AlQltNILRDv~eD~~~GRvYLP~e~L~~~Gv~~edl~~~  245 (334)
T PLN02632        166 LYCYYVAGTVGLMSVPVMGIAPESKASTESVYNAALALGIANQLTNILRDVGEDARRGRVYLPQDELAQFGLTDEDIFAG  245 (334)
T ss_pred             HHHHHhhHHHHHHHHHHhCCCCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCceeCCHHHHHHcCCCHHHHhcC
Confidence            99999999999999999997653222234567899999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCccCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCcccChHHHHHHHHHHH
Q 036368          293 KVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAY  372 (378)
Q Consensus       293 ~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~~r~~v~~~~~ly~~iL~~Ie~~~~~vf~~r~~ls~~~kl~~l~~a~  372 (378)
                      ..+++++.++.+++++|+.||++|+.++..||+++++++++++.+|+.||++|+++||++|++|+++|+++|+|++++++
T Consensus       246 ~~~~~~~~l~~~~~~~Ar~~~~~a~~~l~~lp~~~r~~v~~a~~~y~~iL~~i~~~~~~v~~~R~~l~~~~Kl~~~~~~~  325 (334)
T PLN02632        246 KVTDKWRAFMKFQIKRARMYFAEAEEGVSELDPASRWPVWASLLLYRQILDAIEANDYDNFTKRAYVGKWKKLLALPLAY  325 (334)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHhHhhCCHHhHHHHHHHHHHHHHHHHHHHHcCCCcCCCCCccCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             Hhh
Q 036368          373 NRA  375 (378)
Q Consensus       373 ~~~  375 (378)
                      +++
T Consensus       326 ~~~  328 (334)
T PLN02632        326 ARA  328 (334)
T ss_pred             Hhh
Confidence            764

>TIGR03464 HpnC squalene synthase HpnC Back     alignment and domain information
>TIGR03465 HpnD squalene synthase HpnD Back     alignment and domain information
>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head Back     alignment and domain information
>PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2 Back     alignment and domain information
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism] Back     alignment and domain information
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase Back     alignment and domain information
>KOG4411 consensus Phytoene/squalene synthetase [Lipid transport and metabolism] Back     alignment and domain information
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism] Back     alignment and domain information
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases Back     alignment and domain information
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1 Back     alignment and domain information
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism] Back     alignment and domain information
>TIGR02749 prenyl_cyano solanesyl diphosphate synthase Back     alignment and domain information
>PLN02890 geranyl diphosphate synthase Back     alignment and domain information
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail Back     alignment and domain information
>PRK10888 octaprenyl diphosphate synthase; Provisional Back     alignment and domain information
>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II Back     alignment and domain information
>PRK10581 geranyltranstransferase; Provisional Back     alignment and domain information
>PLN02857 octaprenyl-diphosphate synthase Back     alignment and domain information
>CHL00151 preA prenyl transferase; Reviewed Back     alignment and domain information
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism] 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
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1 Back     alignment and domain information
>cd00684 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, Class 1 Back     alignment and domain information
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family 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 ?
Query378
4hd1_A294 Crystal Structure Of Squalene Synthase Hpnc From Al 8e-23
3ae0_A293 Crystal Structure Of The C(30) Carotenoid Dehydrosq 1e-22
4f6v_A292 Crystal Structure Of Dehydrosqualene Synthase (Crtm 2e-22
2zco_A293 Crystal Structure Of The C(30) Carotenoid Dehydrosq 2e-22
4e9u_A287 Crystal Structure Of Dehydrosqualene Synthase (Crtm 2e-22
3vjd_A293 Crystal Structure Of The Y248a Mutant Of C(30) Caro 3e-21
3adz_A293 Crystal Structure Of The C(30) Carotenoid Dehydrosq 3e-21
>pdb|4HD1|A Chain A, Crystal Structure Of Squalene Synthase Hpnc From Alicyclobacillus Acidocaldarius Length = 294 Back     alignment and structure 
Iteration: 1

 Score =  104 bits (260), Expect = 8e-23,   Method: Compositional matrix adjust.
 Identities = 80/283 (28%), Positives = 129/283 (45%), Gaps = 20/283 (7%)
Query: 89  PMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMG 148
           P+ L   +E CR +   + + F + +L +    +   +++Y +CR  D+L D     + G
Sbjct: 8   PVELRGDFEVCRRLTRSHYENFSVVSLFVPRHLRPHFYSVYAFCRGVDDLGD----EFAG 63
Query: 149 S--VVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYE 206
                LD +EE L+  F G        AL  T+    L  +PF  +IE  R D RK  Y+
Sbjct: 64  DRXAALDAYEEELRRAFAGEATTPAFRALQFTIATCNLPXEPFLRLIEANRRDQRKHTYD 123
Query: 207 DFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGED 266
            +++L  YC Y A  VG + + + G   D  +        AL      Q+ N  +D+  D
Sbjct: 124 TWEDLRDYCRYSADPVGRLVLGIFGCLDDERARLSDATCTAL------QVANHXQDIDRD 177
Query: 267 ASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKD 326
            + GR+Y+P+ +L QFG    D+ AR+ TD  R  +  ++ RA+  F+   EG  +L+  
Sbjct: 178 LALGRIYVPRADLEQFGATLDDIRARRATDGVRRCIALEVDRAQALFD---EG-RRLESL 233
Query: 327 SRWPVWSSLLIYR----EILDAIEENDYDNLTKRAYVGRMKKF 365
               +   L +YR     IL AI    Y+    R  V   +K 
Sbjct: 234 VPPRLARQLKLYRLGGEAILAAIRRQGYNPFAGRPVVSGKQKL 276
>pdb|3AE0|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene Synthase From Staphylococcus Aureus Complexed With Geranylgeranyl Thiopyrophosphate Length = 293 Back     alignment and structure
>pdb|4F6V|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From S. Aureus Complexed With Bph-1034, Mg2+ And Fmp. Length = 292 Back     alignment and structure
>pdb|2ZCO|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene Synthase From Staphylococcus Aureus Length = 293 Back     alignment and structure
>pdb|4E9U|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From S. Aureus Complexed With A Thiocyanate Inhibitor Length = 287 Back     alignment and structure
>pdb|3VJD|A Chain A, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid Dehydrosqualene Synthase From Staphylococcus Aureus Length = 293 Back     alignment and structure
>pdb|3ADZ|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene Synthase From Staphylococcus Aureus Complexed With Intermediate Pspp Length = 293 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 ?
Query378
3acx_A293 Dehydrosqualene synthase; CRTM, carotenoid biosynt 1e-131
3vj8_A343 Squalene synthase; farnesyl-diphosphate farnesyltr 2e-84
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
>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* ... Length = 293 Back     alignment and structure
 Score =  376 bits (968), Expect = e-131
 Identities = 70/288 (24%), Positives = 134/288 (46%), Gaps = 9/288 (3%)

Query: 92  LEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVV 151
           ++  ++ C  I  +++K+F     L+ E+++KA+WAIY  CR+ D+ +D        + +
Sbjct: 10  MDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQI 69

Query: 152 ---LDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDF 208
              +   E+   +  + +    +  AL        +  + F ++I+ +  D     +E  
Sbjct: 70  KEDIQSIEKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFETD 129

Query: 209 QELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDAS 268
            EL+ YCY VAGTVG +  P++       +     Y+ A  LG   QL NILRDVGED  
Sbjct: 130 AELFGYCYGVAGTVGEVLTPILSDHETHQT-----YDVARRLGESLQLINILRDVGEDFE 184

Query: 269 RGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDSR 328
             R+Y  +  L Q+ +   +V+   V +++ +  +     A   F    +       +++
Sbjct: 185 NERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEAQ 244

Query: 329 WPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRAQ 376
             +  +  IY EILD + + +Y  L +R +V + KK  +  +  ++  
Sbjct: 245 PIIELAARIYIEILDEVRQANY-TLHERVFVEKRKKAKLFHEINSKYH 291
>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* 3asx_A* 3lee_A* 3q2z_A* 3q30_A* 1ezf_A* Length = 343 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 ?
Query378
4hd1_A294 Squalene synthase HPNC; MCSG, structural genomics, 100.0
3acx_A293 Dehydrosqualene synthase; CRTM, carotenoid biosynt 100.0
3vj8_A343 Squalene synthase; farnesyl-diphosphate farnesyltr 100.0
3rmg_A334 Octaprenyl-diphosphate synthase; structural genomi 96.47
3nf2_A352 Putative polyprenyl synthetase; isoprenyl diphosph 96.43
2q80_A301 Geranylgeranyl pyrophosphate synthetase; isoprenoi 96.27
1wmw_A330 Geranylgeranyl diphosphate synthetase; GGPP, preny 96.07
3apz_A348 Geranyl diphosphate synthase; prenyltransferase, a 96.04
2e8v_A340 Geranylgeranyl pyrophosphate synthetase; prenyltra 95.99
2her_A368 Fragment, farnesyl pyrophosphate synthase; farnesy 95.91
4f62_A317 Geranyltranstransferase; enzyme function initiativ 95.82
2qis_A374 Farnesyl pyrophosphate synthetase; trans-prenyltra 95.71
3ts7_A324 Geranyltranstransferase; isoprenoid synthesis, far 95.65
1v4e_A299 Octoprenyl-diphosphate synthase; trans-type prenyl 95.64
3p8r_A302 Geranyltranstransferase; isoprenyl synthase, struc 95.55
3lk5_A380 Geranylgeranyl pyrophosphate synthase; structural 95.55
4dhd_A358 Polyprenyl synthetase; isoprenoid synthesis, isopr 95.48
1wy0_A342 Geranylgeranyl pyrophosphate synthetase; pyrococcu 95.45
3lom_A313 Geranyltranstransferase; geranyltransferase, struc 95.44
3mzv_A341 Decaprenyl diphosphate synthase; transferase, stru 95.35
1uby_A367 FPS, farnesyl diphosphate synthase; transferase, i 95.33
3lmd_A360 Geranylgeranyl pyrophosphate synthase; isoprenyl d 95.31
3uca_A324 Geranyltranstransferase; isoprenoid synthesis, iso 95.24
3p8l_A302 Geranyltranstransferase; isoprenyl synthase, struc 95.24
1ps1_A337 Pentalenene synthase; antibiotic biosynthesis, ses 95.2
3kb9_A382 EPI-isozizaene synthase; terpenoid cyclase, alpha- 95.19
3pko_A334 Geranylgeranyl pyrophosphate synthase; isoprenyl d 95.14
2ihi_A395 Pyrophosphate synthase; PV092040, structural genom 95.07
1rtr_A301 Geranyltranstransferase; 2.50A {Staphylococcus aur 95.01
3lsn_A304 Geranyltranstransferase; structural genomics, prot 94.92
3tc1_A315 Octaprenyl pyrophosphate synthase; all alpha-helic 94.62
3aqb_B325 Component B of hexaprenyl diphosphate synthase; pr 94.56
3oyr_A345 Trans-isoprenyl diphosphate synthase; isoprenyl sy 94.47
1yhl_A362 Farnesyl pyrophosphate synthase; farnesyl diphosph 94.19
3pde_A309 Farnesyl-diphosphate synthase; isoprenyl diphospha 93.85
3ipi_A295 Geranyltranstransferase; isoprene biosynthesis, he 93.79
2h8o_A335 Geranyltranstransferase; geranyltransferase,agroba 93.45
3dyh_A390 Farnesyl pyrophosphate synthase; protein-bisphosph 93.36
3m0g_A297 Farnesyl diphosphate synthase; structural genomics 93.16
2ftz_A284 Geranyltranstransferase; TM0161, structural GE joi 92.45
2j1p_A293 Geranylgeranyl pyrophosphate synthetase; transfera 92.44
1di1_A300 Aristolochene synthase; sesquiterpene cyclase, iso 92.4
1rqj_A299 Geranyltranstransferase; bisphosphonate, isoprenyl 92.28
1n1b_A549 (+)-bornyl diphosphate synthase; terpene synthase 91.92
2azj_A289 Geranylgeranyl pyrophosphate synthetase; hexpps, t 91.46
3mav_A395 Farnesyl pyrophosphate synthase; PV092040, structu 90.22
3npk_A291 Geranyltranstransferase; isoprene biosynthesis, SG 89.53
2ong_A543 4S-limonene synthase; monoterpene synthase, monote 88.57
3llw_A311 Geranyltranstransferase (ISPA); structural genomic 87.89
3kra_B274 Geranyl diphosphate synthase small subunit; prenyl 87.21
3n0f_A555 Isoprene synthase; terpene cyclase fold, hemiterpe 86.28
3g4d_A554 (+)-delta-cadinene synthase isozyme XC1; cyclase, 85.98
3m00_A550 Aristolochene synthase; plant terpenoid cyclase, l 85.64
2j5c_A569 1,8-cineole synthase; terpene synthases, 1, monote 85.39
2q58_A368 Fragment, farnesyl pyrophosphate synthase; farnesy 84.89
>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
Probab=100.00  E-value=5.1e-68  Score=513.82  Aligned_cols=280  Identities=26%  Similarity=0.397  Sum_probs=247.9

Q ss_pred             ChhhHHHHHHHHHHHHHhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhccCCCCCcccHHHHHHHHHHHHHHHcCCC
Q 036368           88 HPMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRWEERLQDIFYGRP  167 (378)
Q Consensus        88 ~~~~l~~a~~~C~~i~r~~s~sfyla~~llP~~~R~al~aLYAf~R~~DdivD~~~~~~~~~~~L~~Wr~~L~~i~~g~p  167 (378)
                      .++.++++|++|.++++++|+|||++++|||++.|+++++||+|||.+|||+|++..  .+..+|+||++.|++++.|.|
T Consensus         7 ~p~~l~~~y~~C~~i~~~~~~sF~~a~~~lp~~~R~~~~alYaf~R~~Ddi~D~~~~--~~~~~L~~~~~~l~~~~~g~~   84 (294)
T 4hd1_A            7 VPVELRGDFEVCRRLTRSHYENFSVVSLFVPRHLRPHFYSVYAFCRGVDDLGDEFAG--DRMAALDAYEEELRRAFAGEA   84 (294)
T ss_dssp             SCGGGHHHHHHHHHHHHHHCTTHHHHTTTCCTTTHHHHHHHHHHHHHHHHTSTTCCS--CHHHHHHHHHHHHHHHHHTCC
T ss_pred             CCHHHHHHHHHHHHHHHHhCCcHHHHHHHCCHHHHHHHHHHHHHHHHHHHhccCCCh--hHHHHHHHHHHHHHHHhcCCC
Confidence            467899999999999999999999999999999999999999999999999998764  345789999999999999999


Q ss_pred             CcHHHHHHHHHHHhCCCChHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchhhHHHHH
Q 036368          168 YDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGA  247 (378)
Q Consensus       168 ~~pv~~aL~~~v~~~~l~~~~l~~lieg~~~DL~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~~~~~~A  247 (378)
                      .||+..+|.+++++|+||.++|.+||+||++|+.+.+|+|++||+.|||+|||+||+|+++++|..+      +...+.|
T Consensus        85 ~~pv~~al~~~~~~~~l~~~~~~~li~g~~~Dl~~~~~~t~~dL~~Y~~~vAg~VG~m~~~i~g~~~------~~~~~~A  158 (294)
T 4hd1_A           85 TTPAFRALQFTIATCNLPMEPFLRLIEANRRDQRKHTYDTWEDLRDYCRYSADPVGRLVLGIFGCLD------DERARLS  158 (294)
T ss_dssp             CSHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHHHCSBCCSHHHHHHHHHHHTHHHHHHHHHHTTCCS------HHHHHHH
T ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccchHHHHHHHHhCCCC------HHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999764      3456889


Q ss_pred             HHHHHHHHHHHHHHhHHHHHhcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhhccCccC
Q 036368          248 LNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDS  327 (378)
Q Consensus       248 ~~LG~AlQLtNiLRDl~eD~~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~~Lp~~~  327 (378)
                      .++|+|+||||||||++||+++||||||.|+|++||++++|+..+..+++++.++.+++++|+.||++|+.++..||+++
T Consensus       159 ~~lG~AlQltNilRDv~eD~~~gR~YlP~~~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~~  238 (294)
T 4hd1_A          159 DATCTALQVANHMQDIDRDLALGRIYVPRADLEQFGATLDDIRARRATDGVRRCIALEVDRAQALFDEGRRLESLVPPRL  238 (294)
T ss_dssp             HHHHHHHHHHHHHHTHHHHHHTTCBCSCHHHHHTTTCCHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSSCHHH
T ss_pred             HHHHHHHHHHHHHHhchhhhccCceeCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHCCCCCCCCCcccChHHHHHHHHHHHHhh
Q 036368          328 RWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRA  375 (378)
Q Consensus       328 r~~v~~~~~ly~~iL~~Ie~~~~~vf~~r~~ls~~~kl~~l~~a~~~~  375 (378)
                      ++++.++..+|+.||++|+++||++|++|+++|+++|+|++|+++.+.
T Consensus       239 r~~~~~~~~~y~~il~~i~~~~~~~~~~R~~vs~~~Kl~l~~~al~~~  286 (294)
T 4hd1_A          239 ARQLKLYRLGGEAILAAIRRQGYNPFAGRPVVSGKQKLRIALSVLAGG  286 (294)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTTCCC----------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCccCHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999998765
>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
>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
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron} 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
>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
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate synthase, structural genom riken structural genomics/proteomics initiative; 1.55A {Thermus thermophilus} 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
>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
>4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP} 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
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus} 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
>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
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein structure initiative, geranylge pyrophosphate synthase; 1.90A {Corynebacterium glutamicum} PDB: 3qqv_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
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii} Back     alignment and structure
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp} Back     alignment and structure
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} 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
>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
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid diphosphate synthase; 2.00A {Clostridium perfringens} Back     alignment and structure
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis} 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
>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
>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
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1 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
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori} 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
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} 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
>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
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle, protein structure initiative II (PSI II), structural genomics, nysgxrc; 1.90A {Methanosarcina mazei} 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
>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
>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
>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
>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
>1di1_A Aristolochene synthase; sesquiterpene cyclase, isoprenoid biosynthesis, lyase; 2.50A {Penicillium roqueforti} SCOP: a.128.1.4 PDB: 1dgp_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
>1n1b_A (+)-bornyl diphosphate synthase; terpene synthase fold, isomerase; 2.00A {Salvia officinalis} SCOP: a.102.4.1 a.128.1.3 PDB: 1n1z_A* 1n20_A* 1n21_A* 1n22_A* 1n23_A* 1n24_A* Back     alignment and structure
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_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
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural genomics protein structure initiative; 1.50A {Campylobacter jejuni} Back     alignment and structure
>2ong_A 4S-limonene synthase; monoterpene synthase, monoterpene cyclase, geranyl diphosphate, 2 fluorogeranyl diphosphate linalyl diphosphate; HET: FPG BTB; 2.70A {Mentha spicata} PDB: 2onh_A* 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
>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
>3n0f_A Isoprene synthase; terpene cyclase fold, hemiterpene synthase, DDXXD motif, NSE motif, lyase; 2.70A {Populus tremula x populus alba} PDB: 3n0g_A* Back     alignment and structure
>3g4d_A (+)-delta-cadinene synthase isozyme XC1; cyclase, lyase, magnesium, metal-binding; 2.40A {Gossypium arboreum} PDB: 3g4f_A* Back     alignment and structure
>3m00_A Aristolochene synthase; plant terpenoid cyclase, lyase binding domain, (2-CIS, 6-trans)-2-fluorofarnesyl diphospha magnesium, metal-binding; HET: 2CF; 2.10A {Nicotiana tabacum} PDB: 3lz9_A* 3m02_A* 3m01_A* 5eau_A* 1hxa_A* 1hx9_A* 1hxc_A* 5eas_A 1hxg_A 4di5_A* 5eat_A* Back     alignment and structure
>2j5c_A 1,8-cineole synthase; terpene synthases, 1, monoterpene, lyase; 1.95A {Salvia fruticosa} 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

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 378
d1ezfa_333 a.128.1.2 (A:) Squalene synthase {Human (Homo sapi 9e-63
>d1ezfa_ a.128.1.2 (A:) Squalene synthase {Human (Homo sapiens) [TaxId: 9606]} Length = 333 Back     information, alignment and structure

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Squalene synthase
domain: Squalene synthase
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  202 bits (514), Expect = 9e-63
 Identities = 50/294 (17%), Positives = 96/294 (32%), Gaps = 13/294 (4%)

Query: 95  AYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSV-VLD 153
           + + C     + +++F      +  E + A+   Y+  R  D L D    +    V +L 
Sbjct: 2   SLKTCYKYLNQTSRSFAAVIQALDGEMRNAVCIFYLVLRALDTLEDDMTISVEKKVPLLH 61

Query: 154 RWEERLQDIFYGRP------------YDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTR 201
            +   L    +               +  +     +   K+   I      +     +  
Sbjct: 62  NFHSFLYQPDWRFMESKEKDRQVLEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFL 121

Query: 202 KFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILR 261
                  QE   YC+YVAG VG+    +   +             A ++G+  Q TNI+R
Sbjct: 122 DKHVTSEQEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIR 181

Query: 262 DVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGAS 321
           D  ED   GR + PQ+  +++     D    +  D   + + E I  A           S
Sbjct: 182 DYLEDQQGGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLS 241

Query: 322 QLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQAYNRA 375
           +L   S +   +   +      A   N+         + + +   ++  A N  
Sbjct: 242 RLRNQSVFNFCAIPQVMAIATLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMP 295

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query378
d1ezfa_333 Squalene synthase {Human (Homo sapiens) [TaxId: 96 100.0
d1ps1a_311 Pentalenene synthase {Streptomyces sp., UC5319 [Ta 96.22
d2q80a1291 Geranylgeranyl pyrophosphate synthetase {Human (Ho 95.14
d1fpsa_348 Farnesyl diphosphate synthase (geranyltranstransfe 94.16
d1v4ea_280 Octoprenyl-diphosphate synthase {Thermotoga mariti 93.07
d5easa2328 5-Epi-aristolochene synthase {Tobacco (Nicotiana t 91.38
d1di1a_300 Aristolochene synthase {Fungus (Penicillium roquef 90.88
d1n1ba2328 (+)-bornyl diphosphate synthase {Garden sage (Salv 90.73
d1kiya_354 Trichodiene synthase {Fusarium sporotrichioides [T 89.91
d1rqja_299 Farnesyl diphosphate synthase (geranyltranstransfe 89.52
d1rtra_290 Farnesyl diphosphate synthase (geranyltranstransfe 87.88
>d1ezfa_ a.128.1.2 (A:) Squalene synthase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Squalene synthase
domain: Squalene synthase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.3e-54  Score=418.91  Aligned_cols=277  Identities=17%  Similarity=0.123  Sum_probs=227.3

Q ss_pred             HHHHHHHHHHhcCcchHHHHhcCCHHHHHHHHHHHHHHHHhhhhccCCCCC-cccHHHHHHHHHHHHHHHcCC-----CC
Q 036368           95 AYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNAT-YMGSVVLDRWEERLQDIFYGR-----PY  168 (378)
Q Consensus        95 a~~~C~~i~r~~s~sfyla~~llP~~~R~al~aLYAf~R~~DdivD~~~~~-~~~~~~L~~Wr~~L~~i~~g~-----p~  168 (378)
                      ++++|.++++++|+|||+++++||+++|++++++|+|||.+|||+|++..+ ..+...|++|++.+.+...+.     +.
T Consensus         2 sl~~C~~~l~~~SrSF~~a~~~Lp~~~R~~v~~lYafcR~~DdI~D~~~~~~~~k~~~L~~~~~~l~~~~~~~~~~~~~~   81 (333)
T d1ezfa_           2 SLKTCYKYLNQTSRSFAAVIQALDGEMRNAVCIFYLVLRALDTLEDDMTISVEKKVPLLHNFHSFLYQPDWRFMESKEKD   81 (333)
T ss_dssp             HHHHHHHHHHHHCSSHHHHHHTSCTHHHHHHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHHTTCTTCCCCCCCSTT
T ss_pred             hHHHHHHHHHhhCccHHHHHHHCCHHHHHHHHHHHHHHHHhhhhHhCCCCCHHHHHHHHHHHHHHHHHhhhcccccCcch
Confidence            689999999999999999999999999999999999999999999987654 345567899998887654332     22


Q ss_pred             cH-------HHHHHHHHHHhCCCChHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhHHHHHHHhhhCcCCCCCCchh
Q 036368          169 DM-------LDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQ  241 (378)
Q Consensus       169 ~p-------v~~aL~~~v~~~~l~~~~l~~lieg~~~DL~~~~~~t~~dL~~Y~~~vAG~VG~l~~~ilg~~~~~~~~~~  241 (378)
                      ++       +..++..+...+..+...+.+.+.++.+|+.+.+|+|++||+.|||+|||+||+|+++++|..+......+
T Consensus        82 ~~ll~~~~~v~~~~~~l~~~~~~~i~~~~~~m~~gm~d~~~~~~~t~~dL~~Ycy~VAG~VG~~l~~l~~~~~~~~~~~~  161 (333)
T d1ezfa_          82 RQVLEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVG  161 (333)
T ss_dssp             HHHHHTHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHTSCCCSHHHHHHHHHHHTHHHHHHHHHHHHHHTSSCHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHhccchHHHHHHHhccHHHHccCcCCCHHHHHHHHHHHHHHHHHHHHHHhCcCCCccccHH
Confidence            34       44444444445555555555555555555556789999999999999999999999999998654333345


Q ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCCCCHHhHHhcCCChHhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 036368          242 SIYNGALNLGVGNQLTNILRDVGEDASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGAS  321 (378)
Q Consensus       242 ~~~~~A~~LG~AlQLtNiLRDl~eD~~~GR~YLP~d~L~~~Gvs~edl~~~~~~~~~~~~~~~l~~~A~~~l~~A~~~~~  321 (378)
                      +..+.|.+||+|+|+||||||++||+++||||||.|+|++||++++++.+++.++++..++.+++++|+.||+.|..++.
T Consensus       162 ~~~~~A~~lG~AlQltNIlRDi~eD~~~gR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~~~~l~~~A~~~~~~a~~y~~  241 (333)
T d1ezfa_         162 EDTERANSMGLFLQKTNIIRDYLEDQQGGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLS  241 (333)
T ss_dssp             HCHHHHHHHHHHHHHHHHHHTHHHHHHHTCCCSCHHHHTTTCSSGGGGGSGGGHHHHHHHHHHHHHHHHTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHhCCcEECCHHHHHHcCCCHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCcccChHHHHHHHHHH
Q 036368          322 QLDKDSRWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKKFLMLPQA  371 (378)
Q Consensus       322 ~Lp~~~r~~v~~~~~ly~~iL~~Ie~~~~~vf~~r~~ls~~~kl~~l~~a  371 (378)
                      .||..+++.+.+...+|..+.-++.++|+++|++++++++..+..++.++
T Consensus       242 ~lp~~~~~~~~~~~~~~a~~tl~~~~~~~~~~~~~vkisr~~~~~l~~~~  291 (333)
T d1ezfa_         242 RLRNQSVFNFCAIPQVMAIATLAACYNNQQVFKGAVKIRKGQAVTLMMDA  291 (333)
T ss_dssp             TCCCHHHHHHHHHHHHHHHHHHHHHTTCGGGGTSCCCC----------CT
T ss_pred             HCCchhHHHHHHHHHHHHHHHHHHHHcCchhcCCCeEeeHHHHHHHHHHh
Confidence            99998888887888888888888889999999999999999998776443
>d1ps1a_ a.128.1.4 (A:) Pentalenene synthase {Streptomyces sp., UC5319 [TaxId: 1931]} Back     information, alignment and structure
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} 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
>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d5easa2 a.128.1.3 (A:221-548) 5-Epi-aristolochene synthase {Tobacco (Nicotiana tabacum) [TaxId: 4097]} Back     information, alignment and structure
>d1di1a_ a.128.1.4 (A:) Aristolochene synthase {Fungus (Penicillium roqueforti) [TaxId: 5082]} Back     information, alignment and structure
>d1n1ba2 a.128.1.3 (A:271-598) (+)-bornyl diphosphate synthase {Garden sage (Salvia officinalis) [TaxId: 38868]} Back     information, alignment and structure
>d1kiya_ a.128.1.5 (A:) Trichodiene synthase {Fusarium sporotrichioides [TaxId: 5514]} Back     information, alignment and structure
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure