Citrus Sinensis ID: 022527

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-----
MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLSRVEAIQKACMDSGVLNKRKSYIIQSELRYSSTMIVIFFIILAIIFSYLSSTRASK
cccccHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHcHHHHHHccccccccccHHHHHHccccHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEcHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcccccc
cccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccHHHHccEEEEccHHHHHHHHccccHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccc
MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEvesiddydeyCYYVAGLVGLGLSKLFyasgtedlapdslsnsmglflqKTNIIRDYLEDineipkcrmfwprEIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYdfsnilkpkinkndpnatkTLSRVEAIQKACMdsgvlnkrksYIIQSELRYSSTMIVIFFIILAIIFSYLSSTRASK
MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIpkcrmfwprEIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTakvidrtnnmtDVYLAFYDfsnilkpkinkndpnaTKTLSRVEAIQKacmdsgvlnkrKSYIIQSELRYSSTMIVIFFIILAIIFSYLSSTRASK
MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLSRVEAIQKACMDSGVLNKRKSYIIQSELRYSSTMiviffiilaiifSYLSSTRASK
*****HVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKIN********TLSRVEAIQKACMDSGVLNKRKSYIIQSELRYSSTMIVIFFIILAIIFSYL*******
MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKP*****DPNATKTLSRVEAIQKAC*********************STMIVIFFIILAIIFSY*SST****
MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLSRVEAIQKACMDSGVLNKRKSYIIQSELRYSSTMIVIFFIILAIIFSYLSSTRASK
MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLSRVEAIQKACMDSGVLNKRKSYIIQSELRYSSTMIVIFFIILAIIFSYLSST****
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiii
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooo
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MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLSRVEAIQKACMDSGVLNKRKSYIIQSELRYSSTMIVIFFIILAIIFSYLSSTRASK
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 ?
Query295 2.2.26 [Sep-21-2011]
P53800411 Squalene synthase OS=Nico N/A no 0.993 0.712 0.815 1e-134
P53799410 Squalene synthase OS=Arab yes no 0.979 0.704 0.753 1e-131
Q9SDW9461 Squalene synthase OS=Botr N/A no 0.844 0.540 0.536 8e-73
Q54DR1416 Squalene synthase OS=Dict yes no 0.840 0.596 0.5 2e-69
P53798416 Squalene synthase OS=Mus yes no 0.945 0.670 0.453 2e-68
Q02769416 Squalene synthase OS=Ratt yes no 0.945 0.670 0.453 3e-68
Q5R6U3417 Squalene synthase OS=Pong yes no 0.945 0.669 0.443 4e-66
P37268417 Squalene synthase OS=Homo yes no 0.945 0.669 0.443 4e-66
Q32KR6417 Squalene synthase OS=Bos yes no 0.945 0.669 0.450 1e-65
G0Y287465 Botryococcus squalene syn N/A no 0.844 0.535 0.507 3e-65
>sp|P53800|FDFT_NICBE Squalene synthase OS=Nicotiana benthamiana PE=2 SV=1 Back     alignment and function desciption
 Score =  478 bits (1230), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 239/293 (81%), Positives = 259/293 (88%)

Query: 1   MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGL 60
           MDQFHHVSTAFLEL K YQ AIEDIT RMGAGMAKFICKEVE+ DDYDEYC+YVAGLVGL
Sbjct: 119 MDQFHHVSTAFLELRKHYQQAIEDITMRMGAGMAKFICKEVETTDDYDEYCHYVAGLVGL 178

Query: 61  GLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVN 120
           GLSKLF+AS  EDLA DSLSNSMGLFLQKTNIIRDYLEDINE+PKCRMFWPREIWSKYVN
Sbjct: 179 GLSKLFHASEKEDLASDSLSNSMGLFLQKTNIIRDYLEDINEVPKCRMFWPREIWSKYVN 238

Query: 121 KLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLA 180
           KLE+LKYE+NS KAVQCLNDMVTNAL HVEDCL YMSALRD +IFRFCAIPQ+MAIGTLA
Sbjct: 239 KLEELKYEDNSAKAVQCLNDMVTNALPHVEDCLTYMSALRDPSIFRFCAIPQVMAIGTLA 298

Query: 181 LCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLS 240
           +CY+NIEVFRGVVKMRRGLTAKVIDRT  + DVY AF+DFS +LK K+N NDPNATKTL 
Sbjct: 299 MCYDNIEVFRGVVKMRRGLTAKVIDRTRTIADVYGAFFDFSCMLKSKVNNNDPNATKTLK 358

Query: 241 RVEAIQKACMDSGVLNKRKSYIIQSELRYSSTMIVIFFIILAIIFSYLSSTRA 293
           R+E I K C DSG LNKRKSYII+SE  YS  +IV+ FIILAII + LS  R+
Sbjct: 359 RLEVILKTCRDSGTLNKRKSYIIRSEPNYSPVLIVVIFIILAIILAQLSGNRS 411

Nicotiana benthamiana (taxid: 4100)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 2EC: 1
>sp|P53799|FDFT_ARATH Squalene synthase OS=Arabidopsis thaliana GN=SQS1 PE=2 SV=1 Back     alignment and function description
>sp|Q9SDW9|BSS_BOTBR Squalene synthase OS=Botryococcus braunii GN=BSS PE=1 SV=1 Back     alignment and function description
>sp|Q54DR1|FDFT_DICDI Squalene synthase OS=Dictyostelium discoideum GN=fdfT PE=3 SV=1 Back     alignment and function description
>sp|P53798|FDFT_MOUSE Squalene synthase OS=Mus musculus GN=Fdft1 PE=2 SV=2 Back     alignment and function description
>sp|Q02769|FDFT_RAT Squalene synthase OS=Rattus norvegicus GN=Fdft1 PE=2 SV=1 Back     alignment and function description
>sp|Q5R6U3|FDFT_PONAB Squalene synthase OS=Pongo abelii GN=FDFT1 PE=2 SV=1 Back     alignment and function description
>sp|P37268|FDFT_HUMAN Squalene synthase OS=Homo sapiens GN=FDFT1 PE=1 SV=1 Back     alignment and function description
>sp|Q32KR6|FDFT_BOVIN Squalene synthase OS=Bos taurus GN=FDFT1 PE=2 SV=1 Back     alignment and function description
>sp|G0Y287|BOSS_BOTBR Botryococcus squalene synthase OS=Botryococcus braunii GN=SSL-2 PE=1 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 ?
Query295
386649283392 squalene synthase [Azadirachta indica] 0.996 0.75 0.877 1e-151
255641455 413 unknown [Glycine max] 0.989 0.707 0.839 1e-146
351726622 413 squalene synthase [Glycine max] gi|24635 0.989 0.707 0.839 1e-145
224924202 415 squalene synthase [Diospyros kaki] 0.989 0.703 0.832 1e-144
356538706 413 PREDICTED: squalene synthase-like [Glyci 0.989 0.707 0.828 1e-144
414073181387 squalene synthase, partial [Eriobotrya j 0.986 0.751 0.835 1e-143
432139331 414 squalene synthase [Camellia oleifera] 0.996 0.710 0.826 1e-143
225427738 413 PREDICTED: squalene synthase [Vitis vini 0.989 0.707 0.835 1e-142
255543839 412 farnesyl-diphosphate farnesyltransferase 0.993 0.711 0.823 1e-142
327243159 415 squalene synthase [Eleutherococcus senti 0.986 0.701 0.835 1e-142
>gi|386649283|gb|AFJ15526.1| squalene synthase [Azadirachta indica] Back     alignment and taxonomy information
 Score =  539 bits (1389), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 258/294 (87%), Positives = 276/294 (93%)

Query: 1   MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGL 60
           MDQFH VSTAFLELGKGYQ+AIEDITKRMGAGMAKFICKEVE+IDDYDEYC+YVAGLVGL
Sbjct: 98  MDQFHLVSTAFLELGKGYQEAIEDITKRMGAGMAKFICKEVETIDDYDEYCHYVAGLVGL 157

Query: 61  GLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVN 120
           GLSKLF+ASG EDL P +LSNSMGLFLQKTNIIRDYLEDINEIPK RMFWPREIWSKYVN
Sbjct: 158 GLSKLFHASGKEDLVPVTLSNSMGLFLQKTNIIRDYLEDINEIPKSRMFWPREIWSKYVN 217

Query: 121 KLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLA 180
           KLEDLKYEENS KAVQCLNDMVTNAL HVEDCLKYMSALRD AIFRFCAIPQIMAIGTLA
Sbjct: 218 KLEDLKYEENSVKAVQCLNDMVTNALNHVEDCLKYMSALRDPAIFRFCAIPQIMAIGTLA 277

Query: 181 LCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLS 240
           LCYNNIEVFRGVVKMRRGLTAK IDRTN M DVY AFYDFS +LKPKIN+NDPNATKTLS
Sbjct: 278 LCYNNIEVFRGVVKMRRGLTAKAIDRTNKMADVYGAFYDFSCMLKPKINENDPNATKTLS 337

Query: 241 RVEAIQKACMDSGVLNKRKSYIIQSELRYSSTMIVIFFIILAIIFSYLSSTRAS 294
           RVEAIQKACM+SG+LN+RKSYIIQ E +Y++TMI++ FIILAIIF+YLS+ R +
Sbjct: 338 RVEAIQKACMESGLLNRRKSYIIQREPKYNTTMIIMLFIILAIIFAYLSANRPN 391

Source: Azadirachta indica

Species: Azadirachta indica

Genus: Azadirachta

Family: Meliaceae

Order: Sapindales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255641455|gb|ACU21003.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|351726622|ref|NP_001236365.1| squalene synthase [Glycine max] gi|2463569|dbj|BAA22559.1| squalene synthase [Glycine max] Back     alignment and taxonomy information
>gi|224924202|gb|ACN69082.1| squalene synthase [Diospyros kaki] Back     alignment and taxonomy information
>gi|356538706|ref|XP_003537842.1| PREDICTED: squalene synthase-like [Glycine max] Back     alignment and taxonomy information
>gi|414073181|gb|AFI33135.2| squalene synthase, partial [Eriobotrya japonica] Back     alignment and taxonomy information
>gi|432139331|gb|AGB05603.1| squalene synthase [Camellia oleifera] Back     alignment and taxonomy information
>gi|225427738|ref|XP_002266150.1| PREDICTED: squalene synthase [Vitis vinifera] gi|297744746|emb|CBI38008.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255543839|ref|XP_002512982.1| farnesyl-diphosphate farnesyltransferase, putative [Ricinus communis] gi|223547993|gb|EEF49485.1| farnesyl-diphosphate farnesyltransferase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|327243159|gb|AEA41712.1| squalene synthase [Eleutherococcus senticosus] gi|327243163|gb|AEA41714.1| squalene synthase [Eleutherococcus senticosus] gi|327243167|gb|AEA41716.1| squalene synthase [Eleutherococcus senticosus] 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 ?
Query295
TAIR|locus:2139514410 SQS1 "squalene synthase 1" [Ar 0.888 0.639 0.799 8.2e-115
TAIR|locus:2139534413 SQS2 "squalene synthase 2" [Ar 0.888 0.634 0.75 4.6e-105
UNIPROTKB|F1NFJ9418 FDFT1 "Uncharacterized protein 0.874 0.617 0.507 1.5e-65
DICTYBASE|DDB_G0292072416 fdfT "farnesyl-diphosphate far 0.840 0.596 0.503 1.4e-64
MGI|MGI:102706416 Fdft1 "farnesyl diphosphate fa 0.874 0.620 0.484 1.1e-62
RGD|61834416 Fdft1 "farnesyl diphosphate fa 0.874 0.620 0.484 1.8e-62
ZFIN|ZDB-GENE-081104-242418 si:ch73-107c13.2 "si:ch73-107c 0.911 0.643 0.460 4.3e-61
UNIPROTKB|E2R6N6417 FDFT1 "Uncharacterized protein 0.874 0.618 0.473 1.9e-60
UNIPROTKB|B3KQ95306 FDFT1 "Squalene synthase" [Hom 0.874 0.843 0.477 1.9e-60
UNIPROTKB|B4DT56332 FDFT1 "cDNA FLJ50660, highly s 0.874 0.777 0.477 1.9e-60
TAIR|locus:2139514 SQS1 "squalene synthase 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1132 (403.5 bits), Expect = 8.2e-115, P = 8.2e-115
 Identities = 211/264 (79%), Positives = 241/264 (91%)

Query:     1 MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGL 60
             MDQFHHVS AFLEL KGYQ+AIE+IT+RMGAGMAKFIC+EVE++DDYDEYC+YVAGLVGL
Sbjct:   119 MDQFHHVSAAFLELEKGYQEAIEEITRRMGAGMAKFICQEVETVDDYDEYCHYVAGLVGL 178

Query:    61 GLSKLFYASGTEDLAPD--SLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKY 118
             GLSKLF A+G+E L PD  ++SNSMGLFLQKTNIIRDYLEDINEIPK RMFWPREIW KY
Sbjct:   179 GLSKLFLAAGSEVLTPDWEAISNSMGLFLQKTNIIRDYLEDINEIPKSRMFWPREIWGKY 238

Query:   119 VNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGT 178
              +KLEDLKYEEN++K+VQCLN+MVTNALMH+EDCLKYM +LRD +IFRFCAIPQIMAIGT
Sbjct:   239 ADKLEDLKYEENTNKSVQCLNEMVTNALMHIEDCLKYMVSLRDPSIFRFCAIPQIMAIGT 298

Query:   179 LALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKT 238
             LALCYNN +VFRGVVK+RRGLTAKVIDRT  M DVY AFYDFS +LK K++KNDPNA+KT
Sbjct:   299 LALCYNNEQVFRGVVKLRRGLTAKVIDRTKTMADVYGAFYDFSCMLKTKVDKNDPNASKT 358

Query:   239 LSRVEAIQKACMDSGVLNKRKSYI 262
             L+R+EA+QK C D+GVL  RKSY+
Sbjct:   359 LNRLEAVQKLCRDAGVLQNRKSYV 382
GO:0004310 "farnesyl-diphosphate farnesyltransferase activity" evidence=IEA;ISS;IDA
GO:0008610 "lipid biosynthetic process" evidence=IEA
GO:0009058 "biosynthetic process" evidence=IEA
GO:0016021 "integral to membrane" evidence=IEA
GO:0016740 "transferase activity" evidence=IEA
GO:0016765 "transferase activity, transferring alkyl or aryl (other than methyl) groups" evidence=IEA
GO:0005783 "endoplasmic reticulum" evidence=IDA
GO:0005886 "plasma membrane" evidence=IDA
GO:0006084 "acetyl-CoA metabolic process" evidence=RCA
GO:0006598 "polyamine catabolic process" evidence=RCA
GO:0009698 "phenylpropanoid metabolic process" evidence=RCA
GO:0016126 "sterol biosynthetic process" evidence=RCA;TAS
GO:0016132 "brassinosteroid biosynthetic process" evidence=RCA
GO:0042398 "cellular modified amino acid biosynthetic process" evidence=RCA
GO:0005789 "endoplasmic reticulum membrane" evidence=TAS
TAIR|locus:2139534 SQS2 "squalene synthase 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1NFJ9 FDFT1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0292072 fdfT "farnesyl-diphosphate farnesyltransferase" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
MGI|MGI:102706 Fdft1 "farnesyl diphosphate farnesyl transferase 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|61834 Fdft1 "farnesyl diphosphate farnesyl transferase 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-081104-242 si:ch73-107c13.2 "si:ch73-107c13.2" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E2R6N6 FDFT1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|B3KQ95 FDFT1 "Squalene synthase" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|B4DT56 FDFT1 "cDNA FLJ50660, highly similar to Squalene synthetase (EC 2.5.1.21)" [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) ?
P53800FDFT_NICBE2, ., 5, ., 1, ., 2, 10.81560.99320.7128N/Ano
P53799FDFT_ARATH2, ., 5, ., 1, ., 2, 10.75340.97960.7048yesno

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 Layer2.5.10.963
4th Layer2.5.1.210.946

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00035946001
SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (413 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00033429001
SubName- Full=Chromosome chr19 scaffold_66, whole genome shotgun sequence; (341 aa)
   • •• 0.972
GSVIVG00012453001
SubName- Full=Chromosome chr7 scaffold_382, whole genome shotgun sequence; (522 aa)
   • •• 0.949
GSVIVG00015002001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (523 aa)
   • •• 0.949
GSVIVG00038545001
SubName- Full=Chromosome chr3 scaffold_95, whole genome shotgun sequence; (524 aa)
   • •• 0.948
GSVIVG00038547001
SubName- Full=Chromosome chr3 scaffold_95, whole genome shotgun sequence; (522 aa)
   • •• 0.948
GSVIVG00007515001
SubName- Full=Chromosome chr7 scaffold_192, whole genome shotgun sequence; (245 aa)
     •• 0.811
GSVIVG00024111001
SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (311 aa)
     •• 0.809
GSVIVG00036415001
SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (255 aa)
     •  0.800
GSVIVG00036188001
SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence (Chromosome undetermine [...] (341 aa)
     •  0.800
GSVIVG00027313001
SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (298 aa)
     •  0.800

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 ?
Query295
TIGR01559337 TIGR01559, squal_synth, farnesyl-diphosphate farne 1e-141
cd00683265 cd00683, Trans_IPPS_HH, Trans-Isoprenyl Diphosphat 1e-63
pfam00494262 pfam00494, SQS_PSY, Squalene/phytoene synthase 1e-38
COG1562288 COG1562, ERG9, Phytoene/squalene synthetase [Lipid 3e-34
cd00867236 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate S 2e-19
cd00385243 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynth 2e-19
PLN02632334 PLN02632, PLN02632, phytoene synthase 4e-07
TIGR03465266 TIGR03465, HpnD, squalene synthase HpnD 1e-05
>gnl|CDD|188157 TIGR01559, squal_synth, farnesyl-diphosphate farnesyltransferase Back     alignment and domain information 
 Score =  401 bits (1033), Expect = e-141
 Identities = 156/255 (61%), Positives = 188/255 (73%), Gaps = 9/255 (3%)

Query: 1   MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEV---ESIDDYDEYCYYVAGL 57
           +D F  VS  FL+L   YQ+ I DIT+RMG GMA FI KEV   +++ DYD+YC+YVAGL
Sbjct: 86  LDDFPVVSLEFLKLKPKYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGL 145

Query: 58  VGLGLSKLFYASGTEDLAPDS---LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREI 114
           VG+GLS+LF ASG ED +      LSNSMGLFLQKTNIIRDYLEDINE    RMFWPREI
Sbjct: 146 VGIGLSRLFVASGFEDPSLGESEALSNSMGLFLQKTNIIRDYLEDINE---GRMFWPREI 202

Query: 115 WSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIM 174
           WSKY  KL D K  ENSDKA+QCLN++VTNAL H  DCL Y+S LRD +IF FCAIPQ+M
Sbjct: 203 WSKYAKKLGDFKKPENSDKALQCLNELVTNALHHATDCLTYLSRLRDQSIFNFCAIPQVM 262

Query: 175 AIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPN 234
           AI TLALCYNN +VF+G VK+R+G T K+I  + NM  VY  FY ++  +  KI+ NDPN
Sbjct: 263 AIATLALCYNNPQVFQGNVKIRKGTTVKLILDSTNMPAVYDIFYRYARKIYHKIDPNDPN 322

Query: 235 ATKTLSRVEAIQKAC 249
            +KTL  +  I++ C
Sbjct: 323 FSKTLIIISKIEQQC 337

This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family. Length = 337
>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|173836 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate Synthases Back     alignment and domain information
>gnl|CDD|173830 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynthesis enzymes, Class 1 Back     alignment and domain information
>gnl|CDD|215339 PLN02632, PLN02632, phytoene synthase Back     alignment and domain information
>gnl|CDD|163278 TIGR03465, HpnD, squalene synthase HpnD Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 295
TIGR01559336 squal_synth farnesyl-diphosphate farnesyltransfera 100.0
KOG1459413 consensus Squalene synthetase [Lipid transport and 100.0
COG1562288 ERG9 Phytoene/squalene synthetase [Lipid metabolis 100.0
TIGR03465266 HpnD squalene synthase HpnD. The genes of this fam 100.0
TIGR03464266 HpnC squalene synthase HpnC. This family of genes 100.0
PLN02632334 phytoene synthase 100.0
PF00494267 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR 100.0
cd00683265 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthase 100.0
KOG4411292 consensus Phytoene/squalene synthetase [Lipid tran 99.5
cd00867236 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. 99.41
cd00385243 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzym 99.31
KOG1459413 consensus Squalene synthetase [Lipid transport and 98.11
cd00685259 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthase 94.23
PLN02890422 geranyl diphosphate synthase 93.61
PRK10888323 octaprenyl diphosphate synthase; Provisional 93.55
PLN02857416 octaprenyl-diphosphate synthase 93.44
TIGR02749322 prenyl_cyano solanesyl diphosphate synthase. Membe 93.41
PRK10581299 geranyltranstransferase; Provisional 92.81
TIGR02748319 GerC3_HepT heptaprenyl diphosphate synthase compon 92.49
CHL00151323 preA prenyl transferase; Reviewed 92.16
PF00348260 polyprenyl_synt: Polyprenyl synthetase; InterPro: 87.31
COG0142322 IspA Geranylgeranyl pyrophosphate synthase [Coenzy 83.66
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase Back     alignment and domain information 
Probab=100.00  E-value=3.7e-71  Score=526.77  Aligned_cols=245  Identities=63%  Similarity=1.040  Sum_probs=234.8

Q ss_pred             CccchHHHHHcccChhhhhHHHHHHHHHHHHHHHhhccc-c--CCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCC---C
Q 022527            2 DQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKE-V--ESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDL---A   75 (295)
Q Consensus         2 ~~f~~v~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~~~-~--~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~---~   75 (295)
                      ++||.|+.+|+.|++.||++|.+|+++|++||++|+.+. +  +|++||+.|||||||+||+|+++||+.+|.++.   .
T Consensus        86 ~~~~~v~~~~~~l~~~~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~~~~~~~~~~~  165 (336)
T TIGR01559        86 DDFPVVSLEFLKLKPKYQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVASGFEDPSLGE  165 (336)
T ss_pred             HhchHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhhcCCCCcchhh
Confidence            579999999999999999999999999999999999865 6  999999999999999999999999976543332   1


Q ss_pred             hhHHHHHHHHHHHHHHHHhchHhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 022527           76 PDSLSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKY  155 (295)
Q Consensus        76 ~~~~A~slG~aLQltNILRD~~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~y  155 (295)
                      ..++|++||+|||+||||||++||++   +||+|||+|+|++||++.+|+.++++++++.+|+++|+.+|+.|+++|+.|
T Consensus       166 ~~~~A~~lG~aLQlTNIlRDv~ED~~---~GR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~~~~~al~y  242 (336)
T TIGR01559       166 SEALSNSMGLFLQKTNIIRDYLEDIN---EGRMFWPREIWSKYAKKLGDFKKPENSDKALQCLNELVTNALHHATDCLTY  242 (336)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhHHh---CCCCCCCHHHHHHcCCCHHHhcCccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35899999999999999999999998   899999999999999999999999999999999999999999999999999


Q ss_pred             HHhchhhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCccccChHHHHHHHHHhcChhhHHHHHHHHHHHhccccCCCCCCH
Q 022527          156 MSALRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNA  235 (295)
Q Consensus       156 l~~l~~~~~~~fcaiP~~mAiatL~~~~~n~~Vf~~~vki~k~~~~~l~~ra~~~~~v~~~f~~~~~~i~~k~~~~dp~~  235 (295)
                      ++.++++++|+||+||++||++||++|++|+++|+++|||||+.++.+|++++|+++|+.+|++|+++|++|++|+||||
T Consensus       243 l~~l~~~~~~~fcaip~~mAi~TL~~~~~n~~~~~~~VKi~r~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~dp~~  322 (336)
T TIGR01559       243 LSRLRDQSIFNFCAIPQVMAIATLALCYNNPQVFQGNVKIRKGTTVKLILDSTNMPAVYDIFYRYARKIYHKIDPNDPNF  322 (336)
T ss_pred             HHhCCCcchhHHHHHHHHHHHHHHHHHhcChhhcCCCceecHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhCCCCCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 022527          236 TKTLSRVEAIQKAC  249 (295)
Q Consensus       236 ~~~~~~~~~i~~~~  249 (295)
                      ++|+++|++|+|+|
T Consensus       323 ~~~~~~~~~~~~~~  336 (336)
T TIGR01559       323 SKTLIIISKIEQQC  336 (336)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999999997

This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family.
>KOG1459 consensus Squalene synthetase [Lipid transport and metabolism] Back     alignment and domain information
>COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism] Back     alignment and domain information
>TIGR03465 HpnD squalene synthase HpnD Back     alignment and domain information
>TIGR03464 HpnC squalene synthase HpnC Back     alignment and domain information
>PLN02632 phytoene synthase 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
>KOG4411 consensus Phytoene/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
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail Back     alignment and domain information
>PLN02890 geranyl diphosphate synthase Back     alignment and domain information
>PRK10888 octaprenyl diphosphate synthase; Provisional Back     alignment and domain information
>PLN02857 octaprenyl-diphosphate synthase Back     alignment and domain information
>TIGR02749 prenyl_cyano solanesyl diphosphate synthase Back     alignment and domain information
>PRK10581 geranyltranstransferase; Provisional Back     alignment and domain information
>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II Back     alignment and domain information
>CHL00151 preA prenyl transferase; Reviewed 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
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism] 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 ?
Query295
3vj8_A343 Crystal Structure Of The Human Squalene Synthase Le 2e-66
1ezf_A340 Crystal Structure Of Human Squalene Synthase Length 2e-66
3lee_A340 Crystal Structure Of The Human Squalene Synthase Co 2e-66
>pdb|3VJ8|A Chain A, Crystal Structure Of The Human Squalene Synthase Length = 343 Back     alignment and structure 
Iteration: 1

 Score =  248 bits (634), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 123/249 (49%), Positives = 167/249 (67%), Gaps = 6/249 (2%)
Query: 1   MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGL 60
           ++ F  +S  F  L + YQ  I DI +RMG GMA+F+ K V S  ++D+YC+YVAGLVG+
Sbjct: 95  LEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGI 154
Query: 61  GLSKLFYASGTED--LAPDS-LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSK 117
           GLS+LF AS  ED  +  D+  +NSMGLFLQKTNIIRDYLED       R FWP+E+WS+
Sbjct: 155 GLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQ---GGREFWPQEVWSR 211
Query: 118 YVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIG 177
           YV KL D    EN D AVQCLN+++TNAL H+ D + Y+S LR+ ++F FCAIPQ+MAI 
Sbjct: 212 YVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSRLRNQSVFNFCAIPQVMAIA 271
Query: 178 TLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATK 237
           TLA CYNN +VF+G VK+R+G    ++    NM  V    Y +   +  +I  +DP+++K
Sbjct: 272 TLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIYQYMEEIYHRIPDSDPSSSK 331
Query: 238 TLSRVEAIQ 246
           T   +  I+
Sbjct: 332 TRQIISTIR 340
>pdb|1EZF|A Chain A, Crystal Structure Of Human Squalene Synthase Length = 340 Back     alignment and structure
>pdb|3LEE|A Chain A, Crystal Structure Of The Human Squalene Synthase Complexed With Bph- 652 Length = 340 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 ?
Query295
3vj8_A343 Squalene synthase; farnesyl-diphosphate farnesyltr 5e-99
3acx_A293 Dehydrosqualene synthase; CRTM, carotenoid biosynt 4e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
>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
 Score =  293 bits (752), Expect = 5e-99
 Identities = 122/250 (48%), Positives = 164/250 (65%), Gaps = 6/250 (2%)

Query: 1   MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGL 60
           ++ F  +S  F  L + YQ  I DI +RMG GMA+F+ K V S  ++D+YC+YVAGLVG+
Sbjct: 95  LEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGI 154

Query: 61  GLSKLFYASGTEDLAPDS---LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSK 117
           GLS+LF AS  ED         +NSMGLFLQKTNIIRDYLED       R FWP+E+WS+
Sbjct: 155 GLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQG---GREFWPQEVWSR 211

Query: 118 YVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIG 177
           YV KL D    EN D AVQCLN+++TNAL H+ D + Y+S LR+ ++F FCAIPQ+MAI 
Sbjct: 212 YVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSRLRNQSVFNFCAIPQVMAIA 271

Query: 178 TLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATK 237
           TLA CYNN +VF+G VK+R+G    ++    NM  V    Y +   +  +I  +DP+++K
Sbjct: 272 TLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIYQYMEEIYHRIPDSDPSSSK 331

Query: 238 TLSRVEAIQK 247
           T   +  I+ 
Sbjct: 332 TRQIISTIRT 341
>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
>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
>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 ?
Query295
3vj8_A343 Squalene synthase; farnesyl-diphosphate farnesyltr 100.0
3acx_A293 Dehydrosqualene synthase; CRTM, carotenoid biosynt 100.0
4hd1_A294 Squalene synthase HPNC; MCSG, structural genomics, 100.0
3lom_A313 Geranyltranstransferase; geranyltransferase, struc 95.12
2q80_A301 Geranylgeranyl pyrophosphate synthetase; isoprenoi 94.91
3lmd_A360 Geranylgeranyl pyrophosphate synthase; isoprenyl d 94.81
3tc1_A315 Octaprenyl pyrophosphate synthase; all alpha-helic 94.81
3rmg_A334 Octaprenyl-diphosphate synthase; structural genomi 94.57
1rtr_A301 Geranyltranstransferase; 2.50A {Staphylococcus aur 94.38
4dhd_A358 Polyprenyl synthetase; isoprenoid synthesis, isopr 94.29
2ftz_A284 Geranyltranstransferase; TM0161, structural GE joi 94.29
3mzv_A341 Decaprenyl diphosphate synthase; transferase, stru 94.12
4f62_A317 Geranyltranstransferase; enzyme function initiativ 94.11
3lsn_A304 Geranyltranstransferase; structural genomics, prot 93.96
3p8r_A302 Geranyltranstransferase; isoprenyl synthase, struc 93.89
3m0g_A297 Farnesyl diphosphate synthase; structural genomics 93.84
3aqb_B325 Component B of hexaprenyl diphosphate synthase; pr 93.42
1v4e_A299 Octoprenyl-diphosphate synthase; trans-type prenyl 93.39
3ipi_A295 Geranyltranstransferase; isoprene biosynthesis, he 93.33
3ts7_A324 Geranyltranstransferase; isoprenoid synthesis, far 93.24
3nf2_A352 Putative polyprenyl synthetase; isoprenyl diphosph 93.15
3p8l_A302 Geranyltranstransferase; isoprenyl synthase, struc 93.06
3uca_A324 Geranyltranstransferase; isoprenoid synthesis, iso 93.02
1wmw_A330 Geranylgeranyl diphosphate synthetase; GGPP, preny 92.91
1yhl_A362 Farnesyl pyrophosphate synthase; farnesyl diphosph 92.9
1rqj_A299 Geranyltranstransferase; bisphosphonate, isoprenyl 92.73
2h8o_A335 Geranyltranstransferase; geranyltransferase,agroba 92.67
3pko_A334 Geranylgeranyl pyrophosphate synthase; isoprenyl d 92.63
3apz_A348 Geranyl diphosphate synthase; prenyltransferase, a 92.38
3pde_A309 Farnesyl-diphosphate synthase; isoprenyl diphospha 92.27
3oyr_A345 Trans-isoprenyl diphosphate synthase; isoprenyl sy 91.77
2qis_A374 Farnesyl pyrophosphate synthetase; trans-prenyltra 91.66
2ihi_A395 Pyrophosphate synthase; PV092040, structural genom 91.59
2e8v_A340 Geranylgeranyl pyrophosphate synthetase; prenyltra 91.19
1uby_A367 FPS, farnesyl diphosphate synthase; transferase, i 90.5
3llw_A311 Geranyltranstransferase (ISPA); structural genomic 89.86
3npk_A291 Geranyltranstransferase; isoprene biosynthesis, SG 88.99
3lk5_A380 Geranylgeranyl pyrophosphate synthase; structural 88.73
1wy0_A342 Geranylgeranyl pyrophosphate synthetase; pyrococcu 87.68
3dyh_A390 Farnesyl pyrophosphate synthase; protein-bisphosph 87.67
2her_A368 Fragment, farnesyl pyrophosphate synthase; farnesy 87.02
2azj_A289 Geranylgeranyl pyrophosphate synthetase; hexpps, t 86.54
3mav_A395 Farnesyl pyrophosphate synthase; PV092040, structu 83.34
>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
Probab=100.00  E-value=2.6e-61  Score=459.76  Aligned_cols=244  Identities=50%  Similarity=0.868  Sum_probs=232.9

Q ss_pred             CccchHHHHHcccChhhhhHHHHHHHHHHHHHHHhhccccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCCC---ChhH
Q 022527            2 DQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDL---APDS   78 (295)
Q Consensus         2 ~~f~~v~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~~---~~~~   78 (295)
                      ++||.|+.+|..|++.++++|.+++++|++||++|+.++|+|++||+.|||+|||+||+|++++|+.++.+++   ...+
T Consensus        96 ~~~p~v~~~f~~l~~~~~~~i~~~~~~m~~gm~~dl~~~~~t~~~L~~Yc~~vAg~VG~l~~~l~~~~~~~~~~~~~~~~  175 (343)
T 3vj8_A           96 EDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTE  175 (343)
T ss_dssp             HTHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHGGGCCCCSHHHHHHHHHHHTHHHHHHHHHHHHHHTSSCHHHHHCHH
T ss_pred             hcCcHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhCcHHHHHHHHHHhCCCCCccchhhhHHH
Confidence            3688899999999999999999999999999999999899999999999999999999999999987532222   2458


Q ss_pred             HHHHHHHHHHHHHHHhchHhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 022527           79 LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSA  158 (295)
Q Consensus        79 ~A~slG~aLQltNILRD~~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~  158 (295)
                      .|++||.|+|+||||||++||+.   +||+|||.|+|.+||++.+|+..+++++++++|+++++.+|+.|+.+|+.|++.
T Consensus       176 ~A~~lG~AlQltNilRDv~eD~~---~gR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~l~~~A~~~~~~a~~~~~~  252 (343)
T 3vj8_A          176 RANSMGLFLQKTNIIRDYLEDQQ---GGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSR  252 (343)
T ss_dssp             HHHHHHHHHHHHHHHHTHHHHHH---TTCCCSCHHHHTTTCSSGGGGGSGGGHHHHHHHHHHHHHHHHTTHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHh---CCCeeCCHHHHHHcCCCHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999   899999999999999999999999999999999999999999999999999999


Q ss_pred             chhhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCccccChHHHHHHHHHhcChhhHHHHHHHHHHHhccccCCCCCCHHHH
Q 022527          159 LRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKT  238 (295)
Q Consensus       159 l~~~~~~~fcaiP~~mAiatL~~~~~n~~Vf~~~vki~k~~~~~l~~ra~~~~~v~~~f~~~~~~i~~k~~~~dp~~~~~  238 (295)
                      +|++++++||++|+.||++||..+++|++||+++|||+|++++|++|+++|+++|+.+|++|+++|++|++|+||||.+|
T Consensus       253 L~~~~~~~~~~ip~~lA~~tL~~i~~~~~v~~~rvkisr~~~~~l~~ra~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (343)
T 3vj8_A          253 LRNQSVFNFCAIPQVMAIATLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIYQYMEEIYHRIPDSDPSSSKT  332 (343)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHTTCGGGGTSCCCCCHHHHHHHHHHCSSHHHHHHHHHHHHHHHHTTCCTTCTTHHHH
T ss_pred             CCccchhhHHHHHHHHHHHHHHHHHhCCccccCCCcccHHHHHHHHHHhCChhhHHHHHHHHHHHHHhhCCCCCCCHHHH
Confidence            99998899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 022527          239 LSRVEAIQKA  248 (295)
Q Consensus       239 ~~~~~~i~~~  248 (295)
                      .++|++|++.
T Consensus       333 ~~~~~~~~~~  342 (343)
T 3vj8_A          333 RQIISTIRTQ  342 (343)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhc
Confidence            9999999873
>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
>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
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp} 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
>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
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori} 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
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1 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
>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
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} Back     alignment and structure
>4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP} 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
>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
>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
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B* 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
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle, protein structure initiative II (PSI II), structural genomics, nysgxrc; 1.90A {Methanosarcina mazei} Back     alignment and structure
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus 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
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis} Back     alignment and structure
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid diphosphate synthase; 2.00A {Clostridium perfringens} 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
>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
>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
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium tumefaciens, structural GEN PSI-2, protein structure initiative; 1.60A {Agrobacterium tumefaciens} 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
>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
>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
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} 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
>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
>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
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Helicobacter pylori} PDB: 3q1o_A* Back     alignment and structure
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural genomics protein structure initiative; 1.50A {Campylobacter jejuni} 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
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii} 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
>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

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 295
d1ezfa_333 a.128.1.2 (A:) Squalene synthase {Human (Homo sapi 1e-69
>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 =  217 bits (553), Expect = 1e-69
 Identities = 122/250 (48%), Positives = 164/250 (65%), Gaps = 6/250 (2%)

Query: 1   MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGL 60
           ++ F  +S  F  L + YQ  I DI +RMG GMA+F+ K V S  ++D+YC+YVAGLVG+
Sbjct: 85  LEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGI 144

Query: 61  GLSKLFYASGTEDLAPDSL---SNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSK 117
           GLS+LF AS  ED         +NSMGLFLQKTNIIRDYLED       R FWP+E+WS+
Sbjct: 145 GLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQ---GGREFWPQEVWSR 201

Query: 118 YVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIG 177
           YV KL D    EN D AVQCLN+++TNAL H+ D + Y+S LR+ ++F FCAIPQ+MAI 
Sbjct: 202 YVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSRLRNQSVFNFCAIPQVMAIA 261

Query: 178 TLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATK 237
           TLA CYNN +VF+G VK+R+G    ++    NM  V    Y +   +  +I  +DP+++K
Sbjct: 262 TLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIYQYMEEIYHRIPDSDPSSSK 321

Query: 238 TLSRVEAIQK 247
           T   +  I+ 
Sbjct: 322 TRQIISTIRT 331

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query295
d1ezfa_333 Squalene synthase {Human (Homo sapiens) [TaxId: 96 100.0
d2q80a1291 Geranylgeranyl pyrophosphate synthetase {Human (Ho 95.78
d1v4ea_280 Octoprenyl-diphosphate synthase {Thermotoga mariti 92.51
d1rqja_299 Farnesyl diphosphate synthase (geranyltranstransfe 88.05
d1fpsa_348 Farnesyl diphosphate synthase (geranyltranstransfe 86.98
d1rtra_290 Farnesyl diphosphate synthase (geranyltranstransfe 86.07
>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=1.6e-57  Score=429.73  Aligned_cols=242  Identities=50%  Similarity=0.873  Sum_probs=221.5

Q ss_pred             CccchHHHHHcccChhhhhHHHHHHHHHHHHHHHhhccccCCHHHHHHHHHhhhhHHHHHHHHhhcccCCCC---CChhH
Q 022527            2 DQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTED---LAPDS   78 (295)
Q Consensus         2 ~~f~~v~~~~~~L~~~~~~~i~di~~~m~~GMa~dl~~~~~T~~dLd~Yc~~VAG~VG~ll~~l~~~~~~~~---~~~~~   78 (295)
                      ++||.|+.+|+.+++.++..|.++++.|+.||++++.++++|++||+.|||+|||+||+|++++|+.++.++   ....+
T Consensus        86 ~~~~~v~~~~~~l~~~~~~~i~~~~~~m~~gm~d~~~~~~~t~~dL~~Ycy~VAG~VG~~l~~l~~~~~~~~~~~~~~~~  165 (333)
T d1ezfa_          86 EDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTE  165 (333)
T ss_dssp             HTHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHTSCCCSHHHHHHHHHHHTHHHHHHHHHHHHHHTSSCHHHHHCHH
T ss_pred             hhccHHHHHHHHHHHHhccchHHHHHHHhccHHHHccCcCCCHHHHHHHHHHHHHHHHHHHHHHhCcCCCccccHHHHHH
Confidence            468999999999999999999999999999999999999999999999999999999999999998754322   12347


Q ss_pred             HHHHHHHHHHHHHHHhchHhhhhhCCCCCccccHHHHHhccCChhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 022527           79 LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSA  158 (295)
Q Consensus        79 ~A~slG~aLQltNILRD~~ED~~e~~~GR~ylP~e~l~k~g~~~~dl~~~~~~~~~~~~l~~lv~~A~~hl~~a~~yl~~  158 (295)
                      .|.+||.|||+||||||++||++   +||+|||.|+|.+||++++|+.++++++++..++++|+++|+.|+++|+.|+..
T Consensus       166 ~A~~lG~AlQltNIlRDi~eD~~---~gR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~~~~l~~~A~~~~~~a~~y~~~  242 (333)
T d1ezfa_         166 RANSMGLFLQKTNIIRDYLEDQQ---GGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSR  242 (333)
T ss_dssp             HHHHHHHHHHHHHHHHTHHHHHH---HTCCCSCHHHHTTTCSSGGGGGSGGGHHHHHHHHHHHHHHHHTTHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHh---CCcEECCHHHHHHcCCCHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999999999   899999999999999999999999999999999999999999999999999999


Q ss_pred             chhhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCccccChHHHHHHHHHhcChhhHHHHHHHHHHHhccccCCCCCCHHHH
Q 022527          159 LRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKT  238 (295)
Q Consensus       159 l~~~~~~~fcaiP~~mAiatL~~~~~n~~Vf~~~vki~k~~~~~l~~ra~~~~~v~~~f~~~~~~i~~k~~~~dp~~~~~  238 (295)
                      ||.++++.||++|++||..||+++++|+++|+++|||+|+++.++|+++.|+.+++.+|++|++.+++|++|+|||+.+|
T Consensus       243 lp~~~~~~~~~~~~~~a~~tl~~~~~~~~~~~~~vkisr~~~~~l~~~~~~~~~~~~~f~~~~~~~~~k~~~~dp~~~~~  322 (333)
T d1ezfa_         243 LRNQSVFNFCAIPQVMAIATLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIYQYMEEIYHRIPDSDPSSSKT  322 (333)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHTTCGGGGTSCCCC----------CTTSHHHHHHHHHHHHHHHHHHCCTTSTTHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHHHHHHHcCchhcCCCeEeeHHHHHHHHHHhccHHHHHHHHHHHHHhhcccCCCCCCChHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 022527          239 LSRVEAIQ  246 (295)
Q Consensus       239 ~~~~~~i~  246 (295)
                      .+.|++|+
T Consensus       323 ~~~~~~~~  330 (333)
T d1ezfa_         323 RQIISTIR  330 (333)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhh
Confidence            99999995
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]} 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