Psyllid ID: psy3877

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-----
MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELLTWDTPDSPK
cHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHcccccHHHHccccccccHHHcccHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccccccccc
cHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHcccHHHHHcccccHcccccccccHHHHHEccccccHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccc
MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSkeysenksfcedltegkfsfpiihaiqsrpddRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDElltwdtpdspk
MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIhaiqsrpddrqVIQILrqrtrdvevkKYCISLLdrfgsfehtrEVLKELDVSARTEVARLGGNPLLEAILdelltwdtpdspk
MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELLTWDTPDSPK
****RLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELLTW*******
MMAIRL*QLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQ************E**KYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDEL**********
MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELLTWDTPDSPK
MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELLTWD******
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELLTWDTPDSPK
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 ?
Query145 2.2.26 [Sep-21-2011]
O95749300 Geranylgeranyl pyrophosph yes N/A 0.924 0.446 0.611 2e-43
P56966300 Geranylgeranyl pyrophosph yes N/A 0.924 0.446 0.611 2e-43
Q6F596300 Geranylgeranyl pyrophosph yes N/A 0.924 0.446 0.604 7e-43
Q9WTN0300 Geranylgeranyl pyrophosph yes N/A 0.924 0.446 0.597 2e-42
Q9P885303 Geranylgeranyl pyrophosph N/A N/A 0.972 0.465 0.503 2e-38
Q92236418 Geranylgeranyl pyrophosph N/A N/A 0.924 0.320 0.457 3e-30
B2DBE9424 Geranylgeranyl pyrophosph N/A N/A 0.834 0.285 0.5 5e-30
P24322433 Geranylgeranyl pyrophosph N/A N/A 0.793 0.265 0.513 6e-30
Q54BK1303 Geranylgeranyl pyrophosph yes N/A 0.882 0.422 0.437 3e-28
Q758K0320 Geranylgeranyl pyrophosph yes N/A 0.896 0.406 0.364 8e-18
>sp|O95749|GGPPS_HUMAN Geranylgeranyl pyrophosphate synthase OS=Homo sapiens GN=GGPS1 PE=1 SV=1 Back     alignment and function desciption
 Score =  174 bits (440), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 82/134 (61%), Positives = 99/134 (73%)

Query: 2   MAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPI 61
           +A+ LMQLFSD K D   L   LGL+FQ+RDDY NL SKEYSENKSFCEDLTEGKFSFP 
Sbjct: 158 LAVGLMQLFSDYKEDLKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPT 217

Query: 62  IHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVAR 121
           IHAI SRP+  QV  ILRQRT ++++KKYC+  L+  GSFE+TR  LKEL+  A  ++  
Sbjct: 218 IHAIWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDA 277

Query: 122 LGGNPLLEAILDEL 135
            GGNP L A++  L
Sbjct: 278 RGGNPELVALVKHL 291
Catalyzes the trans-addition of the three molecules of IPP onto DMAPP to form geranylgeranyl pyrophosphate, an important precursor of carotenoids and geranylated proteins.
Homo sapiens (taxid: 9606)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 1EC: 0
>sp|P56966|GGPPS_BOVIN Geranylgeranyl pyrophosphate synthase OS=Bos taurus GN=GGPS1 PE=1 SV=2 Back     alignment and function description
>sp|Q6F596|GGPPS_RAT Geranylgeranyl pyrophosphate synthase OS=Rattus norvegicus GN=Ggps1 PE=2 SV=1 Back     alignment and function description
>sp|Q9WTN0|GGPPS_MOUSE Geranylgeranyl pyrophosphate synthase OS=Mus musculus GN=Ggps1 PE=2 SV=1 Back     alignment and function description
>sp|Q9P885|GGPPS_MUCCL Geranylgeranyl pyrophosphate synthase OS=Mucor circinelloides f. lusitanicus GN=carG PE=1 SV=1 Back     alignment and function description
>sp|Q92236|GGPPS_GIBFU Geranylgeranyl pyrophosphate synthase OS=Gibberella fujikuroi GN=GGS PE=3 SV=1 Back     alignment and function description
>sp|B2DBE9|GGS4_PHOAM Geranylgeranyl pyrophosphate synthase D OS=Phomopsis amygdali GN=GGS-D PE=1 SV=1 Back     alignment and function description
>sp|P24322|GGPPS_NEUCR Geranylgeranyl pyrophosphate synthase OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=al-3 PE=2 SV=2 Back     alignment and function description
>sp|Q54BK1|GGPPS_DICDI Geranylgeranyl pyrophosphate synthase OS=Dictyostelium discoideum GN=ggps1 PE=3 SV=1 Back     alignment and function description
>sp|Q758K0|GGPPS_ASHGO Geranylgeranyl pyrophosphate synthase OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=BTS1 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 ?
Query145
328714372 327 PREDICTED: geranylgeranyl pyrophosphate 0.951 0.422 0.753 1e-58
156554759 314 PREDICTED: geranylgeranyl pyrophosphate 0.944 0.436 0.737 7e-57
332021468 253 Geranylgeranyl pyrophosphate synthetase 0.993 0.569 0.694 7e-57
383855382 317 PREDICTED: geranylgeranyl pyrophosphate 0.993 0.454 0.687 3e-56
322797846 246 hypothetical protein SINV_16081 [Solenop 0.993 0.585 0.680 3e-56
195376189 337 GJ13129 [Drosophila virilis] gi|19415403 0.986 0.424 0.678 1e-55
195126086 337 GI12986 [Drosophila mojavensis] gi|19391 0.986 0.424 0.664 3e-54
158286675 324 AGAP006894-PA [Anopheles gambiae str. PE 0.951 0.425 0.695 6e-54
242017538 313 geranylgeranyl pyrophosphate synthase, p 0.979 0.453 0.676 6e-54
195428727 361 GK17525 [Drosophila willistoni] gi|19415 0.986 0.396 0.657 8e-54
>gi|328714372|ref|XP_001947385.2| PREDICTED: geranylgeranyl pyrophosphate synthase-like [Acyrthosiphon pisum] Back     alignment and taxonomy information
 Score =  230 bits (586), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 104/138 (75%), Positives = 120/138 (86%)

Query: 1   MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFP 60
           M+AIRLMQLFSD+ +DFT L GILGLYFQ+RDDYCNLC +EYSENKS+CEDLTEGKFSFP
Sbjct: 180 MLAIRLMQLFSDSTNDFTKLTGILGLYFQIRDDYCNLCLQEYSENKSYCEDLTEGKFSFP 239

Query: 61  IIHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVA 120
           IIHAI +RP+D+QVI ILRQRTR+V+VKKYC+ LLD +GSFEHTR+VL +LD  AR EV 
Sbjct: 240 IIHAIHTRPEDKQVIHILRQRTRNVDVKKYCVKLLDNYGSFEHTRKVLTQLDADARKEVE 299

Query: 121 RLGGNPLLEAILDELLTW 138
            LGGNPL+  ILD L TW
Sbjct: 300 NLGGNPLMIKILDGLRTW 317

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|156554759|ref|XP_001605679.1| PREDICTED: geranylgeranyl pyrophosphate synthase-like [Nasonia vitripennis] Back     alignment and taxonomy information
>gi|332021468|gb|EGI61836.1| Geranylgeranyl pyrophosphate synthetase [Acromyrmex echinatior] Back     alignment and taxonomy information
>gi|383855382|ref|XP_003703192.1| PREDICTED: geranylgeranyl pyrophosphate synthase-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|322797846|gb|EFZ19754.1| hypothetical protein SINV_16081 [Solenopsis invicta] Back     alignment and taxonomy information
>gi|195376189|ref|XP_002046879.1| GJ13129 [Drosophila virilis] gi|194154037|gb|EDW69221.1| GJ13129 [Drosophila virilis] Back     alignment and taxonomy information
>gi|195126086|ref|XP_002007505.1| GI12986 [Drosophila mojavensis] gi|193919114|gb|EDW17981.1| GI12986 [Drosophila mojavensis] Back     alignment and taxonomy information
>gi|158286675|ref|XP_308860.3| AGAP006894-PA [Anopheles gambiae str. PEST] gi|157020582|gb|EAA03964.3| AGAP006894-PA [Anopheles gambiae str. PEST] Back     alignment and taxonomy information
>gi|242017538|ref|XP_002429245.1| geranylgeranyl pyrophosphate synthase, putative [Pediculus humanus corporis] gi|212514134|gb|EEB16507.1| geranylgeranyl pyrophosphate synthase, putative [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|195428727|ref|XP_002062417.1| GK17525 [Drosophila willistoni] gi|194158502|gb|EDW73403.1| GK17525 [Drosophila willistoni] 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 ?
Query145
FB|FBgn0019662338 qm "quemao" [Drosophila melano 0.986 0.423 0.650 5.8e-50
UNIPROTKB|F1NHT9292 GGPS1 "Uncharacterized protein 0.924 0.458 0.604 2e-40
UNIPROTKB|E2R3P8300 GGPS1 "Uncharacterized protein 0.924 0.446 0.611 4.2e-40
UNIPROTKB|F1RGX0300 GGPS1 "Uncharacterized protein 0.924 0.446 0.611 4.2e-40
UNIPROTKB|P56966300 GGPS1 "Geranylgeranyl pyrophos 0.924 0.446 0.611 5.3e-40
UNIPROTKB|A8MVQ8246 GGPS1 "Geranylgeranyl diphosph 0.924 0.544 0.611 5.3e-40
UNIPROTKB|O95749300 GGPS1 "Geranylgeranyl pyrophos 0.924 0.446 0.611 5.3e-40
RGD|1359680300 Ggps1 "geranylgeranyl diphosph 0.924 0.446 0.604 8.7e-40
MGI|MGI:1341724300 Ggps1 "geranylgeranyl diphosph 0.924 0.446 0.597 2.3e-39
ZFIN|ZDB-GENE-030131-8742350 ggps1 "geranylgeranyl diphosph 0.924 0.382 0.597 2.3e-39
FB|FBgn0019662 qm "quemao" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 520 (188.1 bits), Expect = 5.8e-50, P = 5.8e-50
 Identities = 93/143 (65%), Positives = 120/143 (83%)

Query:     1 MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFP 60
             M+AIRLMQLFS  K D++ L  ILGLYFQ+RDDYCNL  KEY+ENKSF EDLTEGKF FP
Sbjct:   169 MLAIRLMQLFSSNKEDYSKLTAILGLYFQIRDDYCNLSLKEYTENKSFAEDLTEGKFGFP 228

Query:    61 IIHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVA 120
             +IHA++++  D+QV+ ILRQRT D+EVKKYCI+LL++ GSF++TR+VL+ LD  AR+EVA
Sbjct:   229 VIHAVRTQKQDKQVLHILRQRTHDIEVKKYCITLLEKLGSFQYTRKVLESLDAEARSEVA 288

Query:   121 RLGGNPLLEAILDELLTWDTPDS 143
             RLG NP ++ +L++LL+W T DS
Sbjct:   289 RLGSNPYMDRLLNKLLSWKTSDS 311
GO:0004337 "geranyltranstransferase activity" evidence=ISS
GO:0004161 "dimethylallyltranstransferase activity" evidence=ISS
GO:0004311 "farnesyltranstransferase activity" evidence=ISS;NAS
GO:0008299 "isoprenoid biosynthetic process" evidence=IEA
GO:0008354 "germ cell migration" evidence=IMP
GO:0035050 "embryonic heart tube development" evidence=IMP
GO:0022008 "neurogenesis" evidence=IMP
UNIPROTKB|F1NHT9 GGPS1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|E2R3P8 GGPS1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1RGX0 GGPS1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|P56966 GGPS1 "Geranylgeranyl pyrophosphate synthase" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|A8MVQ8 GGPS1 "Geranylgeranyl diphosphate synthase 1, isoform CRA_b" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|O95749 GGPS1 "Geranylgeranyl pyrophosphate synthase" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|1359680 Ggps1 "geranylgeranyl diphosphate synthase 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:1341724 Ggps1 "geranylgeranyl diphosphate synthase 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-8742 ggps1 "geranylgeranyl diphosphate synthase 1" [Danio rerio (taxid:7955)] 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) ?
Q6F596GGPPS_RAT2, ., 5, ., 1, ., 1, 00.60440.92410.4466yesN/A
O95749GGPPS_HUMAN2, ., 5, ., 1, ., 1, 00.61190.92410.4466yesN/A
P56966GGPPS_BOVIN2, ., 5, ., 1, ., 1, 00.61190.92410.4466yesN/A
Q9WTN0GGPPS_MOUSE2, ., 5, ., 1, ., 1, 00.59700.92410.4466yesN/A

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer2.5.10.691

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query145
cd00685259 cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphat 4e-13
pfam00348260 pfam00348, polyprenyl_synt, Polyprenyl synthetase 5e-12
COG0142322 COG0142, IspA, Geranylgeranyl pyrophosphate syntha 6e-12
TIGR02749322 TIGR02749, prenyl_cyano, solanesyl diphosphate syn 6e-07
cd00867236 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate S 2e-06
CHL00151323 CHL00151, preA, prenyl transferase; Reviewed 3e-05
PLN02857416 PLN02857, PLN02857, octaprenyl-diphosphate synthas 6e-04
PRK10888323 PRK10888, PRK10888, octaprenyl diphosphate synthas 0.004
>gnl|CDD|173833 cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphate Synthases, head-to-tail Back     alignment and domain information 
 Score = 64.1 bits (157), Expect = 4e-13
 Identities = 21/104 (20%), Positives = 41/104 (39%), Gaps = 14/104 (13%)

Query: 1   MMAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFP 60
           + A+ L     +           LGL FQ++DD  +L     +  K    DL EGK + P
Sbjct: 159 LGAL-LAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLP 217

Query: 61  IIHAIQSRPDDRQVIQILRQRTR-------DVEVKKYCISLLDR 97
           ++ A+      R++ +   ++         +   ++   +L D 
Sbjct: 218 VLLAL------RELAREYEEKALEALKALPESPAREALRALADF 255

These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX)D) located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational changes that close the active site to solvent, protecting and stabilizing reactive carbocation intermediates. Farnesyl diphosphate synthases produce the precursors of steroids, cholesterol, sesquiterpenes, farnsylated proteins, heme, and vitamin K12; and geranylgeranyl diphosphate and longer chain synthases produce the precursors of carotenoids, retinoids, diterpenes, geranylgeranylated chlorophylls, ubiquinone, and archaeal ether linked lipids. Isoprenyl diphosphate synthases are widely distributed among archaea, bacteria, and eukareya. Length = 259
>gnl|CDD|215873 pfam00348, polyprenyl_synt, Polyprenyl synthetase Back     alignment and domain information
>gnl|CDD|223220 COG0142, IspA, Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism] Back     alignment and domain information
>gnl|CDD|131796 TIGR02749, prenyl_cyano, solanesyl diphosphate synthase Back     alignment and domain information
>gnl|CDD|173836 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate Synthases Back     alignment and domain information
>gnl|CDD|164542 CHL00151, preA, prenyl transferase; Reviewed Back     alignment and domain information
>gnl|CDD|215462 PLN02857, PLN02857, octaprenyl-diphosphate synthase Back     alignment and domain information
>gnl|CDD|182813 PRK10888, PRK10888, octaprenyl diphosphate synthase; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 145
TIGR02748319 GerC3_HepT heptaprenyl diphosphate synthase compon 99.96
PRK10888323 octaprenyl diphosphate synthase; Provisional 99.96
PLN02857416 octaprenyl-diphosphate synthase 99.96
TIGR02749322 prenyl_cyano solanesyl diphosphate synthase. Membe 99.96
CHL00151323 preA prenyl transferase; Reviewed 99.96
PLN02890422 geranyl diphosphate synthase 99.96
COG0142322 IspA Geranylgeranyl pyrophosphate synthase [Coenzy 99.95
KOG0777|consensus322 99.93
PRK10581299 geranyltranstransferase; Provisional 99.88
KOG0776|consensus384 99.87
PF00348260 polyprenyl_synt: Polyprenyl synthetase; InterPro: 99.83
cd00685259 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthase 99.8
cd00867236 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. 99.63
KOG0711|consensus347 99.48
cd00385243 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzym 98.8
cd00683265 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthase 95.09
PLN02632334 phytoene synthase 94.87
TIGR01559336 squal_synth farnesyl-diphosphate farnesyltransfera 94.72
TIGR03465266 HpnD squalene synthase HpnD. The genes of this fam 94.36
TIGR03464266 HpnC squalene synthase HpnC. This family of genes 94.04
PF00494267 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR 93.07
COG1562288 ERG9 Phytoene/squalene synthetase [Lipid metabolis 84.6
PF0678385 UPF0239: Uncharacterised protein family (UPF0239); 80.89
>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II Back     alignment and domain information 
Probab=99.96  E-value=1.5e-28  Score=196.83  Aligned_cols=135  Identities=16%  Similarity=0.197  Sum_probs=114.7

Q ss_pred             HHHhhcCCC----hHHHHHHHHHHHHHHHHHhchhccccCchhcCCCcchhHhhCcchHHHHHHHhcCCchHHHHHHHHh
Q psy3877           5 RLMQLFSDT----KSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQ   80 (145)
Q Consensus         5 rl~~~~~~~----~~~l~~~G~~lG~afQI~DD~lD~~~~~~~~GK~~g~Dl~eGk~TlPli~al~~~~~~~~l~~~l~~   80 (145)
                      ++....++.    .+.+.+||.++|+||||+||++||+++++.+|||.++||++||+|+|++++++..+....+..++.+
T Consensus       179 ~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~l~~~~~~  258 (319)
T TIGR02748       179 QLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLLQGNVTLPVLYAMEDPFLKKRIEQVLEE  258 (319)
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHhhCCChhhHHhCCCchHHHHHHhcCcchhHHHHHHHcC
Confidence            344444443    3579999999999999999999999999999999999999999999999999865544467777765


Q ss_pred             cCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHhhhcCCC
Q psy3877          81 RTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELLTWDTPD  142 (145)
Q Consensus        81 ~~~~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~A~~~L~~lp~~~~~~~ll~~l~~~~~~~  142 (145)
                      .  +++++.+++++++++|++++|+.++++|.++|++.|+.+|.++.+..| ..+.+++.+|
T Consensus       259 ~--~~~~~~~~~~~i~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~~~~L-~~l~~~~~~R  317 (319)
T TIGR02748       259 T--TAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDGLPDGRAKKPL-QEIAKYIGKR  317 (319)
T ss_pred             C--CHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHH-HHHHHHHHhc
Confidence            4  577889999999999999999999999999999999999999987665 5666666654

Members of this family are component II of the heterodimeric heptaprenyl diphosphate synthase. The trusted cutoff was set such that all members identified are encoded near to a recognizable gene for component I (in Pfam family pfam07307). This enzyme acts in menaquinone-7 isoprenoid side chain biosynthesis.
>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
>CHL00151 preA prenyl transferase; Reviewed Back     alignment and domain information
>PLN02890 geranyl diphosphate synthase Back     alignment and domain information
>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism] Back     alignment and domain information
>KOG0777|consensus Back     alignment and domain information
>PRK10581 geranyltranstransferase; Provisional Back     alignment and domain information
>KOG0776|consensus 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
>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail Back     alignment and domain information
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases Back     alignment and domain information
>KOG0711|consensus Back     alignment and domain information
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1 Back     alignment and domain information
>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head Back     alignment and domain information
>PLN02632 phytoene synthase Back     alignment and domain information
>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase 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
>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
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function 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 ?
Query145
2q80_A301 Crystal Structure Of Human Geranylgeranyl Pyrophosp 2e-44
2dh4_A340 Geranylgeranyl Pyrophosphate Synthase Length = 340 2e-13
3mzv_A341 Crystal Structure Of A Decaprenyl Diphosphate Synth 4e-06
3lmd_A360 Crystal Structure Of Geranylgeranyl Pyrophosphate S 7e-06
3apz_A348 Apo Form Of Arabidopsis MediumLONG-Chain Length Pre 3e-04
3aq0_A348 Ligand-Bound Form Of Arabidopsis MediumLONG-Chain L 5e-04
>pdb|2Q80|A Chain A, Crystal Structure Of Human Geranylgeranyl Pyrophosphate Synthase Bound To Ggpp Length = 301 Back     alignment and structure 
Iteration: 1

 Score =  174 bits (440), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 82/134 (61%), Positives = 99/134 (73%)
Query: 2   MAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPI 61
           +A+ LMQLFSD K D   L   LGL+FQ+RDDY NL SKEYSENKSFCEDLTEGKFSFP 
Sbjct: 159 LAVGLMQLFSDYKEDLKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPT 218
Query: 62  IHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVAR 121
           IHAI SRP+  QV  ILRQRT ++++KKYC+  L+  GSFE+TR  LKEL+  A  ++  
Sbjct: 219 IHAIWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDA 278
Query: 122 LGGNPLLEAILDEL 135
            GGNP L A++  L
Sbjct: 279 RGGNPELVALVKHL 292
>pdb|2DH4|A Chain A, Geranylgeranyl Pyrophosphate Synthase Length = 340 Back     alignment and structure
>pdb|3MZV|A Chain A, Crystal Structure Of A Decaprenyl Diphosphate Synthase From Rhodobacter Capsulatus Length = 341 Back     alignment and structure
>pdb|3LMD|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Corynebacterium Glutamicum Atcc 13032 Length = 360 Back     alignment and structure
>pdb|3APZ|A Chain A, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl Pyrophosphate Synthase Length = 348 Back     alignment and structure
>pdb|3AQ0|A Chain A, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length Prenyl Pyrophosphate Synthase (Surface Polar Residue Mutant) Length = 348 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query145
2q80_A301 Geranylgeranyl pyrophosphate synthetase; isoprenoi 2e-58
2e8v_A340 Geranylgeranyl pyrophosphate synthetase; prenyltra 4e-43
2her_A368 Fragment, farnesyl pyrophosphate synthase; farnesy 2e-29
4dhd_A358 Polyprenyl synthetase; isoprenoid synthesis, isopr 4e-11
3pko_A334 Geranylgeranyl pyrophosphate synthase; isoprenyl d 2e-10
3lmd_A360 Geranylgeranyl pyrophosphate synthase; isoprenyl d 1e-09
3nf2_A352 Putative polyprenyl synthetase; isoprenyl diphosph 1e-09
3mzv_A341 Decaprenyl diphosphate synthase; transferase, stru 1e-09
3dyh_A390 Farnesyl pyrophosphate synthase; protein-bisphosph 2e-09
3oyr_A345 Trans-isoprenyl diphosphate synthase; isoprenyl sy 4e-09
3apz_A348 Geranyl diphosphate synthase; prenyltransferase, a 7e-09
3lk5_A380 Geranylgeranyl pyrophosphate synthase; structural 9e-09
1uby_A367 FPS, farnesyl diphosphate synthase; transferase, i 1e-08
2ihi_A395 Pyrophosphate synthase; PV092040, structural genom 1e-08
3rmg_A334 Octaprenyl-diphosphate synthase; structural genomi 3e-08
1yhl_A362 Farnesyl pyrophosphate synthase; farnesyl diphosph 3e-08
1v4e_A299 Octoprenyl-diphosphate synthase; trans-type prenyl 4e-08
1wmw_A330 Geranylgeranyl diphosphate synthetase; GGPP, preny 4e-08
2qis_A374 Farnesyl pyrophosphate synthetase; trans-prenyltra 5e-08
3aqb_B325 Component B of hexaprenyl diphosphate synthase; pr 5e-08
3tc1_A315 Octaprenyl pyrophosphate synthase; all alpha-helic 5e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
1wy0_A342 Geranylgeranyl pyrophosphate synthetase; pyrococcu 2e-07
2azj_A289 Geranylgeranyl pyrophosphate synthetase; hexpps, t 7e-07
3ipi_A295 Geranyltranstransferase; isoprene biosynthesis, he 3e-04
>2q80_A Geranylgeranyl pyrophosphate synthetase; isoprenoid pathway, isopentenyl transferase, structural GENO structural genomics consortium, SGC; HET: GRG; 2.70A {Homo sapiens} SCOP: a.128.1.1 Length = 301 Back     alignment and structure
 Score =  182 bits (463), Expect = 2e-58
 Identities = 82/137 (59%), Positives = 99/137 (72%)

Query: 2   MAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPI 61
           +A+ LMQLFSD K D   L   LGL+FQ+RDDY NL SKEYSENKSFCEDLTEGKFSFP 
Sbjct: 159 LAVGLMQLFSDYKEDLKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPT 218

Query: 62  IHAIQSRPDDRQVIQILRQRTRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVAR 121
           IHAI SRP+  QV  ILRQRT ++++KKYC+  L+  GSFE+TR  LKEL+  A  ++  
Sbjct: 219 IHAIWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDA 278

Query: 122 LGGNPLLEAILDELLTW 138
            GGNP L A++  L   
Sbjct: 279 RGGNPELVALVKHLSKM 295
>2e8v_A Geranylgeranyl pyrophosphate synthetase; prenyltransferase, farnesyl pyrophosphate, bisphosphonate; HET: GRG; 1.80A {Saccharomyces cerevisiae} PDB: 2e8t_A* 2e8u_A* 2dh4_A* 2e8w_A* 2e8x_A* 2e90_A* 2e91_A* 2e92_A* 2e93_A* 2e94_A* 2e95_A* 2z4v_A* 2z4w_A* 2z4x_A* 2z4y_A* 2z4z_A* 2z50_A* 2z52_A* 2z78_A* 2z7h_A* ... Length = 340 Back     alignment and structure
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; 1.65A {Pyrobaculum calidifontis} Length = 358 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 Length = 334 Back     alignment and structure
>3lmd_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, protein structure initiative, nysgrc; 1.90A {Corynebacterium glutamicum} PDB: 3q2q_A* Length = 360 Back     alignment and structure
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; 2.20A {Streptomyces coelicolor} Length = 352 Back     alignment and structure
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} Length = 341 Back     alignment and structure
>3dyh_A Farnesyl pyrophosphate synthase; protein-bisphosphonate complex, isoprene biosynthesis, transferase; HET: 721; 1.94A {Trypanosoma brucei} PDB: 2ewg_A* 2i19_A* 2p1c_A* 3dyf_A* 3dyg_A* 2ogd_A* 3efq_A* 3egt_A* Length = 390 Back     alignment and structure
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} Length = 345 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* Length = 348 Back     alignment and structure
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein structure initiative, geranylge pyrophosphate synthase; 1.90A {Corynebacterium glutamicum} PDB: 3qqv_A* Length = 380 Back     alignment and structure
>1uby_A FPS, farnesyl diphosphate synthase; transferase, isoprene biosynthesis, cholesterol biosynthesis; HET: DMA; 2.40A {Gallus gallus} SCOP: a.128.1.1 PDB: 1ubw_A* 1ubv_A* 1ubx_A* 1fps_A Length = 367 Back     alignment and structure
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron} Length = 334 Back     alignment and structure
>1yhl_A Farnesyl pyrophosphate synthase; farnesyl diphosphate synthase, bisphosphonate, dimethyl ALLY pyrophosphate sulfate, FPPS, transferase; HET: DMA RIS; 1.95A {Trypanosoma cruzi} PDB: 1yhk_A* 1yhm_A* 3iba_A* 3ick_A* 3icm_A* 3icn_A* 3icz_A* 3id0_A* Length = 362 Back     alignment and structure
>1v4e_A Octoprenyl-diphosphate synthase; trans-type prenyltransferase, thermophilic; 2.28A {Thermotoga maritima} SCOP: a.128.1.1 PDB: 1v4j_A 1wkz_A 1vg2_A 1wl3_A 1wl0_A 1wl2_A 1v4h_A 1v4i_A 1v4k_A 2azl_A 1wl1_A 1vg4_A 1vg3_A 1vg6_A 1vg7_A Length = 299 Back     alignment and structure
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate synthase, structural genom riken structural genomics/proteomics initiative; 1.55A {Thermus thermophilus} Length = 330 Back     alignment and structure
>2qis_A Farnesyl pyrophosphate synthetase; trans-prenyltransferase, structural genomics, structural GEN consortium, SGC, transferase; HET: RIS; 1.80A {Homo sapiens} PDB: 4dem_F* 1yv5_A* 1yq7_A* 2opm_A* 2opn_A* 3cp6_A* 2rah_A* 2vf6_A* 1zw5_A* 3b7l_A* 3s4j_A* 3rye_A* 3n45_F* 2f89_F* 2f7m_F* 2f8z_F* 2f8c_F* 2f92_F* 2f9k_F* 3n1v_F* ... Length = 374 Back     alignment and structure
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B* Length = 325 Back     alignment and structure
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori} Length = 315 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
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii} Length = 342 Back     alignment and structure
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_A Length = 289 Back     alignment and structure
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle, protein structure initiative II (PSI II), structural genomics, nysgxrc; 1.90A {Methanosarcina mazei} Length = 295 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query145
2q80_A301 Geranylgeranyl pyrophosphate synthetase; isoprenoi 99.97
3mzv_A341 Decaprenyl diphosphate synthase; transferase, stru 99.97
3lmd_A360 Geranylgeranyl pyrophosphate synthase; isoprenyl d 99.97
3nf2_A352 Putative polyprenyl synthetase; isoprenyl diphosph 99.97
3rmg_A334 Octaprenyl-diphosphate synthase; structural genomi 99.97
3oyr_A345 Trans-isoprenyl diphosphate synthase; isoprenyl sy 99.97
3tc1_A315 Octaprenyl pyrophosphate synthase; all alpha-helic 99.97
4dhd_A358 Polyprenyl synthetase; isoprenoid synthesis, isopr 99.96
3pko_A334 Geranylgeranyl pyrophosphate synthase; isoprenyl d 99.96
3lk5_A380 Geranylgeranyl pyrophosphate synthase; structural 99.96
1wmw_A330 Geranylgeranyl diphosphate synthetase; GGPP, preny 99.96
1wy0_A342 Geranylgeranyl pyrophosphate synthetase; pyrococcu 99.96
2e8v_A340 Geranylgeranyl pyrophosphate synthetase; prenyltra 99.96
3apz_A348 Geranyl diphosphate synthase; prenyltransferase, a 99.96
3aqb_B325 Component B of hexaprenyl diphosphate synthase; pr 99.95
1yhl_A362 Farnesyl pyrophosphate synthase; farnesyl diphosph 99.95
2ihi_A395 Pyrophosphate synthase; PV092040, structural genom 99.95
3dyh_A390 Farnesyl pyrophosphate synthase; protein-bisphosph 99.95
2qis_A374 Farnesyl pyrophosphate synthetase; trans-prenyltra 99.94
1v4e_A299 Octoprenyl-diphosphate synthase; trans-type prenyl 99.94
1uby_A367 FPS, farnesyl diphosphate synthase; transferase, i 99.94
3mav_A395 Farnesyl pyrophosphate synthase; PV092040, structu 99.94
2her_A368 Fragment, farnesyl pyrophosphate synthase; farnesy 99.92
3p8r_A302 Geranyltranstransferase; isoprenyl synthase, struc 99.88
4f62_A317 Geranyltranstransferase; enzyme function initiativ 99.87
3ts7_A324 Geranyltranstransferase; isoprenoid synthesis, far 99.87
1rtr_A301 Geranyltranstransferase; 2.50A {Staphylococcus aur 99.87
3lsn_A304 Geranyltranstransferase; structural genomics, prot 99.87
3m0g_A297 Farnesyl diphosphate synthase; structural genomics 99.86
3uca_A324 Geranyltranstransferase; isoprenoid synthesis, iso 99.86
3p8l_A302 Geranyltranstransferase; isoprenyl synthase, struc 99.86
1rqj_A299 Geranyltranstransferase; bisphosphonate, isoprenyl 99.86
3lom_A313 Geranyltranstransferase; geranyltransferase, struc 99.85
2h8o_A335 Geranyltranstransferase; geranyltransferase,agroba 99.85
2q58_A368 Fragment, farnesyl pyrophosphate synthase; farnesy 99.84
2ftz_A284 Geranyltranstransferase; TM0161, structural GE joi 99.83
3pde_A309 Farnesyl-diphosphate synthase; isoprenyl diphospha 99.83
3ipi_A295 Geranyltranstransferase; isoprene biosynthesis, he 99.81
3llw_A311 Geranyltranstransferase (ISPA); structural genomic 99.76
3npk_A291 Geranyltranstransferase; isoprene biosynthesis, SG 99.72
2azj_A289 Geranylgeranyl pyrophosphate synthetase; hexpps, t 99.62
2j1p_A293 Geranylgeranyl pyrophosphate synthetase; transfera 99.6
4fp4_A285 Polyprenyl synthetase; isoprenoid synthesis, isopr 99.14
3kra_B274 Geranyl diphosphate synthase small subunit; prenyl 98.25
3qkc_B273 Geranyl diphosphate synthase small subunit; struct 97.94
3acx_A293 Dehydrosqualene synthase; CRTM, carotenoid biosynt 94.98
4hd1_A294 Squalene synthase HPNC; MCSG, structural genomics, 94.43
3vj8_A343 Squalene synthase; farnesyl-diphosphate farnesyltr 92.05
>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
Probab=99.97  E-value=2.2e-31  Score=210.52  Aligned_cols=142  Identities=58%  Similarity=0.921  Sum_probs=119.4

Q ss_pred             hHHHHHhhcCCChHHHHHHHHHHHHHHHHHhchhccccCchhcCCCcchhHhhCcchHHHHHHHhcCCchHHHHHHHHhc
Q psy3877           2 MAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQR   81 (145)
Q Consensus         2 ~~~rl~~~~~~~~~~l~~~G~~lG~afQI~DD~lD~~~~~~~~GK~~g~Dl~eGk~TlPli~al~~~~~~~~l~~~l~~~   81 (145)
                      ++++++...++..+.+..||.++|+||||+||++|++++++.+|||+|+||++||+|+|++++++..++.+.+..++.++
T Consensus       159 ~~~~~ga~~a~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~egK~T~p~i~al~~~~~~~~l~~~l~~~  238 (301)
T 2q80_A          159 LAVGLMQLFSDYKEDLKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQR  238 (301)
T ss_dssp             HHHHHHHHTCCCCSCCHHHHHHHHHHHHHHHHHHHHHCC------CTTHHHHHTCCCHHHHHHHHHSTTCCHHHHHHHHT
T ss_pred             HHHHHHHHHCCChHHHHHHHHHHHHHHHHHHHHhhhcCChhhhCCCccchhhcCCcHHHHHHHHHcCccchHHHHHHhcC
Confidence            46788888888777899999999999999999999999999999999999999999999999999865544677888776


Q ss_pred             CCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHhhhcCCCC
Q psy3877          82 TRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELLTWDTPDS  143 (145)
Q Consensus        82 ~~~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~A~~~L~~lp~~~~~~~ll~~l~~~~~~~~  143 (145)
                      ..+.+...+++++++++|++++|+..+++|.++|++.|+.+|.++....+++.+.++++.++
T Consensus       239 ~~~~~~~~~~~~~l~~~g~~~~a~~~~~~~~~~A~~~L~~l~~~~~L~~l~~~l~~~~~~~~  300 (301)
T 2q80_A          239 TENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNPELVALVKHLSKMFKEEN  300 (301)
T ss_dssp             CCCHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTTCC---
T ss_pred             CCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcccC
Confidence            65555556699999999999999999999999999999999999999999999999988774
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} 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
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; 2.20A {Streptomyces coelicolor} Back     alignment and structure
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron} Back     alignment and structure
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} Back     alignment and structure
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori} 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
>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
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein structure initiative, geranylge pyrophosphate synthase; 1.90A {Corynebacterium glutamicum} PDB: 3qqv_A* Back     alignment and structure
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate synthase, structural genom riken structural genomics/proteomics initiative; 1.55A {Thermus thermophilus} Back     alignment and structure
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii} 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
>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
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B* 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
>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
>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
>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
>1uby_A FPS, farnesyl diphosphate synthase; transferase, isoprene biosynthesis, cholesterol biosynthesis; HET: DMA; 2.40A {Gallus gallus} SCOP: a.128.1.1 PDB: 1ubw_A* 1ubv_A* 1ubx_A* 1fps_A Back     alignment and structure
>3mav_A Farnesyl pyrophosphate synthase; PV092040, structural genomics, structural genomics consortium, SGC, transferase, isoprene biosynthesis; 2.10A {Plasmodium vivax} PDB: 3cc9_A* 3ez3_A* 3ldw_A* 3mys_A* 3ph7_A* 3rbm_A* 3ryw_A* Back     alignment and structure
>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
>4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP} Back     alignment and structure
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus} 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
>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
>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
>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
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp} 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
>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
>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
>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
>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
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_A 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
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum calidifontis} Back     alignment and structure
>3kra_B Geranyl diphosphate synthase small subunit; prenyltransferase, isoprene biosynthesis, isoprenyl pyrophosphate synthase, transferase; 1.90A {Mentha x piperita} PDB: 3krc_B* 3krf_B* 3kro_B* 3krp_B* 3oab_B* 3oac_B* Back     alignment and structure
>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus} Back     alignment and structure
>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
>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

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 145
d2q80a1291 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate s 7e-18
d1v4ea_280 a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Th 9e-10
d1rqja_299 a.128.1.1 (A:) Farnesyl diphosphate synthase (gera 5e-07
d1rtra_290 a.128.1.1 (A:) Farnesyl diphosphate synthase (gera 1e-04
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} Length = 291 Back     information, alignment and structure

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Geranylgeranyl pyrophosphate synthetase
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 75.5 bits (184), Expect = 7e-18
 Identities = 71/112 (63%), Positives = 86/112 (76%)

Query: 24  LGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQRTR 83
           LGL+FQ+RDDY NL SKEYSENKSFCEDLTEGKFSFP IHAI SRP+  QV  ILRQRT 
Sbjct: 175 LGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQRTE 234

Query: 84  DVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDEL 135
           ++++KKYC+  L+  GSFE+TR  LKEL+  A  ++   GGNP L A++  L
Sbjct: 235 NIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNPELVALVKHL 286
>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]} Length = 280 Back     information, alignment and structure
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]} Length = 299 Back     information, alignment and structure
>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]} Length = 290 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query145
d2q80a1291 Geranylgeranyl pyrophosphate synthetase {Human (Ho 99.98
d1fpsa_348 Farnesyl diphosphate synthase (geranyltranstransfe 99.93
d1v4ea_280 Octoprenyl-diphosphate synthase {Thermotoga mariti 99.88
d1rqja_299 Farnesyl diphosphate synthase (geranyltranstransfe 99.8
d1rtra_290 Farnesyl diphosphate synthase (geranyltranstransfe 99.79
d1ezfa_333 Squalene synthase {Human (Homo sapiens) [TaxId: 96 94.36
>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Geranylgeranyl pyrophosphate synthetase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.98  E-value=1.9e-32  Score=213.60  Aligned_cols=139  Identities=59%  Similarity=0.933  Sum_probs=123.2

Q ss_pred             hHHHHHhhcCCChHHHHHHHHHHHHHHHHHhchhccccCchhcCCCcchhHhhCcchHHHHHHHhcCCchHHHHHHHHhc
Q psy3877           2 MAIRLMQLFSDTKSDFTTLAGILGLYFQVRDDYCNLCSKEYSENKSFCEDLTEGKFSFPIIHAIQSRPDDRQVIQILRQR   81 (145)
Q Consensus         2 ~~~rl~~~~~~~~~~l~~~G~~lG~afQI~DD~lD~~~~~~~~GK~~g~Dl~eGk~TlPli~al~~~~~~~~l~~~l~~~   81 (145)
                      ++++++...++..+.+.+||.++|+||||+||++|+++++..+|||+|+||++||+|||++++++..++.+++.+++.++
T Consensus       153 ~~~~~ga~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~g~Dl~~gK~Tlpvi~al~~~~~~~~l~~il~~~  232 (291)
T d2q80a1         153 LAVGLMQLFSDYKEDLKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQR  232 (291)
T ss_dssp             HHHHHHHHTCCCCSCCHHHHHHHHHHHHHHHHHHHHHCC------CTTHHHHHTCCCHHHHHHHHHSTTCCHHHHHHHHT
T ss_pred             hhhhhhhhhcccchhhHHHHHHHHHHHHHHHHhhhhccchhhccccccchhccCCCcHHHHHHHHhcccHHHHHHHHhcc
Confidence            45677778888888999999999999999999999999999999999999999999999999999876655788898888


Q ss_pred             CCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHhhhcC
Q psy3877          82 TRDVEVKKYCISLLDRFGSFEHTREVLKELDVSARTEVARLGGNPLLEAILDELLTWDT  140 (145)
Q Consensus        82 ~~~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~A~~~L~~lp~~~~~~~ll~~l~~~~~  140 (145)
                      ..+.+.+.+++++++++|++++|+..++.|.++|.+.|+.+|.+|.+++|++.++.+|+
T Consensus       233 ~~~~~~~~~i~~~l~~~ga~~~a~~~~~~~~~~A~~~L~~l~~~~~~~~L~~~L~~~~k  291 (291)
T d2q80a1         233 TENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNPELVALVKHLSKMFK  291 (291)
T ss_dssp             CCCHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTTCC
T ss_pred             cCCHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhC
Confidence            88888899999999999999999999999999999999999999999999999998875
>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
>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
>d1ezfa_ a.128.1.2 (A:) Squalene synthase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure