Citrus Sinensis ID: 038404
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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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 |
| Query | 287 | 2.2.26 [Sep-21-2011] | |||||||
| P34802 | 371 | Heterodimeric geranylgera | yes | no | 1.0 | 0.773 | 0.698 | 1e-116 | |
| Q43133 | 366 | Geranylgeranyl pyrophosph | N/A | no | 0.989 | 0.775 | 0.711 | 1e-115 | |
| Q94ID7 | 370 | Geranylgeranyl pyrophosph | N/A | no | 1.0 | 0.775 | 0.680 | 1e-113 | |
| Q9ZU77 | 347 | Geranylgeranyl pyrophosph | no | no | 0.996 | 0.824 | 0.693 | 1e-112 | |
| Q42698 | 357 | Geranylgeranyl pyrophosph | N/A | no | 1.0 | 0.803 | 0.670 | 1e-110 | |
| P80042 | 369 | Geranylgeranyl pyrophosph | N/A | no | 1.0 | 0.777 | 0.642 | 1e-108 | |
| O04046 | 376 | Heterodimeric geranylgera | no | no | 0.989 | 0.755 | 0.629 | 1e-100 | |
| Q9SLG2 | 372 | Geranylgeranyl pyrophosph | no | no | 0.993 | 0.766 | 0.593 | 5e-97 | |
| Q9LRR0 | 361 | Putative geranylgeranyl p | no | no | 0.996 | 0.792 | 0.635 | 2e-94 | |
| Q9LJY2 | 344 | Geranylgeranyl pyrophosph | no | no | 0.993 | 0.828 | 0.583 | 1e-92 |
| >sp|P34802|GGPP1_ARATH Heterodimeric geranylgeranyl pyrophosphate synthase large subunit 1, chloroplastic OS=Arabidopsis thaliana GN=GGPPS1 PE=1 SV=2 | Back alignment and function desciption |
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Score = 417 bits (1071), Expect = e-116, Method: Compositional matrix adjust.
Identities = 204/292 (69%), Positives = 242/292 (82%), Gaps = 5/292 (1%)
Query: 1 MTSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMP 60
+ +KA+ VNKALD V LR P KIHEAMRYSLLAGGKRVRPVLCIA+CELVGG+ES+AMP
Sbjct: 80 IITKAELVNKALDSAVPLREPLKIHEAMRYSLLAGGKRVRPVLCIAACELVGGEESTAMP 139
Query: 61 VACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAK 120
ACA+EMIHTMSL+HDDLPCMDNDD RRGKPTNHKVFGED A+LAGDALLS AFEH+A+
Sbjct: 140 AACAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVFGEDVAVLAGDALLSFAFEHLASA 199
Query: 121 STE--ISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEG---KDVSLNELENIHLHKTAK 175
++ +SP RVVRA+ EL A+G+EGLVAG+++DI SEG DV L LE IHLHKTA
Sbjct: 200 TSSDVVSPVRVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNDVGLEHLEFIHLHKTAA 259
Query: 176 LLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVS 235
LLEA+ V G I+GGG+ E+ER+RK+ARCIGLLFQVVDDILDVTKSSKELGKTAGKDL++
Sbjct: 260 LLEASAVLGAIVGGGSDDEIERLRKFARCIGLLFQVVDDILDVTKSSKELGKTAGKDLIA 319
Query: 236 DKATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQH 287
DK TYPK+MG+E +R+FA L +A ++L F+ + APL LA YIA RQ+
Sbjct: 320 DKLTYPKIMGLEKSREFAEKLNREARDQLLGFDSDKVAPLLALANYIAYRQN 371
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Heterodimeric geranyl(geranyl)-diphosphate (GPP) synthase large subunit. In vitro, the large subunit catalyzes mainly the trans-addition of the three molecules of IPP onto DMAPP to form geranylgeranyl pyrophosphate while the small subunit alone is inactive. Upon association of the two subunits, the product profile changes and the production of gerany-diphosphate is strongly increased. Arabidopsis thaliana (taxid: 3702) EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 1EC: 0 |
| >sp|Q43133|GGPPS_SINAL Geranylgeranyl pyrophosphate synthase, chloroplastic/chromoplastic OS=Sinapis alba GN=GGPS1 PE=1 SV=1 | Back alignment and function description |
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| >sp|Q94ID7|GGPPS_HEVBR Geranylgeranyl pyrophosphate synthase, chloroplastic OS=Hevea brasiliensis GN=GGPS PE=1 SV=1 | Back alignment and function description |
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| >sp|Q9ZU77|GGPP7_ARATH Geranylgeranyl pyrophosphate synthase 7, chloroplastic OS=Arabidopsis thaliana GN=At2g18620 PE=2 SV=1 | Back alignment and function description |
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| >sp|Q42698|GGPPS_CATRO Geranylgeranyl pyrophosphate synthase, chloroplastic OS=Catharanthus roseus GN=GGPS1 PE=3 SV=1 | Back alignment and function description |
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| >sp|P80042|GGPPS_CAPAN Geranylgeranyl pyrophosphate synthase, chloroplastic OS=Capsicum annuum GN=GGPS1 PE=3 SV=1 | Back alignment and function description |
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| >sp|O04046|GGPP2_ARATH Heterodimeric geranylgeranyl pyrophosphate synthase large subunit 2 OS=Arabidopsis thaliana GN=GGPPS2 PE=1 SV=2 | Back alignment and function description |
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| >sp|Q9SLG2|GGPP4_ARATH Geranylgeranyl pyrophosphate synthase 4 OS=Arabidopsis thaliana GN=GGPP4 PE=2 SV=1 | Back alignment and function description |
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| >sp|Q9LRR0|GGPP8_ARATH Putative geranylgeranyl pyrophosphate synthase 8, chloroplastic OS=Arabidopsis thaliana GN=At3g14510 PE=5 SV=2 | Back alignment and function description |
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| >sp|Q9LJY2|GGPPA_ARATH Geranylgeranyl pyrophosphate synthase 10, mitochondrial OS=Arabidopsis thaliana GN=At3g20160 PE=2 SV=1 | Back alignment and function description |
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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 |
| Query | 287 | ||||||
| 255580739 | 372 | geranyl geranyl pyrophosphate synthase, | 1.0 | 0.771 | 0.790 | 1e-133 | |
| 325516280 | 365 | geranylgeranyl pyrophosphate synthase 1 | 1.0 | 0.786 | 0.766 | 1e-130 | |
| 4958920 | 367 | GGPP synthase [Daucus carota] | 1.0 | 0.782 | 0.788 | 1e-130 | |
| 350538439 | 365 | geranylgeranyl pyrophosphate synthase 1 | 1.0 | 0.786 | 0.759 | 1e-130 | |
| 79154639 | 367 | putative geranylgeranyl pyrophosphate sy | 1.0 | 0.782 | 0.781 | 1e-129 | |
| 224077270 | 365 | predicted protein [Populus trichocarpa] | 1.0 | 0.786 | 0.770 | 1e-128 | |
| 290575616 | 365 | geranylgeranyl diphosphate synthase [Nic | 1.0 | 0.786 | 0.756 | 1e-128 | |
| 291170333 | 370 | geranylgeranyl diphosphate synthase [Jat | 1.0 | 0.775 | 0.756 | 1e-126 | |
| 56122559 | 359 | geranylgeranyl diphosphate synthase [Ado | 1.0 | 0.799 | 0.752 | 1e-123 | |
| 224069436 | 314 | predicted protein [Populus trichocarpa] | 0.996 | 0.910 | 0.730 | 1e-121 |
| >gi|255580739|ref|XP_002531191.1| geranyl geranyl pyrophosphate synthase, putative [Ricinus communis] gi|223529232|gb|EEF31206.1| geranyl geranyl pyrophosphate synthase, putative [Ricinus communis] | Back alignment and taxonomy information |
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Score = 480 bits (1236), Expect = e-133, Method: Compositional matrix adjust.
Identities = 227/287 (79%), Positives = 260/287 (90%)
Query: 1 MTSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMP 60
M +KAK VNKALDE + L++P KIH+AMRYSLLAGGKRVRPVLCIA+CELVGGDE++AMP
Sbjct: 86 MATKAKHVNKALDEAIPLQNPVKIHDAMRYSLLAGGKRVRPVLCIAACELVGGDEATAMP 145
Query: 61 VACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAK 120
ACA+EMIHTMSL+HDDLPCMDNDD RRGKPTNHK+FGE+TAILAGDALLS +FEHVA
Sbjct: 146 AACAMEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKMFGEETAILAGDALLSFSFEHVARS 205
Query: 121 STEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAA 180
+ +SPDRVVRAIAELGSAVGSEGLVAG+I+DIDSEGKDVS+++LE IH+HKTAKLLEA+
Sbjct: 206 TKNVSPDRVVRAIAELGSAVGSEGLVAGQIVDIDSEGKDVSVSDLEYIHIHKTAKLLEAS 265
Query: 181 VVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATY 240
VVCG I+GG + VERVRKYARCIGLLFQVVDDILDVTKSS+ELGKTAGKDL++DKATY
Sbjct: 266 VVCGAILGGADDESVERVRKYARCIGLLFQVVDDILDVTKSSEELGKTAGKDLITDKATY 325
Query: 241 PKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQH 287
PKLMGI+ ARK A L+ QA +ELAYF+ A+AAPLYH A YIASRQ+
Sbjct: 326 PKLMGIDEARKLAAKLVDQANQELAYFDSAKAAPLYHFANYIASRQN 372
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Source: Ricinus communis Species: Ricinus communis Genus: Ricinus Family: Euphorbiaceae Order: Malpighiales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|325516280|gb|ADZ24718.1| geranylgeranyl pyrophosphate synthase 1 [Solanum pennellii] | Back alignment and taxonomy information |
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| >gi|4958920|dbj|BAA78047.1| GGPP synthase [Daucus carota] | Back alignment and taxonomy information |
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| >gi|350538439|ref|NP_001234087.1| geranylgeranyl pyrophosphate synthase 1 [Solanum lycopersicum] gi|82547880|gb|ABB82554.1| geranylgeranyl pyrophosphate synthase 1 [Solanum lycopersicum] | Back alignment and taxonomy information |
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| >gi|79154639|gb|ABB52066.1| putative geranylgeranyl pyrophosphate synthase [Daucus carota subsp. sativus] | Back alignment and taxonomy information |
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| >gi|224077270|ref|XP_002305196.1| predicted protein [Populus trichocarpa] gi|222848160|gb|EEE85707.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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| >gi|290575616|gb|ADD49735.1| geranylgeranyl diphosphate synthase [Nicotiana tabacum] | Back alignment and taxonomy information |
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| >gi|291170333|gb|ADD82422.1| geranylgeranyl diphosphate synthase [Jatropha curcas] | Back alignment and taxonomy information |
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| >gi|56122559|gb|AAV74397.1| geranylgeranyl diphosphate synthase [Adonis aestivalis var. palaestina] | Back alignment and taxonomy information |
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| >gi|224069436|ref|XP_002302977.1| predicted protein [Populus trichocarpa] gi|222844703|gb|EEE82250.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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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 |
| Query | 287 | ||||||
| TAIR|locus:2115450 | 371 | GGPS1 "geranylgeranyl pyrophos | 0.993 | 0.768 | 0.689 | 1.3e-100 | |
| TAIR|locus:2046283 | 347 | AT2G18620 [Arabidopsis thalian | 0.996 | 0.824 | 0.672 | 5.8e-98 | |
| UNIPROTKB|P80042 | 369 | GGPS1 "Geranylgeranyl pyrophos | 1.0 | 0.777 | 0.618 | 7.8e-94 | |
| TAIR|locus:2089626 | 360 | AT3G14530 "AT3G14530" [Arabido | 1.0 | 0.797 | 0.611 | 1.6e-88 | |
| TAIR|locus:2093832 | 357 | AT3G29430 [Arabidopsis thalian | 1.0 | 0.803 | 0.604 | 4.1e-88 | |
| TAIR|locus:2048993 | 376 | GGPS2 "geranylgeranyl pyrophos | 0.986 | 0.752 | 0.607 | 7.7e-87 | |
| TAIR|locus:2079028 | 360 | AT3G32040 [Arabidopsis thalian | 1.0 | 0.797 | 0.580 | 3e-85 | |
| TAIR|locus:2046258 | 372 | GGPS4 "geranylgeranyl pyrophos | 0.993 | 0.766 | 0.572 | 6.2e-85 | |
| TAIR|locus:2087550 | 344 | AT3G20160 [Arabidopsis thalian | 0.993 | 0.828 | 0.563 | 3.2e-81 | |
| TAIR|locus:2010182 | 336 | GGPS6 "geranylgeranyl pyrophos | 1.0 | 0.854 | 0.538 | 8.7e-79 |
| TAIR|locus:2115450 GGPS1 "geranylgeranyl pyrophosphate synthase 1" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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Score = 998 (356.4 bits), Expect = 1.3e-100, P = 1.3e-100
Identities = 200/290 (68%), Positives = 235/290 (81%)
Query: 3 SKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVA 62
+KA+ VNKALD V LR P KIHEAMRYSLLAGGKRVRPVLCIA+CELVGG+ES+AMP A
Sbjct: 82 TKAELVNKALDSAVPLREPLKIHEAMRYSLLAGGKRVRPVLCIAACELVGGEESTAMPAA 141
Query: 63 CALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA-AKS 121
CA+EMIHTMSL+HDDLPCMDNDD RRGKPTNHKVFGED A+LAGDALLS AFEH+A A S
Sbjct: 142 CAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVFGEDVAVLAGDALLSFAFEHLASATS 201
Query: 122 TEI-SPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEG---KDVSLNELENIHLHKTAKLL 177
+++ SP RVVRA+ EL A+G+EGLVAG+++DI SEG DV L LE IHLHKTA LL
Sbjct: 202 SDVVSPVRVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNDVGLEHLEFIHLHKTAALL 261
Query: 178 EAAXXXXXXXXXXNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDK 237
EA+ + E+ER+RK+ARCIGLLFQVVDDILDVTKSSKELGKTAGKDL++DK
Sbjct: 262 EASAVLGAIVGGGSDDEIERLRKFARCIGLLFQVVDDILDVTKSSKELGKTAGKDLIADK 321
Query: 238 ATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQH 287
TYPK+MG+E +R+FA L +A ++L F+ + APL LA YIA RQ+
Sbjct: 322 LTYPKIMGLEKSREFAEKLNREARDQLLGFDSDKVAPLLALANYIAYRQN 371
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| TAIR|locus:2046283 AT2G18620 [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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| UNIPROTKB|P80042 GGPS1 "Geranylgeranyl pyrophosphate synthase, chloroplastic" [Capsicum annuum (taxid:4072)] | Back alignment and assigned GO terms |
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| TAIR|locus:2089626 AT3G14530 "AT3G14530" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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| TAIR|locus:2093832 AT3G29430 [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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| TAIR|locus:2048993 GGPS2 "geranylgeranyl pyrophosphate synthase 2" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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| TAIR|locus:2079028 AT3G32040 [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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| TAIR|locus:2046258 GGPS4 "geranylgeranyl pyrophosphate synthase 4" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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| TAIR|locus:2087550 AT3G20160 [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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| TAIR|locus:2010182 GGPS6 "geranylgeranyl pyrophosphate synthase 6" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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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) |
| P34802 | GGPP1_ARATH | 2, ., 5, ., 1, ., 1, 0 | 0.6986 | 1.0 | 0.7735 | yes | no |
| Q42698 | GGPPS_CATRO | 2, ., 5, ., 1, ., 1, 0 | 0.6701 | 1.0 | 0.8039 | N/A | no |
| O66126 | ISPA_MICLU | 2, ., 5, ., 1, ., 1, 0 | 0.4572 | 0.9198 | 0.9072 | yes | no |
| P45204 | ISPA_HAEIN | 2, ., 5, ., 1, ., 1, 0 | 0.4350 | 0.9616 | 0.9355 | yes | no |
| Q8K9A0 | ISPA_BUCAP | 2, ., 5, ., 1, ., 1, 0 | 0.3775 | 0.8327 | 0.8129 | yes | no |
| P48368 | CRTE_CYAPA | 2, ., 5, ., 1, ., 2, 9 | 0.5053 | 0.9721 | 0.93 | N/A | no |
| P54383 | ISPA_BACSU | 2, ., 5, ., 1, ., 1, 0 | 0.4562 | 0.9477 | 0.9189 | yes | no |
| Q43133 | GGPPS_SINAL | 2, ., 5, ., 1, ., 1, 0 | 0.7118 | 0.9895 | 0.7759 | N/A | no |
| P57537 | ISPA_BUCAI | 2, ., 5, ., 1, ., 1, 0 | 0.392 | 0.8362 | 0.8510 | yes | no |
EC Number Prediction by Ezypred Server
Original result from Ezypred Server
Fail to connect to Ezypred Server
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.5.1 | 0.963 |
| 4th Layer | 2.5.1.10 | 0.946 |
| 4th Layer | 2.5.1.1 | 0.946 |
| 4th Layer | 2.5.1.29 | 0.946 |
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
Fail to connect to STRING server
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 287 | |||
| pfam00348 | 260 | pfam00348, polyprenyl_synt, Polyprenyl synthetase | 5e-95 | |
| COG0142 | 322 | COG0142, IspA, Geranylgeranyl pyrophosphate syntha | 1e-88 | |
| cd00685 | 259 | cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphat | 5e-88 | |
| PRK10581 | 299 | PRK10581, PRK10581, geranyltranstransferase; Provi | 2e-69 | |
| CHL00151 | 323 | CHL00151, preA, prenyl transferase; Reviewed | 6e-62 | |
| cd00867 | 236 | cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate S | 5e-58 | |
| TIGR02748 | 319 | TIGR02748, GerC3_HepT, heptaprenyl diphosphate syn | 2e-37 | |
| cd00385 | 243 | cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynth | 7e-35 | |
| TIGR02749 | 322 | TIGR02749, prenyl_cyano, solanesyl diphosphate syn | 7e-31 | |
| PLN02857 | 416 | PLN02857, PLN02857, octaprenyl-diphosphate synthas | 3e-30 | |
| PRK10888 | 323 | PRK10888, PRK10888, octaprenyl diphosphate synthas | 4e-30 | |
| PLN02890 | 422 | PLN02890, PLN02890, geranyl diphosphate synthase | 6e-19 |
| >gnl|CDD|215873 pfam00348, polyprenyl_synt, Polyprenyl synthetase | Back alignment and domain information |
|---|
Score = 280 bits (718), Expect = 5e-95
Identities = 117/260 (45%), Positives = 164/260 (63%), Gaps = 4/260 (1%)
Query: 24 IHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPCMDN 83
+ AM Y LLAGGKR+RP+L + + +G + + + +ACA+EMIHT SLVHDDL MDN
Sbjct: 1 LLAAMLYYLLAGGKRIRPLLVVLAARALGVEPETLLYLACAIEMIHTASLVHDDL--MDN 58
Query: 84 DDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSE 143
D RRGKPT HK FGE AILAGDALLS AF+ +A + P+ I+EL +AVG++
Sbjct: 59 SDLRRGKPTCHKKFGEAGAILAGDALLSRAFQLLALLG-HVRPEPKYILISELANAVGAQ 117
Query: 144 GLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYAR 203
G V G++MD+++EGKD++L E I +KTA L A+V G I+ G + + + + + R
Sbjct: 118 GEV-GQLMDLETEGKDITLEEYLRIVSYKTAALFYASVQLGAIVAGADEEDEKDLYDFGR 176
Query: 204 CIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENARKFACDLLAQATEE 263
+GL FQ+ DDILD+T ++ELGK G DL K+T P L+ +E AR+ LL +A E+
Sbjct: 177 DLGLAFQIQDDILDLTGDTEELGKPVGTDLQEGKSTLPVLLALEGAREEQRKLLREAYEQ 236
Query: 264 LAYFEVARAAPLYHLAYYIA 283
A+ L +A
Sbjct: 237 KLSEAAAQGVALTKALEALA 256
|
Length = 260 |
| >gnl|CDD|223220 COG0142, IspA, Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism] | Back alignment and domain information |
|---|
| >gnl|CDD|173833 cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphate Synthases, head-to-tail | Back alignment and domain information |
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| >gnl|CDD|182567 PRK10581, PRK10581, geranyltranstransferase; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|164542 CHL00151, preA, prenyl transferase; Reviewed | Back alignment and domain information |
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| >gnl|CDD|173836 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate Synthases | Back alignment and domain information |
|---|
| >gnl|CDD|131795 TIGR02748, GerC3_HepT, heptaprenyl diphosphate synthase component II | Back alignment and domain information |
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| >gnl|CDD|173830 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynthesis enzymes, Class 1 | Back alignment and domain information |
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| >gnl|CDD|131796 TIGR02749, prenyl_cyano, solanesyl diphosphate synthase | Back alignment and domain information |
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| >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 |
|---|
| >gnl|CDD|178478 PLN02890, PLN02890, geranyl diphosphate synthase | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 287 | |||
| PRK10581 | 299 | geranyltranstransferase; Provisional | 100.0 | |
| COG0142 | 322 | IspA Geranylgeranyl pyrophosphate synthase [Coenzy | 100.0 | |
| PRK10888 | 323 | octaprenyl diphosphate synthase; Provisional | 100.0 | |
| TIGR02748 | 319 | GerC3_HepT heptaprenyl diphosphate synthase compon | 100.0 | |
| TIGR02749 | 322 | prenyl_cyano solanesyl diphosphate synthase. Membe | 100.0 | |
| PLN02890 | 422 | geranyl diphosphate synthase | 100.0 | |
| CHL00151 | 323 | preA prenyl transferase; Reviewed | 100.0 | |
| PLN02857 | 416 | octaprenyl-diphosphate synthase | 100.0 | |
| cd00685 | 259 | Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthase | 100.0 | |
| KOG0776 | 384 | consensus Geranylgeranyl pyrophosphate synthase/Po | 100.0 | |
| PF00348 | 260 | polyprenyl_synt: Polyprenyl synthetase; InterPro: | 100.0 | |
| cd00867 | 236 | Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. | 100.0 | |
| KOG0777 | 322 | consensus Geranylgeranyl pyrophosphate synthase/Po | 100.0 | |
| KOG0711 | 347 | consensus Polyprenyl synthetase [Coenzyme transpor | 100.0 | |
| cd00385 | 243 | Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzym | 99.9 | |
| PF07307 | 212 | HEPPP_synt_1: Heptaprenyl diphosphate synthase (HE | 97.58 | |
| cd00683 | 265 | Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthase | 97.12 | |
| PLN02632 | 334 | phytoene synthase | 97.07 | |
| TIGR03465 | 266 | HpnD squalene synthase HpnD. The genes of this fam | 96.85 | |
| TIGR03464 | 266 | HpnC squalene synthase HpnC. This family of genes | 96.66 | |
| TIGR01559 | 336 | squal_synth farnesyl-diphosphate farnesyltransfera | 96.64 | |
| PF00494 | 267 | SQS_PSY: Squalene/phytoene synthase; InterPro: IPR | 96.07 | |
| cd00687 | 303 | Terpene_cyclase_nonplant_C1 Non-plant Terpene Cycl | 92.22 | |
| PF03936 | 270 | Terpene_synth_C: Terpene synthase family, metal bi | 90.36 | |
| cd00868 | 284 | Terpene_cyclase_C1 Terpene cyclases, Class 1. Terp | 87.47 | |
| PRK10888 | 323 | octaprenyl diphosphate synthase; Provisional | 86.65 | |
| cd00685 | 259 | Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthase | 86.29 | |
| TIGR02748 | 319 | GerC3_HepT heptaprenyl diphosphate synthase compon | 85.87 | |
| PF00348 | 260 | polyprenyl_synt: Polyprenyl synthetase; InterPro: | 84.13 | |
| COG1562 | 288 | ERG9 Phytoene/squalene synthetase [Lipid metabolis | 84.06 | |
| PRK12884 | 279 | ubiA prenyltransferase; Reviewed | 82.93 |
| >PRK10581 geranyltranstransferase; Provisional | Back alignment and domain information |
|---|
Probab=100.00 E-value=3.5e-70 Score=497.06 Aligned_cols=285 Identities=43% Similarity=0.651 Sum_probs=257.8
Q ss_pred hHHHHHHHHHhHHhccC--CcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCC
Q 038404 3 SKAKRVNKALDETVQLR--HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPC 80 (287)
Q Consensus 3 ~~~~~i~~~l~~~~~~~--~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~ 80 (287)
+..+.|++.|.+.++.. .++.+.++++|.+..||||+||.|++++++++|++++...++|++||++|+||||||||||
T Consensus 9 ~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~~~~~gGKrlRp~L~l~~~~~~g~~~~~~~~~A~avEliH~aSLiHDDip~ 88 (299)
T PRK10581 9 ACVQQANQALSRFIAPLPFQNTPVVEAMQYGALLGGKRLRPFLVYATGQMFGVSTNTLDAPAAAVECIHAYSLIHDDLPA 88 (299)
T ss_pred HHHHHHHHHHHHHhhhcccCchHHHHHHHHHHhcCcccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHcCccc
Confidence 45688999999988652 2556999999999999999999999999999999888899999999999999999999999
Q ss_pred CCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccC-CCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCCC
Q 038404 81 MDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKST-EISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKD 159 (287)
Q Consensus 81 ~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~-~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~~ 159 (287)
||+|++|||+||+|.+||++.|||+||+|++.||+.+++... ...+....+++..++.+.|..+++.||.+|+.+....
T Consensus 89 ~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GQ~ld~~~~~~~ 168 (299)
T PRK10581 89 MDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAPMPEVSDRDRISMISELASASGIAGMCGGQALDLEAEGKQ 168 (299)
T ss_pred ccCCCccCCCcChHHHhCcchHHHHHHHHHHHHHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHhhHHHHhccCCC
Confidence 999999999999999999999999999999999999987532 2233455677888887655578999999999887666
Q ss_pred CCHHHHHHHHhcchHHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCC
Q 038404 160 VSLNELENIHLHKTAKLLEAAVVCGVIIGGGNM-IEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKA 238 (287)
Q Consensus 160 ~~~~~~~~i~~~KTg~l~~~~~~~ga~la~~~~-~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~ 238 (287)
++.+.|.+|+.+|||+||.+||.+|++++|+++ +..+.+++||.++|+||||+||++|++++++.+||+.++|+++||+
T Consensus 169 ~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g~Dl~~gk~ 248 (299)
T PRK10581 169 VPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKS 248 (299)
T ss_pred CCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHHCCCcchhhhcCCC
Confidence 889999999999999999999999999999764 5678999999999999999999999999999999999999999999
Q ss_pred cHHHHHhHHHHHHHHHHHHHHHHHHhhccCc-cc-HHHHHHHHHHHHhccC
Q 038404 239 TYPKLMGIENARKFACDLLAQATEELAYFEV-AR-AAPLYHLAYYIASRQH 287 (287)
Q Consensus 239 T~p~~~~l~~a~~~~~~~~~~A~~~L~~l~~-~~-~~~L~~l~~~~~~R~~ 287 (287)
|||+++++++|++.+++|.++|.+.|+.+|. .. ++.|.+|++|+++|++
T Consensus 249 T~p~l~~~e~a~~~a~~~~~~A~~~l~~l~~~~~~~~~L~~l~~~~~~R~~ 299 (299)
T PRK10581 249 TYPALLGLEQARKKARDLIDDARQSLDQLAAQSLDTSALEALANYIIQRDK 299 (299)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCCchhHHHHHHHHHHHHhccC
Confidence 9999999999999999999999999999964 33 5889999999999975
|
|
| >COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism] | Back alignment and domain information |
|---|
| >PRK10888 octaprenyl diphosphate synthase; Provisional | Back alignment and domain information |
|---|
| >TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II | Back alignment and domain information |
|---|
| >TIGR02749 prenyl_cyano solanesyl diphosphate synthase | Back alignment and domain information |
|---|
| >PLN02890 geranyl diphosphate synthase | Back alignment and domain information |
|---|
| >CHL00151 preA prenyl transferase; Reviewed | Back alignment and domain information |
|---|
| >PLN02857 octaprenyl-diphosphate synthase | Back alignment and domain information |
|---|
| >cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail | Back alignment and domain information |
|---|
| >KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism] | Back alignment and domain information |
|---|
| >PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms | Back alignment and domain information |
|---|
| >cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases | Back alignment and domain information |
|---|
| >KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism] | Back alignment and domain information |
|---|
| >KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism] | Back alignment and domain information |
|---|
| >cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1 | Back alignment and domain information |
|---|
| >PF07307 HEPPP_synt_1: Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; InterPro: IPR009920 This family contains subunit 1 of bacterial heptaprenyl diphosphate synthase (HEPPP synthase) (2 | Back alignment and domain information |
|---|
| >cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head | Back alignment and domain information |
|---|
| >PLN02632 phytoene synthase | 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 |
|---|
| >TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase | Back alignment and domain information |
|---|
| >PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2 | Back alignment and domain information |
|---|
| >cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1 | Back alignment and domain information |
|---|
| >PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family | Back alignment and domain information |
|---|
| >cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1 | Back alignment and domain information |
|---|
| >PRK10888 octaprenyl diphosphate synthase; Provisional | Back alignment and domain information |
|---|
| >cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail | Back alignment and domain information |
|---|
| >TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II | 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 |
|---|
| >COG1562 ERG9 Phytoene/squalene synthetase [Lipid metabolism] | Back alignment and domain information |
|---|
| >PRK12884 ubiA prenyltransferase; Reviewed | Back alignment and domain information |
|---|
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
| ID | Alignment Graph | Length |
Definition |
E-value | |
| Query | 287 | ||||
| 3kra_A | 295 | Mint Heterotetrameric Geranyl Pyrophosphate Synthas | 1e-106 | ||
| 2j1p_A | 293 | Geranylgeranyl Diphosphate Synthase From Sinapis Al | 9e-97 | ||
| 2j1o_A | 268 | Geranylgeranyl Diphosphate Synthase From Sinapis Al | 1e-82 | ||
| 4f62_A | 317 | Crystal Structure Of A Putative Farnesyl-Diphosphat | 4e-62 | ||
| 3uca_A | 324 | Crystal Structure Of Isoprenoid Synthase (Target Ef | 1e-50 | ||
| 1rtr_A | 301 | Crystal Structure Of S. Aureus Farnesyl Pyrophospha | 4e-49 | ||
| 3ts7_A | 324 | Crystal Structure Of Farnesyl Diphosphate Synthase | 1e-48 | ||
| 3p41_A | 303 | Crystal Structure Of Polyprenyl Synthetase From Pse | 9e-46 | ||
| 3lji_A | 304 | Crystal Structure Of Putative Geranyltranstransfera | 1e-45 | ||
| 3p8r_A | 302 | Crystal Structure Of Polyprenyl Synthase From Vibri | 2e-45 | ||
| 3m9u_A | 309 | Crystal Structure Of Geranylgeranyl Pyrophosphate S | 2e-44 | ||
| 2for_A | 323 | Crystal Structure Of The Shigella Flexneri Farnesyl | 5e-43 | ||
| 1rqj_A | 299 | Active Conformation Of Farnesyl Pyrophosphate Synth | 8e-43 | ||
| 1rqi_A | 300 | Active Conformation Of Farnesyl Pyrophosphate Synth | 9e-43 | ||
| 3p8l_A | 302 | Crystal Structure Of Polyprenyl Synthase From Enter | 1e-40 | ||
| 1wy0_A | 342 | Crystal Structure Of Geranylgeranyl Pyrophosphate S | 8e-39 | ||
| 3npk_A | 291 | The Crystal Structure Of Geranyltranstransferase Fr | 1e-38 | ||
| 3lom_A | 313 | Crystal Structure Of Geranyltransferase From Legion | 2e-38 | ||
| 2h8o_A | 335 | The 1.6a Crystal Structure Of The Geranyltransferas | 3e-37 | ||
| 3lvs_A | 298 | Crystal Structure Of Farnesyl Diphosphate Synthase | 4e-37 | ||
| 3q1o_A | 310 | Crystal Structure Of Geranyltransferase From Helico | 1e-34 | ||
| 3llw_A | 311 | Crystal Structure Of Geranyltransferase From Helico | 2e-34 | ||
| 2ftz_A | 284 | Crystal Structure Of Geranyltranstransferase (Ec 2. | 2e-30 | ||
| 3oyr_A | 345 | Crystal Structure Of Polyprenyl Synthase From Caulo | 8e-27 | ||
| 3aqb_B | 325 | M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphospha | 2e-24 | ||
| 3mzv_A | 341 | Crystal Structure Of A Decaprenyl Diphosphate Synth | 4e-24 | ||
| 4dhd_A | 358 | Crystal Structure Of Isoprenoid Synthase A3msh1 (Ta | 8e-24 | ||
| 3nf2_A | 352 | Crystal Structure Of Polyprenyl Synthetase From Str | 1e-23 | ||
| 3m0g_A | 297 | Crystal Structure Of Putative Farnesyl Diphosphate | 2e-23 | ||
| 3lmd_A | 360 | Crystal Structure Of Geranylgeranyl Pyrophosphate S | 1e-17 | ||
| 3rmg_A | 334 | Crystal Structure Of Geranylgeranyl Pyrophosphate S | 3e-17 | ||
| 3apz_A | 348 | Apo Form Of Arabidopsis MediumLONG-Chain Length Pre | 7e-17 | ||
| 3aq0_A | 348 | Ligand-Bound Form Of Arabidopsis MediumLONG-Chain L | 9e-17 | ||
| 3ipi_A | 295 | Crystal Structure Of A Geranyltranstransferase From | 1e-16 | ||
| 3qkc_B | 273 | Crystal Structure Of Geranyl Diphosphate Synthase S | 2e-16 | ||
| 3kra_B | 274 | Mint Heterotetrameric Geranyl Pyrophosphate Synthas | 4e-16 | ||
| 3oab_B | 264 | Mint Deletion Mutant Of Heterotetrameric Geranyl Py | 1e-14 | ||
| 3pko_A | 334 | Crystal Structure Of Geranylgeranyl Pyrophosphate S | 2e-12 | ||
| 3n3d_A | 335 | Crystal Structure Of Geranylgeranyl Pyrophosphate S | 2e-12 | ||
| 3tc1_A | 315 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 4e-12 | ||
| 3lk5_A | 380 | Crystal Structure Of Putative Geranylgeranyl Pyroph | 9e-12 | ||
| 1vg2_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 5e-10 | ||
| 1v4h_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 5e-10 | ||
| 1v4e_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 6e-10 | ||
| 1v4i_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 1e-09 | ||
| 1v4j_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 2e-09 | ||
| 1vg4_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 2e-09 | ||
| 1vg7_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 2e-09 | ||
| 1vg3_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 2e-09 | ||
| 1wkz_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 2e-09 | ||
| 1wl0_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 2e-09 | ||
| 1v4k_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 3e-09 | ||
| 1vg6_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 3e-09 | ||
| 2azl_A | 299 | Crystal Structure For The Mutant F117e Of Thermotog | 4e-09 | ||
| 1wl2_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 5e-09 | ||
| 1wl3_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 5e-09 | ||
| 2q80_A | 301 | Crystal Structure Of Human Geranylgeranyl Pyrophosp | 4e-08 | ||
| 2azk_A | 289 | Crystal Structure For The Mutant W136e Of Sulfolobu | 9e-07 | ||
| 1wmw_A | 330 | Crystal Structure Of Geranulgeranyl Diphosphate Syn | 2e-06 | ||
| 4fp4_A | 285 | Crystal Structure Of Isoprenoid Synthase A3mx09 (Ta | 5e-06 | ||
| 2azj_A | 289 | Crystal Structure For The Mutant D81c Of Sulfolobus | 2e-05 | ||
| 1wl1_A | 299 | Crystal Structure Of Octaprenyl Pyrophosphate Synth | 3e-05 | ||
| 2dh4_A | 340 | Geranylgeranyl Pyrophosphate Synthase Length = 340 | 3e-04 | ||
| 3cc9_A | 396 | Crystal Structure Of Plasmodium Vivax Putative Poly | 8e-04 |
| >pdb|3KRA|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In Complex With Magnesium Length = 295 | Back alignment and structure |
|
| >pdb|2J1P|A Chain A, Geranylgeranyl Diphosphate Synthase From Sinapis Alba In Complex With Ggpp Length = 293 | Back alignment and structure |
| >pdb|2J1O|A Chain A, Geranylgeranyl Diphosphate Synthase From Sinapis Alba Length = 268 | Back alignment and structure |
| >pdb|4F62|A Chain A, Crystal Structure Of A Putative Farnesyl-Diphosphate Synthase From Marinomonas Sp. Med121 (Target Efi-501980) Length = 317 | Back alignment and structure |
| >pdb|3UCA|A Chain A, Crystal Structure Of Isoprenoid Synthase (Target Efi-501974) From Clostridium Perfringens Length = 324 | Back alignment and structure |
| >pdb|1RTR|A Chain A, Crystal Structure Of S. Aureus Farnesyl Pyrophosphate Synthase Length = 301 | Back alignment and structure |
| >pdb|3TS7|A Chain A, Crystal Structure Of Farnesyl Diphosphate Synthase (Target Efi-501951) From Methylococcus Capsulatus Length = 324 | Back alignment and structure |
| >pdb|3P41|A Chain A, Crystal Structure Of Polyprenyl Synthetase From Pseudomonas Fluorescens Pf-5 Complexed With Magnesium And Isoprenyl Pyrophosphate Length = 303 | Back alignment and structure |
| >pdb|3LJI|A Chain A, Crystal Structure Of Putative Geranyltranstransferase From Pseudomonas Fluorescens Pf-5 Length = 304 | Back alignment and structure |
| >pdb|3P8R|A Chain A, Crystal Structure Of Polyprenyl Synthase From Vibrio Cholerae Length = 302 | Back alignment and structure |
| >pdb|3M9U|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Lactobacillus Brevis Atcc 367 Length = 309 | Back alignment and structure |
| >pdb|2FOR|A Chain A, Crystal Structure Of The Shigella Flexneri Farnesyl Pyrophosphate Synthase Complex With An Isopentenyl Pyrophosphate Length = 323 | Back alignment and structure |
| >pdb|1RQJ|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase Bound To Isopentyl Pyrophosphate And Risedronate Length = 299 | Back alignment and structure |
| >pdb|1RQI|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase Bound To Isopentyl Pyrophosphate And Dimethylallyl S- Thiolodiphosphate Length = 300 | Back alignment and structure |
| >pdb|3P8L|A Chain A, Crystal Structure Of Polyprenyl Synthase From Enterococcus Faecalis V583 Length = 302 | Back alignment and structure |
| >pdb|1WY0|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthetase From Pyrococcus Horikoshii Ot3 Length = 342 | Back alignment and structure |
| >pdb|3NPK|A Chain A, The Crystal Structure Of Geranyltranstransferase From Campylobacter Jejuni Length = 291 | Back alignment and structure |
| >pdb|3LOM|A Chain A, Crystal Structure Of Geranyltransferase From Legionella Pneumophila Length = 313 | Back alignment and structure |
| >pdb|2H8O|A Chain A, The 1.6a Crystal Structure Of The Geranyltransferase From Agrobacterium Tumefaciens Length = 335 | Back alignment and structure |
| >pdb|3LVS|A Chain A, Crystal Structure Of Farnesyl Diphosphate Synthase From Rhodobacter Capsulatus Sb1003 Length = 298 | Back alignment and structure |
| >pdb|3Q1O|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter Pylori Complexed With Magnesium And Isoprenyl Diphosphate Length = 310 | Back alignment and structure |
| >pdb|3LLW|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter Pylori 26695 Length = 311 | Back alignment and structure |
| >pdb|2FTZ|A Chain A, Crystal Structure Of Geranyltranstransferase (Ec 2.5.1.10) (Tm0161) From Thermotoga Maritima At 1.90 A Resolution Length = 284 | Back alignment and structure |
| >pdb|3OYR|A Chain A, Crystal Structure Of Polyprenyl Synthase From Caulobacter Crescentus Cb15 Complexed With Calcium And Isoprenyl Diphosphate Length = 345 | Back alignment and structure |
| >pdb|3AQB|B Chain B, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate Synthase In Complex With Magnesium Length = 325 | Back alignment and structure |
| >pdb|3MZV|A Chain A, Crystal Structure Of A Decaprenyl Diphosphate Synthase From Rhodobacter Capsulatus Length = 341 | Back alignment and structure |
| >pdb|4DHD|A Chain A, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target Efi-501992) From Pyrobaculum Calidifontis Length = 358 | Back alignment and structure |
| >pdb|3NF2|A Chain A, Crystal Structure Of Polyprenyl Synthetase From Streptomyces Coelicolor A3(2) Length = 352 | Back alignment and structure |
| >pdb|3M0G|A Chain A, Crystal Structure Of Putative Farnesyl Diphosphate Synthase From Rhodobacter Capsulatus Length = 297 | 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|3RMG|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Bacteroides Thetaiotaomicron Length = 334 | 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 |
| >pdb|3IPI|A Chain A, Crystal Structure Of A Geranyltranstransferase From The Methanosarcina Mazei Length = 295 | Back alignment and structure |
| >pdb|3QKC|B Chain B, Crystal Structure Of Geranyl Diphosphate Synthase Small Subunit From Antirrhinum Majus Length = 273 | Back alignment and structure |
| >pdb|3KRA|B Chain B, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In Complex With Magnesium Length = 274 | Back alignment and structure |
| >pdb|3OAB|B Chain B, Mint Deletion Mutant Of Heterotetrameric Geranyl Pyrophosphate Synthase In Complex With Ligands Length = 264 | Back alignment and structure |
| >pdb|3PKO|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Lactobacillus Brevis Atcc 367 Complexed With Citrate Length = 334 | Back alignment and structure |
| >pdb|3N3D|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Lactobacillus Brevis Atcc 367 Length = 335 | Back alignment and structure |
| >pdb|3TC1|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Helicobacter Pylori Length = 315 | Back alignment and structure |
| >pdb|3LK5|A Chain A, Crystal Structure Of Putative Geranylgeranyl Pyrophosphate Synthase From Corynebacterium Glutamicum Length = 380 | Back alignment and structure |
| >pdb|1VG2|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima A76y Mutant Length = 299 | Back alignment and structure |
| >pdb|1V4H|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F52a Mutant Length = 299 | Back alignment and structure |
| >pdb|1V4E|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima Length = 299 | Back alignment and structure |
| >pdb|1V4I|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132a Mutant Length = 299 | Back alignment and structure |
| >pdb|1V4J|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima V73y Mutant Length = 299 | Back alignment and structure |
| >pdb|1VG4|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132aL128A MUTANT Length = 299 | Back alignment and structure |
| >pdb|1VG7|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132aL128AI123AD62A MUTANT Length = 299 | Back alignment and structure |
| >pdb|1VG3|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima A76yS77F MUTANT Length = 299 | Back alignment and structure |
| >pdb|1WKZ|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima K41a Mutant Length = 299 | Back alignment and structure |
| >pdb|1WL0|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima R44a Mutant Length = 299 | Back alignment and structure |
| >pdb|1V4K|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima S77f Mutant Length = 299 | Back alignment and structure |
| >pdb|1VG6|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132aL128AI123A MUTANT Length = 299 | Back alignment and structure |
| >pdb|2AZL|A Chain A, Crystal Structure For The Mutant F117e Of Thermotoga Maritima Octaprenyl Pyrophosphate Synthase Length = 299 | Back alignment and structure |
| >pdb|1WL2|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima R90a Mutant Length = 299 | Back alignment and structure |
| >pdb|1WL3|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima R91a Mutant Length = 299 | Back alignment and structure |
| >pdb|2Q80|A Chain A, Crystal Structure Of Human Geranylgeranyl Pyrophosphate Synthase Bound To Ggpp Length = 301 | Back alignment and structure |
| >pdb|2AZK|A Chain A, Crystal Structure For The Mutant W136e Of Sulfolobus Solfataricus Hexaprenyl Pyrophosphate Synthase Length = 289 | Back alignment and structure |
| >pdb|1WMW|A Chain A, Crystal Structure Of Geranulgeranyl Diphosphate Synthase From Thermus Thermophilus Length = 330 | Back alignment and structure |
| >pdb|4FP4|A Chain A, Crystal Structure Of Isoprenoid Synthase A3mx09 (Target Efi-501993) From Pyrobaculum Calidifontis Length = 285 | Back alignment and structure |
| >pdb|2AZJ|A Chain A, Crystal Structure For The Mutant D81c Of Sulfolobus Solfataricus Hexaprenyl Pyrophosphate Synthase Length = 289 | Back alignment and structure |
| >pdb|1WL1|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima H74a Mutant Length = 299 | Back alignment and structure |
| >pdb|2DH4|A Chain A, Geranylgeranyl Pyrophosphate Synthase Length = 340 | Back alignment and structure |
| >pdb|3CC9|A Chain A, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl Pyrophosphate Synthase In Complex With Geranylgeranyl Diphosphate Length = 396 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium tumefaciens, structural GEN PSI-2, protein structure initiative; 1.60A {Agrobacterium tumefaciens} Length = 335 | Back alignment and structure |
|---|
Score = 454 bits (1171), Expect = e-163
Identities = 114/293 (38%), Positives = 163/293 (55%), Gaps = 8/293 (2%)
Query: 1 MTSKAKRVNKALDE-------TVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGG 53
+ A + L ++ P + EAMR+ +L GGKR+RP L I S L+GG
Sbjct: 43 LRENAAKTEALLGHLLSGEARADEITRPQNLLEAMRHGVLNGGKRLRPFLVIESVALLGG 102
Query: 54 DESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLA 113
D + + V ALE +H SLVHDDLP MD+DD RRG+PT H+ F E TAILAGD+LL+LA
Sbjct: 103 DAEAGLHVGAALECLHCYSLVHDDLPAMDDDDLRRGQPTVHRKFDEATAILAGDSLLTLA 162
Query: 114 FEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKT 173
F+ +A+ ++ +R + L A G G+ G+ +D+ +E K + + + KT
Sbjct: 163 FDIIASDDNPLAAERKAALVISLARAAGIGGMAGGQALDLAAEKKAPDEDGIITLQAMKT 222
Query: 174 AKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDL 233
LL A G II G N E +R+R + IGL FQ+ DD+LD+T + +GK GKD
Sbjct: 223 GALLRFACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDA 282
Query: 234 VSDKATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQ 286
K T L G AR+ + +A+A+E LA + +AA L A +IA R+
Sbjct: 283 ARGKGTLVALRGEAWAREKLQEQVAEASELLAPYG-EKAAILIAAARFIAERK 334
|
| >4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP} Length = 317 | Back alignment and structure |
|---|
| >1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1 Length = 301 | Back alignment and structure |
|---|
| >3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus} Length = 324 | Back alignment and structure |
|---|
| >3lsn_A Geranyltranstransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgxrc; HET: MSE; 1.35A {Pseudomonas fluorescens} PDB: 3lji_A* 3p41_A* Length = 304 | Back alignment and structure |
|---|
| >3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid diphosphate synthase; 2.00A {Clostridium perfringens} Length = 324 | Back alignment and structure |
|---|
| >2j1p_A Geranylgeranyl pyrophosphate synthetase; transferase, isoprene biosynthesis, multifunctional enzyme, carotenoid biosynthesis; HET: GRG; 1.8A {Sinapis alba} PDB: 2j1o_A 3kra_A 3krc_A* 3krf_A* 3kro_A* 3krp_A* 3oab_A* 3oac_A* Length = 293 | Back alignment and structure |
|---|
| >3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative; HET: IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A* Length = 309 | Back alignment and structure |
|---|
| >3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis} Length = 302 | Back alignment and structure |
|---|
| >3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.50A {Vibrio cholerae} Length = 302 | Back alignment and structure |
|---|
| >1rqj_A Geranyltranstransferase; bisphosphonate, isoprenyl synthase; HET: IPR RIS; 1.95A {Escherichia coli} SCOP: a.128.1.1 PDB: 1rqi_A* 2for_A* Length = 299 | Back alignment and structure |
|---|
| >3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp} Length = 313 | Back alignment and structure |
|---|
| >3m0g_A Farnesyl diphosphate synthase; structural genomics, protein structure initiative, NYSGXRC, biosynthesis, transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB: 3lvs_A Length = 297 | Back alignment and structure |
|---|
| >3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural genomics protein structure initiative; 1.50A {Campylobacter jejuni} Length = 291 | Back alignment and structure |
|---|
| >3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Helicobacter pylori} PDB: 3q1o_A* Length = 311 | Back alignment and structure |
|---|
| >3kra_B Geranyl diphosphate synthase small subunit; prenyltransferase, isoprene biosynthesis, isoprenyl pyrophosphate synthase, transferase; 1.90A {Mentha x piperita} PDB: 3krc_B* 3krf_B* 3kro_B* 3krp_B* 3oab_B* 3oac_B* Length = 274 | Back alignment and structure |
|---|
| >3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus} Length = 273 | Back alignment and structure |
|---|
| >2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MLY; 1.90A {Thermotoga maritima} Length = 284 | Back alignment and structure |
|---|
| >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 |
|---|
| >4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum calidifontis} Length = 285 | 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 |
|---|
| >4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; 1.65A {Pyrobaculum calidifontis} Length = 358 | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus brevis} PDB: 3n3d_A Length = 334 | Back alignment and structure |
|---|
| >3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B* Length = 325 | Back alignment and structure |
|---|
| >3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} Length = 345 | Back alignment and structure |
|---|
| >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 |
|---|
| >3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} Length = 341 | Back alignment and structure |
|---|
| >2e8v_A Geranylgeranyl pyrophosphate synthetase; prenyltransferase, farnesyl pyrophosphate, bisphosphonate; HET: GRG; 1.80A {Saccharomyces cerevisiae} PDB: 2e8t_A* 2e8u_A* 2dh4_A* 2e8w_A* 2e8x_A* 2e90_A* 2e91_A* 2e92_A* 2e93_A* 2e94_A* 2e95_A* 2z4v_A* 2z4w_A* 2z4x_A* 2z4y_A* 2z4z_A* 2z50_A* 2z52_A* 2z78_A* 2z7h_A* ... Length = 340 | Back alignment and structure |
|---|
| >2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_A Length = 289 | Back alignment and structure |
|---|
| >3lmd_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, protein structure initiative, nysgrc; 1.90A {Corynebacterium glutamicum} PDB: 3q2q_A* Length = 360 | Back alignment and structure |
|---|
| >3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori} Length = 315 | Back alignment and structure |
|---|
| >3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron} Length = 334 | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 287 | |||
| 4f62_A | 317 | Geranyltranstransferase; enzyme function initiativ | 100.0 | |
| 3lsn_A | 304 | Geranyltranstransferase; structural genomics, prot | 100.0 | |
| 3ts7_A | 324 | Geranyltranstransferase; isoprenoid synthesis, far | 100.0 | |
| 3p8l_A | 302 | Geranyltranstransferase; isoprenyl synthase, struc | 100.0 | |
| 3uca_A | 324 | Geranyltranstransferase; isoprenoid synthesis, iso | 100.0 | |
| 3lom_A | 313 | Geranyltranstransferase; geranyltransferase, struc | 100.0 | |
| 3p8r_A | 302 | Geranyltranstransferase; isoprenyl synthase, struc | 100.0 | |
| 2h8o_A | 335 | Geranyltranstransferase; geranyltransferase,agroba | 100.0 | |
| 3m0g_A | 297 | Farnesyl diphosphate synthase; structural genomics | 100.0 | |
| 1rqj_A | 299 | Geranyltranstransferase; bisphosphonate, isoprenyl | 100.0 | |
| 3pde_A | 309 | Farnesyl-diphosphate synthase; isoprenyl diphospha | 100.0 | |
| 1rtr_A | 301 | Geranyltranstransferase; 2.50A {Staphylococcus aur | 100.0 | |
| 3llw_A | 311 | Geranyltranstransferase (ISPA); structural genomic | 100.0 | |
| 3npk_A | 291 | Geranyltranstransferase; isoprene biosynthesis, SG | 100.0 | |
| 2ftz_A | 284 | Geranyltranstransferase; TM0161, structural GE joi | 100.0 | |
| 3oyr_A | 345 | Trans-isoprenyl diphosphate synthase; isoprenyl sy | 100.0 | |
| 3mzv_A | 341 | Decaprenyl diphosphate synthase; transferase, stru | 100.0 | |
| 2j1p_A | 293 | Geranylgeranyl pyrophosphate synthetase; transfera | 100.0 | |
| 1wy0_A | 342 | Geranylgeranyl pyrophosphate synthetase; pyrococcu | 100.0 | |
| 3rmg_A | 334 | Octaprenyl-diphosphate synthase; structural genomi | 100.0 | |
| 3lmd_A | 360 | Geranylgeranyl pyrophosphate synthase; isoprenyl d | 100.0 | |
| 4dhd_A | 358 | Polyprenyl synthetase; isoprenoid synthesis, isopr | 100.0 | |
| 3pko_A | 334 | Geranylgeranyl pyrophosphate synthase; isoprenyl d | 100.0 | |
| 3aqb_B | 325 | Component B of hexaprenyl diphosphate synthase; pr | 100.0 | |
| 3nf2_A | 352 | Putative polyprenyl synthetase; isoprenyl diphosph | 100.0 | |
| 3apz_A | 348 | Geranyl diphosphate synthase; prenyltransferase, a | 100.0 | |
| 3ipi_A | 295 | Geranyltranstransferase; isoprene biosynthesis, he | 100.0 | |
| 1wmw_A | 330 | Geranylgeranyl diphosphate synthetase; GGPP, preny | 100.0 | |
| 3lk5_A | 380 | Geranylgeranyl pyrophosphate synthase; structural | 100.0 | |
| 3tc1_A | 315 | Octaprenyl pyrophosphate synthase; all alpha-helic | 100.0 | |
| 1v4e_A | 299 | Octoprenyl-diphosphate synthase; trans-type prenyl | 100.0 | |
| 2e8v_A | 340 | Geranylgeranyl pyrophosphate synthetase; prenyltra | 100.0 | |
| 2q80_A | 301 | Geranylgeranyl pyrophosphate synthetase; isoprenoi | 100.0 | |
| 2azj_A | 289 | Geranylgeranyl pyrophosphate synthetase; hexpps, t | 100.0 | |
| 2qis_A | 374 | Farnesyl pyrophosphate synthetase; trans-prenyltra | 100.0 | |
| 1uby_A | 367 | FPS, farnesyl diphosphate synthase; transferase, i | 100.0 | |
| 1yhl_A | 362 | Farnesyl pyrophosphate synthase; farnesyl diphosph | 100.0 | |
| 2ihi_A | 395 | Pyrophosphate synthase; PV092040, structural genom | 100.0 | |
| 3dyh_A | 390 | Farnesyl pyrophosphate synthase; protein-bisphosph | 100.0 | |
| 3mav_A | 395 | Farnesyl pyrophosphate synthase; PV092040, structu | 100.0 | |
| 3kra_B | 274 | Geranyl diphosphate synthase small subunit; prenyl | 100.0 | |
| 2her_A | 368 | Fragment, farnesyl pyrophosphate synthase; farnesy | 100.0 | |
| 2q58_A | 368 | Fragment, farnesyl pyrophosphate synthase; farnesy | 100.0 | |
| 3qkc_B | 273 | Geranyl diphosphate synthase small subunit; struct | 100.0 | |
| 4fp4_A | 285 | Polyprenyl synthetase; isoprenoid synthesis, isopr | 100.0 | |
| 4hd1_A | 294 | Squalene synthase HPNC; MCSG, structural genomics, | 96.27 | |
| 3vj8_A | 343 | Squalene synthase; farnesyl-diphosphate farnesyltr | 96.1 | |
| 3acx_A | 293 | Dehydrosqualene synthase; CRTM, carotenoid biosynt | 95.21 | |
| 3kb9_A | 382 | EPI-isozizaene synthase; terpenoid cyclase, alpha- | 93.86 | |
| 1ps1_A | 337 | Pentalenene synthase; antibiotic biosynthesis, ses | 91.26 | |
| 4fp4_A | 285 | Polyprenyl synthetase; isoprenoid synthesis, isopr | 89.52 | |
| 1yyq_A | 374 | Trichodiene synthase; terpenoid cyclase fold, site | 88.32 | |
| 3rmg_A | 334 | Octaprenyl-diphosphate synthase; structural genomi | 87.16 | |
| 3mzv_A | 341 | Decaprenyl diphosphate synthase; transferase, stru | 86.81 | |
| 3nf2_A | 352 | Putative polyprenyl synthetase; isoprenyl diphosph | 86.51 | |
| 2ftz_A | 284 | Geranyltranstransferase; TM0161, structural GE joi | 86.1 | |
| 3m0g_A | 297 | Farnesyl diphosphate synthase; structural genomics | 85.26 | |
| 2q80_A | 301 | Geranylgeranyl pyrophosphate synthetase; isoprenoi | 84.88 | |
| 3lmd_A | 360 | Geranylgeranyl pyrophosphate synthase; isoprenyl d | 84.87 | |
| 1rtr_A | 301 | Geranyltranstransferase; 2.50A {Staphylococcus aur | 84.76 | |
| 2azj_A | 289 | Geranylgeranyl pyrophosphate synthetase; hexpps, t | 84.31 | |
| 3pko_A | 334 | Geranylgeranyl pyrophosphate synthase; isoprenyl d | 84.15 | |
| 4f62_A | 317 | Geranyltranstransferase; enzyme function initiativ | 84.06 | |
| 1wy0_A | 342 | Geranylgeranyl pyrophosphate synthetase; pyrococcu | 82.16 | |
| 2e8v_A | 340 | Geranylgeranyl pyrophosphate synthetase; prenyltra | 81.84 | |
| 1wmw_A | 330 | Geranylgeranyl diphosphate synthetase; GGPP, preny | 81.76 | |
| 3aqb_B | 325 | Component B of hexaprenyl diphosphate synthase; pr | 81.28 | |
| 3lsn_A | 304 | Geranyltranstransferase; structural genomics, prot | 81.13 | |
| 3lom_A | 313 | Geranyltranstransferase; geranyltransferase, struc | 80.52 | |
| 1rqj_A | 299 | Geranyltranstransferase; bisphosphonate, isoprenyl | 80.32 | |
| 1v4e_A | 299 | Octoprenyl-diphosphate synthase; trans-type prenyl | 80.11 | |
| 3p8l_A | 302 | Geranyltranstransferase; isoprenyl synthase, struc | 80.05 |
| >4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP} | Back alignment and structure |
|---|
Probab=100.00 E-value=7.9e-74 Score=522.21 Aligned_cols=283 Identities=45% Similarity=0.714 Sum_probs=239.5
Q ss_pred hHHHHHHHHHhHHhccC-CcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCCCC
Q 038404 3 SKAKRVNKALDETVQLR-HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLPCM 81 (287)
Q Consensus 3 ~~~~~i~~~l~~~~~~~-~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~~~ 81 (287)
+..+.|++.|.+.++.. .|+.+.++++|.+..||||+||.+|+++++++|++++.+.++|++|||||+|||||||||||
T Consensus 11 ~~~~~ve~~L~~~l~~~~~~~~l~~a~~y~~~~gGKrlRp~Lvl~~~~~~g~~~~~~~~~A~avEliH~aSLIHDDip~m 90 (317)
T 4f62_A 11 YTQSRVDQYLEQQLSDYAPANQLHNAMRYSLFNGGKRIRPMLTYASAQLVGDISSLTDASAAALESIHAYSLIHDDLPAM 90 (317)
T ss_dssp HHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHHSTTS
T ss_pred HHHHHHHHHHHHHhcccCCcHHHHHHHHHHHhCCCcchHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHCCcccc
Confidence 45678999999999863 26789999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCCCCC
Q 038404 82 DNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVS 161 (287)
Q Consensus 82 D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~~~~ 161 (287)
|+|++|||+||+|.+||+++|||+||+|++.||+.+++. .+.++....+++..+++++|..+++.||.+|+.+.+..++
T Consensus 91 D~s~~RRG~pt~h~~~G~~~AIlaGD~Ll~~Af~~l~~~-~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~t 169 (317)
T 4f62_A 91 DNDELRRGKPTCHIQFDEATAILAGDALQTFAFELLSNP-TSAQPELAIKLIQELVVASGRNGMITGQMIDLSSENKNIS 169 (317)
T ss_dssp CC-------CCHHHHSCHHHHHHHHHHHHHHHHHHHTCT-TCCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTSSSCCC
T ss_pred cCCCCcCCCccHHhhcCHHHHHHHHHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHHHhhhhHHHhHHHHHhccCCCCC
Confidence 999999999999999999999999999999999999985 3445666788899999988777899999999999876689
Q ss_pred HHHHHHHHhcchHHHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCCCcH
Q 038404 162 LNELENIHLHKTAKLLEAAVVCGVIIGG-GNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATY 240 (287)
Q Consensus 162 ~~~~~~i~~~KTg~l~~~~~~~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T~ 240 (287)
+++|..|+++|||+||++||++|++++| ++++..+.+++||.++|+||||+||++|++++++.+||++|+|+++||+||
T Consensus 170 ~~~y~~i~~~KTg~L~~~a~~~Ga~lag~a~~~~~~~l~~~g~~lGlAFQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~ 249 (317)
T 4f62_A 170 LAELEQMHVHKTGALIKASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATY 249 (317)
T ss_dssp HHHHHHHHHHHTHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTC----------------CCCCH
T ss_pred HHHHHHHHHhchHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHhhCCCcchHHhcCCCcH
Confidence 9999999999999999999999999999 899999999999999999999999999999999999999999999999999
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHhhccCcccHHHHHHHHHHHHhccC
Q 038404 241 PKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQH 287 (287)
Q Consensus 241 p~~~~l~~a~~~~~~~~~~A~~~L~~l~~~~~~~L~~l~~~~~~R~~ 287 (287)
|+++++++|++.++++.++|++.|+.||. .++.|.++++|+++|++
T Consensus 250 p~l~gle~a~~~a~~~~~~A~~~L~~l~~-~~~~L~~l~~~~~~R~~ 295 (317)
T 4f62_A 250 PKLLGLDGAKALVVRLHEQAIAQISEFGD-KSQPLTDLANYIIDRNH 295 (317)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHGGGGG-GGHHHHHHHHHHHC---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhcc
Confidence 99999999999999999999999999975 67999999999999974
|
| >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 |
|---|
| >3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus} | 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 |
|---|
| >3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp} | 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 |
|---|
| >2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium tumefaciens, structural GEN PSI-2, protein structure initiative; 1.60A {Agrobacterium tumefaciens} | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1 | 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 |
|---|
| >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 |
|---|
| >3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} | 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 |
|---|
| >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 |
|---|
| >1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii} | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B* | 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 |
|---|
| >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 |
|---|
| >3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle, protein structure initiative II (PSI II), structural genomics, nysgxrc; 1.90A {Methanosarcina mazei} | 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 |
|---|
| >3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein structure initiative, geranylge pyrophosphate synthase; 1.90A {Corynebacterium glutamicum} PDB: 3qqv_A* | Back alignment and structure |
|---|
| >3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori} | Back alignment and structure |
|---|
| >1v4e_A Octoprenyl-diphosphate synthase; trans-type prenyltransferase, thermophilic; 2.28A {Thermotoga maritima} SCOP: a.128.1.1 PDB: 1v4j_A 1wkz_A 1vg2_A 1wl3_A 1wl0_A 1wl2_A 1v4h_A 1v4i_A 1v4k_A 2azl_A 1wl1_A 1vg4_A 1vg3_A 1vg6_A 1vg7_A | Back alignment and structure |
|---|
| >2e8v_A Geranylgeranyl pyrophosphate synthetase; prenyltransferase, farnesyl pyrophosphate, bisphosphonate; HET: GRG; 1.80A {Saccharomyces cerevisiae} PDB: 2e8t_A* 2e8u_A* 2dh4_A* 2e8w_A* 2e8x_A* 2e90_A* 2e91_A* 2e92_A* 2e93_A* 2e94_A* 2e95_A* 2z4v_A* 2z4w_A* 2z4x_A* 2z4y_A* 2z4z_A* 2z50_A* 2z52_A* 2z78_A* 2z7h_A* ... | Back alignment and structure |
|---|
| >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 |
|---|
| >2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum calidifontis} | 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 |
|---|
| >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 |
|---|
| >3kb9_A EPI-isozizaene synthase; terpenoid cyclase, alpha-helical fold, farnesyl diphosphate, metal-binding, lyase, magnesium; HET: BTM; 1.60A {Streptomyces coelicolor} PDB: 3kbk_A 3lgk_A 3lg5_A* | Back alignment and structure |
|---|
| >1ps1_A Pentalenene synthase; antibiotic biosynthesis, sesquiterpene cyclase, lyase; 2.60A {Streptomyces SP} SCOP: a.128.1.4 PDB: 1hm7_A 1hm4_A | Back alignment and structure |
|---|
| >4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum calidifontis} | Back alignment and structure |
|---|
| >1yyq_A Trichodiene synthase; terpenoid cyclase fold, site-directed mutant, pyrophosphate, lyase; 2.10A {Fusarium sporotrichioides} PDB: 1yj4_A 1yyr_A* 1yys_A* 1jfa_A 1jfg_A 2q9y_A* 2q9z_A 2ael_A* 2aek_A* 2aet_A 2ps7_A 2ps8_A 1kiy_A 1kiz_A 1yyt_A* 1yyu_A* 2ps5_A 2ps4_A 2ps6_A | Back alignment and structure |
|---|
| >3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron} | Back alignment and structure |
|---|
| >3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} | Back alignment and structure |
|---|
| >3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; 2.20A {Streptomyces coelicolor} | Back alignment and structure |
|---|
| >2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MLY; 1.90A {Thermotoga maritima} | Back alignment and structure |
|---|
| >3m0g_A Farnesyl diphosphate synthase; structural genomics, protein structure initiative, NYSGXRC, biosynthesis, transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB: 3lvs_A | Back alignment and structure |
|---|
| >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 |
|---|
| >1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1 | Back alignment and structure |
|---|
| >2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_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 |
|---|
| >4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP} | 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 |
|---|
| >1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate synthase, structural genom riken structural genomics/proteomics initiative; 1.55A {Thermus thermophilus} | 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 |
|---|
| >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 |
|---|
| >3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp} | 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 |
|---|
| >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 |
|---|
| >3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis} | 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 |
| 287 | ||||
| d1rqja_ | 299 | a.128.1.1 (A:) Farnesyl diphosphate synthase (gera | 3e-61 | |
| d1rtra_ | 290 | a.128.1.1 (A:) Farnesyl diphosphate synthase (gera | 7e-53 | |
| d2q80a1 | 291 | a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate s | 4e-27 | |
| d1v4ea_ | 280 | a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Th | 6e-26 | |
| d1fpsa_ | 348 | a.128.1.1 (A:) Farnesyl diphosphate synthase (gera | 4e-24 |
| >d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]} Length = 299 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Terpenoid synthases superfamily: Terpenoid synthases family: Isoprenyl diphosphate synthases domain: Farnesyl diphosphate synthase (geranyltranstransferase) species: Escherichia coli [TaxId: 562]
Score = 194 bits (492), Expect = 3e-61
Identities = 121/291 (41%), Positives = 161/291 (55%), Gaps = 6/291 (2%)
Query: 1 MTSKAKRVNKALDETV--QLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSA 58
+ + K+ N+AL + + E M+Y L GGKR+RP L A+ + G ++
Sbjct: 7 LEACVKQANQALSRFIAPLPFQNTPVVETMQYGALLGGKRLRPFLVYATGHMFGVSTNTL 66
Query: 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118
A A+E IH SL+HDDLP MD+DD RRG PT H FGE AILAGDAL +LAF ++
Sbjct: 67 DAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILS 126
Query: 119 -AKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTA-KL 176
A E+S + I+EL SA G G+ G+ +D+D+EGK V L+ LE IH HKT +
Sbjct: 127 DADMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALI 186
Query: 177 LEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSD 236
A + + G + + KYA IGL FQV DDILDV + LGK G D
Sbjct: 187 RAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLG 246
Query: 237 KATYPKLMGIENARKFACDLLAQATEELAYF--EVARAAPLYHLAYYIASR 285
K+TYP L+G+E ARK A DL+ A + L + + L LA YI R
Sbjct: 247 KSTYPALLGLEQARKKARDLIDDARQSLKQLAEQSLDTSALEALADYIIQR 297
|
| >d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]} Length = 290 | Back information, alignment and structure |
|---|
| >d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} Length = 291 | Back information, alignment and structure |
|---|
| >d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]} Length = 280 | Back information, alignment and structure |
|---|
| >d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Chicken (Gallus gallus) [TaxId: 9031]} Length = 348 | Back information, alignment and structure |
|---|
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 287 | |||
| d1rqja_ | 299 | Farnesyl diphosphate synthase (geranyltranstransfe | 100.0 | |
| d1rtra_ | 290 | Farnesyl diphosphate synthase (geranyltranstransfe | 100.0 | |
| d2q80a1 | 291 | Geranylgeranyl pyrophosphate synthetase {Human (Ho | 100.0 | |
| d1fpsa_ | 348 | Farnesyl diphosphate synthase (geranyltranstransfe | 100.0 | |
| d1v4ea_ | 280 | Octoprenyl-diphosphate synthase {Thermotoga mariti | 100.0 | |
| d1ezfa_ | 333 | Squalene synthase {Human (Homo sapiens) [TaxId: 96 | 96.93 | |
| d1kiya_ | 354 | Trichodiene synthase {Fusarium sporotrichioides [T | 90.22 | |
| d1ps1a_ | 311 | Pentalenene synthase {Streptomyces sp., UC5319 [Ta | 89.27 | |
| d2q80a1 | 291 | Geranylgeranyl pyrophosphate synthetase {Human (Ho | 86.15 | |
| d1rtra_ | 290 | Farnesyl diphosphate synthase (geranyltranstransfe | 80.88 | |
| d1v4ea_ | 280 | Octoprenyl-diphosphate synthase {Thermotoga mariti | 80.81 |
| >d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Terpenoid synthases superfamily: Terpenoid synthases family: Isoprenyl diphosphate synthases domain: Farnesyl diphosphate synthase (geranyltranstransferase) species: Escherichia coli [TaxId: 562]
Probab=100.00 E-value=8.2e-67 Score=473.22 Aligned_cols=286 Identities=43% Similarity=0.645 Sum_probs=257.5
Q ss_pred chHHHHHHHHHhHHhccC--CcHHHHHHHHHhhhCCCCchHHHHHHHHHHHhCCCchhHhHHHHHHHHHHHHHHHHhCCC
Q 038404 2 TSKAKRVNKALDETVQLR--HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTMSLVHDDLP 79 (287)
Q Consensus 2 ~~~~~~i~~~l~~~~~~~--~~~~l~~~~~~~~~~gGKr~Rp~l~l~~~~~~~~~~~~~~~~A~avEliH~asLihDDI~ 79 (287)
+...++|++.|.+.++.. .+..+.++++|.+.+||||+||.+++++++++|++++.+.++|+++|++|+|||||||||
T Consensus 8 ~~~~~~i~~~l~~~~~~~~~~~~~l~e~~~y~~~~gGKrlRp~l~~~~~~~~g~~~~~~~~~A~aiEllH~asLiHDDI~ 87 (299)
T d1rqja_ 8 EACVKQANQALSRFIAPLPFQNTPVVETMQYGALLGGKRLRPFLVYATGHMFGVSTNTLDAPAAAVECIHAYSLIHDDLP 87 (299)
T ss_dssp HHHHHHHHHHHHHHHTTSSSTTSHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHTST
T ss_pred HHHHHHHHHHHHHHHhhcCCCCchHHHHHHHHhhCCcccHHHHHHHHHHHHcCCcchhHHHHHHHHHHHHHHHHHHccch
Confidence 345688999999988653 234599999999999999999999999999999999999999999999999999999998
Q ss_pred CCCCCCCCcCccchhhhcChhHHHHHhHHHHHHHHHHHHcccC-CCCHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCC
Q 038404 80 CMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKST-EISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK 158 (287)
Q Consensus 80 ~~D~s~~RRg~pt~h~~~G~~~Ail~gd~L~~~a~~~l~~~~~-~~~~~~~~~~~~~~~~~~g~~~~~~GQ~~d~~~~~~ 158 (287)
|+|+++.|||+||+|.+||++.|||+||+|++.+++.+++... .......+.++.+++.+.|..++++||.+|+.+...
T Consensus 88 d~d~~~~RRG~pt~h~~~G~~~AIl~Gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~GQ~ldl~~~~~ 167 (299)
T d1rqja_ 88 AMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDADMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGK 167 (299)
T ss_dssp TTTCCCEETTEECHHHHHCHHHHHHHHHHHHHHHHHHHHHSCCTTCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTT
T ss_pred hhhhhhcccccccceeeeCcchhhhhcchHHHHHHHHHHhCCCccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhccC
Confidence 8899999999999999999999999999999999999998643 334556678888888877767899999999988766
Q ss_pred CCCHHHHHHHHhcchHHHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhCCccchhhhcCC
Q 038404 159 DVSLNELENIHLHKTAKLLEAAVVCGVIIGG-GNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDK 237 (287)
Q Consensus 159 ~~~~~~~~~i~~~KTg~l~~~~~~~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk 237 (287)
.+++++|..|+.+|||+||.+++.+|+.+.+ .+.+..+.+++||.++|+||||+||++|++++++.+||+.++|+++||
T Consensus 168 ~~~~~~~~~i~~~KT~~l~~~~~~~~a~~~~~~~~~~~~~l~~~g~~lGiaFQi~DD~lD~~~~~~~~GK~~g~Dl~egK 247 (299)
T d1rqja_ 168 HVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGK 247 (299)
T ss_dssp CCCHHHHHHHHHHHTHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSSCTTHHHHHTC
T ss_pred cccHHHHHHHHHHHHhhHHHHHHHhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhcCCchhhHHHCCC
Confidence 6889999999999999999999999887654 556666889999999999999999999999999999999999999999
Q ss_pred CcHHHHHhHHHHHHHHHHHHHHHHHHhhccCc--ccHHHHHHHHHHHHhccC
Q 038404 238 ATYPKLMGIENARKFACDLLAQATEELAYFEV--ARAAPLYHLAYYIASRQH 287 (287)
Q Consensus 238 ~T~p~~~~l~~a~~~~~~~~~~A~~~L~~l~~--~~~~~L~~l~~~~~~R~~ 287 (287)
+|||++++++++++.++++.+++++.|+.++. ..++.|+++++|+++|++
T Consensus 248 ~Tlp~i~~le~a~~~~~~~~~~~~~~l~~l~~~~~~~~~L~~l~~~i~~R~K 299 (299)
T d1rqja_ 248 STYPALLGLEQARKKARDLIDDARQSLKQLAEQSLDTSALEALADYIIQRNK 299 (299)
T ss_dssp CCHHHHHCHHHHHHHHHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHCCC
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHHHHHHhCCC
Confidence 99999999999999999999999999999833 346899999999999975
|
| >d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]} | Back information, alignment and structure |
|---|
| >d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Chicken (Gallus gallus) [TaxId: 9031]} | Back information, alignment and structure |
|---|
| >d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]} | Back information, alignment and structure |
|---|
| >d1ezfa_ a.128.1.2 (A:) Squalene synthase {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1kiya_ a.128.1.5 (A:) Trichodiene synthase {Fusarium sporotrichioides [TaxId: 5514]} | Back information, alignment and structure |
|---|
| >d1ps1a_ a.128.1.4 (A:) Pentalenene synthase {Streptomyces sp., UC5319 [TaxId: 1931]} | Back information, alignment and structure |
|---|
| >d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]} | Back information, alignment and structure |
|---|
| >d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]} | Back information, alignment and structure |
|---|