Citrus Sinensis ID: 024463

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------
Protein Sequence
MQVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK
Secondary Structure (PSIPRED)
cHHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHccccHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHcccccHHHHHHcccccHHHHHHHccccccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccHEEEEEHcccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcccccccHHHccccccHHHHHcccHEEHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHcHHHHHHHHHHHHHcccccHHHcccccHHHHHcccccHHHHHHHHccHHHHHHHHHHHHccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MQVILLMATALnvctpelspnvlgntlILDLRRRQQCIAEITEMIHVASLIhddvlddadtrrgigslsSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDftgtsaslgkASLTDLRNGIITAPILFAMEEFPQLRAFinsssdnpanVDVILEYLGKSHGIQRTTELALKHASLAAAAidslpethdvdatnARTALVHITQKIITRNK
Flexible Loop (DISEMBL)
MQVILLMATALnvctpelspnvLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVhitqkiitrnk
Low Complexity Region (SEG)
MQVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTElalkhaslaaaaIDSLPETHDVDATNARTALVHITQKIITRNK
Disordered region (IsUnstruct)
**VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKII****
Disordered Region (DISOPRED)
MQVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRN*
Disordered Region (DISEMBL)
MQVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK
Disordered Region (DISPRO)
MQVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRN*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK
Positional Conservation
no confident homologs detected

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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	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	267	2.2.26 [Sep-21-2011]
Q5HZ00	422	Solanesyl diphosphate syn	no	no	0.992	0.627	0.619	4e-98
Q653T6	430	Solanesyl-diphosphate syn	yes	no	0.985	0.611	0.571	7e-88
Q6CBH3	452	Probable hexaprenyl pyrop	yes	no	0.853	0.504	0.397	2e-49
Q33DR2	409	Decaprenyl-diphosphate sy	yes	no	0.928	0.606	0.372	5e-49
Q5T2R2	415	Decaprenyl-diphosphate sy	yes	no	0.850	0.546	0.396	5e-48
Q54VJ9	456	Decaprenyl-diphosphate sy	yes	no	0.835	0.489	0.382	4e-46
Q7S565	449	Probable hexaprenyl pyrop	N/A	no	0.891	0.530	0.380	7e-46
P72580	323	Prenyl transferase OS=Syn	N/A	no	0.764	0.631	0.411	2e-43
Q76FS5	417	Solanesyl diphosphate syn	no	no	0.771	0.494	0.399	2e-42
Q0INZ4	372	Probable solanesyl-diphos	no	no	0.812	0.583	0.368	1e-41

>sp|Q5HZ00|SPS3_ARATH Solanesyl diphosphate synthase 3, chloroplastic/mitochondrial OS=Arabidopsis thaliana GN=SPS3 PE=1 SV=1

 Score =  357 bits (916), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 181/292 (61%), Positives = 220/292 (75%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           ++LLMATALNV  PE       + +  +LR RQ+ IAEITEMIHVASL+HDDVLDDADTR
Sbjct: 131 ILLLMATALNVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTR 190

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RG+GSL+ VMGNK+++LAGD L+SRA  ALA+LK+TEV+                     
Sbjct: 191 RGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSS 250

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 M+ YMQKTY KTA+L+SNSCKAVA L+GQ  EVA LAFEYG+NLGLA+QLIDDI
Sbjct: 251 TEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDI 310

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+G+ITAPILFAMEEFPQLR  ++    +P NVD+ LEYLGK
Sbjct: 311 LDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGK 370

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQR  ELA++HA+LAAAAI SLPET + D   +R AL+ +T ++ITRNK
Sbjct: 371 SKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 422

May be involved in the supply of solanesyl diphosphate for ubiquinone-9 biosynthesis in mitochondria. Synthesizes C25 to C45 medium / long-chain products depending on the type of substrate available. Can use geranyl diphosphate, farnesyl diphosphate or geranylgeranyl diphosphate as substrates, but not dimethylallyl diphosphate.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 8EC: 5

>sp|Q653T6|SPS1_ORYSJ Solanesyl-diphosphate synthase 1, mitochondrial OS=Oryza sativa subsp. japonica GN=SPS1 PE=1 SV=1

 Score =  323 bits (829), Expect = 7e-88,   Method: Compositional matrix adjust.
 Identities = 168/294 (57%), Positives = 214/294 (72%), Gaps = 31/294 (10%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLIL--DLRRRQQCIAEITEMIHVASLIHDDVLDDAD 60
           V+LLMA+AL    P      +G   IL   LR RQQ IAEITEMIHVASL+HDDVLDDAD
Sbjct: 139 VLLLMASALKF--PLSDSTEVGVLTILANKLRTRQQNIAEITEMIHVASLLHDDVLDDAD 196

Query: 61  TRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI------------------- 101
           TRRG+ SL+ +MGNKL++LAGD L+SRA VALA+L +TEV+                   
Sbjct: 197 TRRGVSSLNCIMGNKLSVLAGDFLLSRACVALAALGNTEVVSLMATAVEHLVTGETMQIS 256

Query: 102 --------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLID 153
                   M+ Y+QKTY KTA+L+SNSCKAVA L+G   +V+ LA+EYG+NLGLA+QLID
Sbjct: 257 TSREQRRSMDYYLQKTYYKTASLISNSCKAVAILAGHTADVSMLAYEYGRNLGLAFQLID 316

Query: 154 DILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYL 213
           D+LDFTGTSASLGK SLTD+R+GIITAP+L+AMEEFPQL   ++   DNPANV++ L+YL
Sbjct: 317 DVLDFTGTSASLGKGSLTDIRHGIITAPMLYAMEEFPQLHEVVDRGFDNPANVELALDYL 376

Query: 214 GKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
            KS GI++T ELA +HA+ A  AI++LP++ D D   +R AL+ IT+++ITR K
Sbjct: 377 QKSRGIEKTKELAREHANRAIKAIEALPDSDDEDVLTSRRALIDITERVITRTK 430

Involved in the supply of solanesyl diphosphate for ubiquinone-9 biosynthesis in mitochondria. Farnesyl diphosphate is the preferred substrate.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 8

EC: 4

>sp|Q6CBH3|COQ1_YARLI Probable hexaprenyl pyrophosphate synthase, mitochondrial OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=COQ1 PE=3 SV=1

 Score =  196 bits (497), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 106/267 (39%), Positives = 158/267 (59%), Gaps = 39/267 (14%)

Query: 34  RQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALA 93
           +Q+ +AEI EMIH ASL+HDDV+D++ TRRG  + +   GNK+AILAGD L+ RA VA+A
Sbjct: 192 KQRRLAEIVEMIHTASLLHDDVIDNSATRRGSPTGNVAFGNKMAILAGDFLLGRASVAIA 251

Query: 94  SLKHTEVI---------------------------------MECYMQKTYNKTAALVSNS 120
            L++ EVI                                  E Y+ KTY KTA+L+S S
Sbjct: 252 RLRNAEVIELLSTTIANLVEGEFMQLKNTIVDNSEIANKATFEYYIHKTYLKTASLMSKS 311

Query: 121 CKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
           C+A A LSG R  +   ++++GKNLGL +Q++DD+LD++   + LGK +  DL+ G+ TA
Sbjct: 312 CRAAAVLSGARNPIVDASYKFGKNLGLCFQVVDDMLDYSEGESHLGKPAGADLKLGLATA 371

Query: 181 PILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL 240
           P+LFA E++P+L   I    D P +V+     + ++ G+ RT ELA K+   A A +D L
Sbjct: 372 PVLFAWEKYPELGDMIKRKFDGPGDVERARFLVQQADGLSRTRELAQKYCDEAVANLDLL 431

Query: 241 PETHDVDATNARTALVHITQKIITRNK 267
           P +       +R AL ++T K++ R+K
Sbjct: 432 PYSE------SREALRNLTMKMMNRSK 452

Assembly of polyisoprenoid side chains. The polyprenyl synthase of coenzyme Q biosynthesis catalyzes the formation from isopentenyl diphosphate of all trans-polyprenyl pyrophosphates generally ranging in length of between 6 and 10 isoprene units depending on the species.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: -

>sp|Q33DR2|DPS1_MOUSE Decaprenyl-diphosphate synthase subunit 1 OS=Mus musculus GN=Pdss1 PE=1 SV=1

 Score =  194 bits (493), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 109/293 (37%), Positives = 170/293 (58%), Gaps = 45/293 (15%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           +++LMA A N+           +    +++  Q+ IA + EMIH A+L+HDDV+DDA +R
Sbjct: 134 IVVLMARACNI----------HHNNAREMQASQRSIALVAEMIHTATLVHDDVIDDASSR 183

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RG  +++ + G K A+LAGDL++S A VALA + +T V+                     
Sbjct: 184 RGKHTVNKIWGEKKAVLAGDLILSAASVALARIGNTAVVSMLAQVIEDLVRGEFLQLGSK 243

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                    Y++KT+ KTA+L++NSCKAV+ L      V  +A++YGKN+G+A+QLIDD+
Sbjct: 244 ENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDPVVHEIAYQYGKNVGIAFQLIDDV 303

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFT  S  +GK +  DL+ GI T P+LFA ++FP++ A I      P +VD   +Y+ +
Sbjct: 304 LDFTSCSDQMGKPTSADLKLGIATGPVLFACQQFPEMNAMIMRRFSLPGDVDRARQYVLQ 363

Query: 216 SHGIQRTTELALKHASLAAAAIDSL-PETHDVDATNARTALVHITQKIITRNK 267
           S G+Q+TT LA ++   A   I  L P T        R AL+ +++ ++TR+K
Sbjct: 364 SDGVQQTTYLAQQYCHKAVREIRKLRPSTE-------RDALIQLSESVLTRDK 409

Supplies decaprenyl diphosphate, the precursor for the side chain of the isoprenoid quinones ubiquinone-10.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 1

>sp|Q5T2R2|DPS1_HUMAN Decaprenyl-diphosphate synthase subunit 1 OS=Homo sapiens GN=PDSS1 PE=1 SV=1

 Score =  191 bits (485), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 103/260 (39%), Positives = 157/260 (60%), Gaps = 33/260 (12%)

Query: 35  QQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALAS 94
           Q+ IA I EMIH ASL+HDDV+DDA +RRG  +++ + G K A+LAGDL++S A +ALA 
Sbjct: 162 QRAIALIAEMIHTASLVHDDVIDDASSRRGKHTVNKIWGEKKAVLAGDLILSAASIALAR 221

Query: 95  LKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYL 127
           + +T VI                              Y++KT+ KTA+L++NSCKAV+ L
Sbjct: 222 IGNTTVISILTQVIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVL 281

Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME 187
                 V  +A++YGKN+G+A+QLIDD+LDFT  S  +GK +  DL+ G+ T P+LFA +
Sbjct: 282 GCPDPVVHEIAYQYGKNVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGLATGPVLFACQ 341

Query: 188 EFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVD 247
           +FP++ A I      P +VD   +Y+ +S G+Q+TT LA ++   A   I  L  + +  
Sbjct: 342 QFPEMNAMIMRRFSLPGDVDRARQYVLQSDGVQQTTYLAQQYCHEAIREISKLRPSPE-- 399

Query: 248 ATNARTALVHITQKIITRNK 267
               R AL+ +++ ++TR+K
Sbjct: 400 ----RDALIQLSEIVLTRDK 415

Supplies decaprenyl diphosphate, the precursor for the side chain of the isoprenoid quinones ubiquinone-10.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 1

>sp|Q54VJ9|DPS1_DICDI Decaprenyl-diphosphate synthase OS=Dictyostelium discoideum GN=coq1 PE=3 SV=1

 Score =  184 bits (468), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 98/256 (38%), Positives = 154/256 (60%), Gaps = 33/256 (12%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
           +AEI EMIH ASL+HDDV+D+A TRR + S++    NKLAIL GD L++RA V L+++++
Sbjct: 208 LAEIVEMIHTASLVHDDVIDEASTRRDVISINHSYTNKLAILCGDYLLARASVVLSTIRN 267

Query: 98  TEVIMEC--------------------------YMQKTYNKTAALVSNSCKAVAYLSGQR 131
            +V  EC                          Y+QKTY KT +L++NSC++ A LSG  
Sbjct: 268 PDV-TECMSTALAELVEGEFMQAKSNGVVSFDNYLQKTYLKTGSLITNSCRSAAILSGAD 326

Query: 132 EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQ 191
             +  ++ E+GKNLGLA+Q++DD+LD+TG++   GKA+  DL  G+ TAP+L+A +EFPQ
Sbjct: 327 SNIINISTEFGKNLGLAFQIVDDLLDYTGSAEECGKATSVDLTLGLATAPVLYATQEFPQ 386

Query: 192 LRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNA 251
           L   I        +V+     +  S GI++T  LA+++ + A  ++  LP++       +
Sbjct: 387 LEKLIKRKFSEIGDVEEAKRLVALSKGIEKTRNLAIEYCNRAIQSLLKLPQSE------S 440

Query: 252 RTALVHITQKIITRNK 267
           R  L+ ++  ++TR K
Sbjct: 441 RDLLITLSHIVVTRTK 456

Supplies decaprenyl diphosphate, the precursor for the side chain of the isoprenoid quinones ubiquinone-10.

Dictyostelium discoideum (taxid: 44689)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 1

>sp|Q7S565|COQ1_NEUCR Probable hexaprenyl pyrophosphate synthase, mitochondrial OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=NCU02305 PE=3 SV=1

 Score =  184 bits (466), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 107/281 (38%), Positives = 155/281 (55%), Gaps = 43/281 (15%)

Query: 21  NVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILA 80
           ++  +T IL  +RR   +AEITE+IH ASL+HDDV+D +++RRG  S +   GNK+A+LA
Sbjct: 178 SIPADTDILPSQRR---LAEITELIHTASLLHDDVIDHSESRRGAPSANLEFGNKMAVLA 234

Query: 81  GDLLISRALVALASLKHTEVI----------------------------------MECYM 106
           GD L+ RA VALA L+H EV+                                  +  Y+
Sbjct: 235 GDFLLGRASVALARLRHAEVVELLATVIANLVEGEFMQLKNTARDEKNPKWSEETLTYYL 294

Query: 107 QKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLG 166
           QKTY KTA+L+S SC+A A L G        A+ YGKNLGLA+QL+DD+LD+T +   LG
Sbjct: 295 QKTYLKTASLISKSCRASALLGGADAATVDAAYLYGKNLGLAFQLVDDMLDYTRSEKELG 354

Query: 167 KASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELA 226
           K +  DL  G+ TAP+LFA +  P+L   +    +   +     E + +S+GI++T  LA
Sbjct: 355 KPAGADLELGLATAPLLFAWKTMPELGPLVGRKFEKEGDAARARELVLQSNGIEQTRALA 414

Query: 227 LKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
             +A  A  AI   P++       A+  L+ +  K + RNK
Sbjct: 415 QDYAEKAIEAISGFPDSE------AKDGLIEMAVKTLKRNK 449

Assembly of polyisoprenoid side chains. The polyprenyl synthase of coenzyme Q biosynthesis catalyzes the formation from isopentenyl diphosphate of all trans-polyprenyl pyrophosphates generally ranging in length of between 6 and 10 isoprene units depending on the species.

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: -

>sp|P72580|PREA_SYNY3 Prenyl transferase OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=preA PE=3 SV=2

 Score =  176 bits (445), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 95/231 (41%), Positives = 141/231 (61%), Gaps = 27/231 (11%)

Query: 30  DLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRAL 89
           +L  R + +AEITEMIH ASL+HDDV+D+AD RR + +++S+  N++A+LAGD L +++ 
Sbjct: 65  ELTARHRRLAEITEMIHTASLVHDDVVDEADLRRNVPTVNSLFDNRVAVLAGDFLFAQSS 124

Query: 90  VALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCK 122
             LA+L + EV+                           +E Y++K+Y KTA+L++NS K
Sbjct: 125 WYLANLDNLEVVKLLSEVIRDFAEGEILQSINRFDTDTDLETYLEKSYFKTASLIANSAK 184

Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
           A   LS    +V    +EYGK+LGLA+Q++DDILDFT  +  LGK + +DL +G ITAP 
Sbjct: 185 AAGVLSDAPRDVCDHLYEYGKHLGLAFQIVDDILDFTSPTEVLGKPAGSDLISGNITAPA 244

Query: 183 LFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLA 233
           LFAME++P L   I        +++  LE + +  GI+R+ ELA   A LA
Sbjct: 245 LFAMEKYPLLGKLIEREFAQAGDLEQALELVEQGDGIRRSRELAANQAQLA 295

Possible role in synthesis of the nonaprenyl side chain of plastoquinone or in synthesis of other prenyl chains such as undekaprenyl pyrophosphate.

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: -

>sp|Q76FS5|SPS2_ARATH Solanesyl diphosphate synthase 2, chloroplastic OS=Arabidopsis thaliana GN=SPS2 PE=1 SV=1

 Score =  172 bits (436), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 93/233 (39%), Positives = 138/233 (59%), Gaps = 27/233 (11%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
           + EI EMIH ASLIHDDVLD++D RRG  ++  + G ++A+LAGD + ++A   LA+L++
Sbjct: 167 LGEIIEMIHTASLIHDDVLDESDMRRGRETVHELFGTRVAVLAGDFMFAQASWYLANLEN 226

Query: 98  TEVI---------------------MEC------YMQKTYNKTAALVSNSCKAVAYLSGQ 130
            EVI                      +C      YM K+Y KTA+LV+ S K  A  S  
Sbjct: 227 LEVIKLISQVIKDFASGEIKQASSLFDCDVKLDDYMLKSYYKTASLVAASTKGAAIFSKV 286

Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP 190
             +VA   +++GKNLGL++Q++DDILDFT ++  LGK +  DL  G ITAP++FA+E  P
Sbjct: 287 ESKVAEQMYQFGKNLGLSFQVVDDILDFTQSTEQLGKPAANDLAKGNITAPVIFALENEP 346

Query: 191 QLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPET 243
           +LR  I S    P +++  +E +    GI++  ELA + A LA   ++ LP +
Sbjct: 347 RLREIIESEFCEPGSLEEAIEIVRNRGGIKKAQELAKEKAELALKNLNCLPRS 399

Involved in providing solanesyl diphosphate for plastoquinone-9 formation. Prefers geranylgeranyl diphosphate to farnesyl diphosphate as substrate. No activity with geranyl diphosphate or dimethylallyl diphosphate as substrate.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 8

EC: 5

>sp|Q0INZ4|SPS3_ORYSJ Probable solanesyl-diphosphate synthase 3, chloroplastic (Fragment) OS=Oryza sativa subsp. japonica GN=SPS3 PE=3 SV=1

 Score =  169 bits (429), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 90/244 (36%), Positives = 145/244 (59%), Gaps = 27/244 (11%)

Query: 28  ILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISR 87
           +L+L    Q +AEI EMIH ASLIHDDV+DD+  RRG  ++  + G ++A+LAGD + ++
Sbjct: 112 LLELTTEHQRLAEIIEMIHTASLIHDDVIDDSGMRRGKETIHQLYGTRVAVLAGDFMFAQ 171

Query: 88  ALVALASLKHTEVI---------------------MEC------YMQKTYNKTAALVSNS 120
           +   LA+L++ EVI                      +C      Y+ K+Y KTA+L++ S
Sbjct: 172 SSWFLANLENIEVIKLISQVIKDFASGEIKQASTLFDCDITLDDYLLKSYYKTASLIAAS 231

Query: 121 CKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
            ++ A  SG    +    +EYG+NLGL++Q++DDILDFT ++  LGK + +DL  G +TA
Sbjct: 232 TRSAAIFSGVSTAICEQMYEYGRNLGLSFQVVDDILDFTQSAEQLGKPAGSDLAKGNLTA 291

Query: 181 PILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL 240
           P++FA+++ PQLR  I+S      ++   +E + +S GI+R  ELA +   +A  ++  L
Sbjct: 292 PVIFALQDEPQLREIIDSEFSETNSLATAIELVHRSGGIKRAHELAREKGEIAIQSLQCL 351

Query: 241 PETH 244
           P + 
Sbjct: 352 PRSE 355

Involved in providing solanesyl diphosphate for plastoquinone-9 formation.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 8

EC: 4

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	267
343466169	423	geranyl diphosphate synthase [Siraitia g	0.992	0.626	0.650	1e-104
356514290	480	PREDICTED: probable hexaprenyl pyrophosp	0.992	0.552	0.655	1e-103
356563558	419	PREDICTED: probable hexaprenyl pyrophosp	0.992	0.632	0.658	1e-102
11322972	321	geranyl diphosphate synthase [Citrus sin	0.992	0.825	0.654	1e-102
350538483	415	geranyl pyrophosphate synthase [Solanum	0.992	0.638	0.640	1e-101
27261729	426	geranylgeranyl diphosphate synthase [Cit	0.992	0.622	0.650	1e-101
449433571	423	PREDICTED: solanesyl diphosphate synthas	0.992	0.626	0.640	1e-100
255578548	417	geranylgeranyl pyrophosphate synthase, p	0.992	0.635	0.671	1e-100
12055493	416	geranyl diphosphat synthase [Quercus rob	0.992	0.637	0.650	1e-100
359489044	422	PREDICTED: decaprenyl-diphosphate syntha	0.992	0.627	0.636	8e-99

>gi|343466169|gb|AEM42978.1| geranyl diphosphate synthase [Siraitia grosvenorii]

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 190/292 (65%), Positives = 225/292 (77%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           V+LLM+TALNV  P+  P+ +G+ L +DLR RQQCIAEITEMIHVASL+HDDVLDDADTR
Sbjct: 132 VLLLMSTALNVPIPKPLPHSVGDNLTMDLRTRQQCIAEITEMIHVASLLHDDVLDDADTR 191

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RGIGSL+ VMGNK+A+LAGD L+SRA VALASLK+TEV+                     
Sbjct: 192 RGIGSLNFVMGNKIAVLAGDFLLSRACVALASLKNTEVVSLLAKVLEHLVTGETMQMTTT 251

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 ME YMQKTY KTA+L+SNSCKAVA L+GQ  EVA LA+EYGKNLGLAYQLIDD+
Sbjct: 252 SDQRYSMEYYMQKTYYKTASLISNSCKAVALLAGQTAEVAILAYEYGKNLGLAYQLIDDV 311

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+GIITAP+LFAMEEFPQLR  +    DNP N+D+ +++LGK
Sbjct: 312 LDFTGTSASLGKGSLSDIRHGIITAPLLFAMEEFPQLRTVVERGFDNPENIDIAMDFLGK 371

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQR  ELA KHA+LAA AIDSLPE  D D   +R ALV +TQ+++TR K
Sbjct: 372 SRGIQRARELAAKHANLAAEAIDSLPENDDEDVRKSRKALVDLTQRVVTRTK 423

Source: Siraitia grosvenorii

Species: Siraitia grosvenorii

Genus: Siraitia

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356514290|ref|XP_003525839.1| PREDICTED: probable hexaprenyl pyrophosphate synthase, mitochondrial-like [Glycine max]

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 192/293 (65%), Positives = 227/293 (77%), Gaps = 28/293 (9%)

Query: 3   VILLMATALNVCTPELSPNV-LGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADT 61
           V+LLM+TALN+   E  P V +G TL  D+R RQQ IAEITEMIHVASL+HDDVLDDAD+
Sbjct: 188 VLLLMSTALNLSIHEAPPPVEVGGTLTTDVRSRQQRIAEITEMIHVASLLHDDVLDDADS 247

Query: 62  RRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI-------------------- 101
           RRGIGSL+ VMGNKLA+LAGD L+SRA VALASLK+TEV+                    
Sbjct: 248 RRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVSLLAKVVEHLVTGETMQMTT 307

Query: 102 -------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDD 154
                  ME YMQKTY KTA+L+SNSCKA+A L+GQ  EVA LAFEYGKNLGLA+QLIDD
Sbjct: 308 TSDQRCSMEYYMQKTYYKTASLISNSCKAIAILAGQTAEVAMLAFEYGKNLGLAFQLIDD 367

Query: 155 ILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLG 214
           +LDFTGTSASLGK SL+D+R+GI+TAPILFAMEEFPQLR  ++   +NPANVD+ LEYLG
Sbjct: 368 VLDFTGTSASLGKGSLSDIRHGIVTAPILFAMEEFPQLRTIVDEGFENPANVDLALEYLG 427

Query: 215 KSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           KS GIQRT ELA++HA+LAAAAIDSLPE+ D D   +R AL+ +T ++ITR K
Sbjct: 428 KSRGIQRTRELAVEHANLAAAAIDSLPESDDEDVRKSRKALIDLTHRVITRTK 480

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356563558|ref|XP_003550028.1| PREDICTED: probable hexaprenyl pyrophosphate synthase, mitochondrial-like [Glycine max]

 Score =  377 bits (968), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 193/293 (65%), Positives = 227/293 (77%), Gaps = 28/293 (9%)

Query: 3   VILLMATALNVCTPELSPNV-LGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADT 61
           V+LLM+TALN+   E  P + +G TL  D+R RQQ IAEITEMIHVASL+HDDVLDDADT
Sbjct: 127 VLLLMSTALNLPIHEAPPPIEIGGTLTTDVRLRQQRIAEITEMIHVASLLHDDVLDDADT 186

Query: 62  RRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI-------------------- 101
           RRGIGSL+ VMGNKLA+LAGD L+SRA VALASLK+TEV+                    
Sbjct: 187 RRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVSLLAKVVEHLVTGETMQMTT 246

Query: 102 -------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDD 154
                  ME YMQKTY KTA+L+SNSCKA+A L+GQ  EVA LAFEYGKNLGLA+QLIDD
Sbjct: 247 TSDQRCSMEYYMQKTYYKTASLISNSCKAIAILAGQTAEVAMLAFEYGKNLGLAFQLIDD 306

Query: 155 ILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLG 214
           +LDFTGTSASLGK SL+D+R+GI+TAPILFAMEEFPQLRA ++   +NPANVD+ LEYLG
Sbjct: 307 VLDFTGTSASLGKGSLSDIRHGIVTAPILFAMEEFPQLRAIVDEGFENPANVDLALEYLG 366

Query: 215 KSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           KS GIQRT ELA++HA+LAAAAIDSLPE  D D   +R AL+ +T ++ITR K
Sbjct: 367 KSRGIQRTRELAVEHANLAAAAIDSLPENDDEDVRKSRKALIDLTHRVITRTK 419

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|11322972|emb|CAC16851.1| geranyl diphosphate synthase [Citrus sinensis]

 Score =  375 bits (964), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 191/292 (65%), Positives = 226/292 (77%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           V+LLMATALNV  PE   + + +    +LR RQQCIAEITEMIHVASL+HDDVLDDADTR
Sbjct: 30  VLLLMATALNVRVPEPLHDGVEDASATELRTRQQCIAEITEMIHVASLLHDDVLDDADTR 89

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RGIGSL+ VMGNKLA+LAGD L+SRA VALASLK+TEV+                     
Sbjct: 90  RGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTS 149

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 M+ YMQKTY KTA+L+SNSCKA+A L+GQ  EVA LAF+YGKNLGLAYQLIDD+
Sbjct: 150 SDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDV 209

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+GIITAPILFAMEEFPQLR  +    ++ +NVD+ LEYLGK
Sbjct: 210 LDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGK 269

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQ+T ELA+KHA+LAAAAIDSLPE +D D T +R AL+ +T ++ITRNK
Sbjct: 270 SRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 321

Source: Citrus sinensis

Species: Citrus sinensis

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350538483|ref|NP_001234089.1| geranyl pyrophosphate synthase [Solanum lycopersicum] gi|82659078|gb|ABB88703.1| geranyl pyrophosphate synthase [Solanum lycopersicum]

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 187/292 (64%), Positives = 224/292 (76%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           V+LLMATALNV  P  +P V  ++   DLR RQQCIAEITEMIHVASL+HDDVLDDADTR
Sbjct: 124 VLLLMATALNVQIPRSAPQVDVDSFSGDLRTRQQCIAEITEMIHVASLLHDDVLDDADTR 183

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RGIGSL+ VMGNKLA+LAGD L+SRA VALASLK+TEV+                     
Sbjct: 184 RGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVCLLATVVEHLVTGETMQMTTS 243

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 ME YMQKTY KTA+L+SNSCKA+A L+G   EV+ LAF+YGKNLGLA+QLIDD+
Sbjct: 244 SDERCSMEYYMQKTYYKTASLISNSCKAIALLAGHSAEVSVLAFDYGKNLGLAFQLIDDV 303

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSA+LGK SL+D+R+GI+TAPIL+AMEEFPQLR  ++   D+P NV++ L+YLGK
Sbjct: 304 LDFTGTSATLGKGSLSDIRHGIVTAPILYAMEEFPQLRTLVDRGFDDPVNVEIALDYLGK 363

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQRT ELA KHASLA+AAIDSLPE+ D +   +R ALV +T ++ITR K
Sbjct: 364 SRGIQRTRELARKHASLASAAIDSLPESDDEEVQRSRRALVELTHRVITRTK 415

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|27261729|gb|AAN86061.1| geranylgeranyl diphosphate synthase [Citrus unshiu]

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 190/292 (65%), Positives = 226/292 (77%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           V+LLMATALNV  PE   + + + L  +LR RQQCIAEITEMIHVASL+HDDVLDDADTR
Sbjct: 135 VLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTR 194

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RGIGSL+ VMGNKLA+LAGD L+SRA VALASLK+TEV+                     
Sbjct: 195 RGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTS 254

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 M+ YMQKTY KTA+L+SNSCKA+A L+GQ  EVA LAF+YGKNLGLAYQLIDD+
Sbjct: 255 SDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDV 314

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+++GIITAPILFAMEEFPQLR  +    ++ +NVD+ LEYLGK
Sbjct: 315 LDFTGTSASLGKGSLSDIQHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGK 374

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQ+T ELA+KHA+LAAAAIDSLPE +D D   +R AL+ +T ++ITRNK
Sbjct: 375 SRGIQKTRELAVKHANLAAAAIDSLPENNDEDVRKSRRALLDLTHRVITRNK 426

Source: Citrus unshiu

Species: Citrus unshiu

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433571|ref|XP_004134571.1| PREDICTED: solanesyl diphosphate synthase 3, chloroplastic/mitochondrial-like [Cucumis sativus] gi|449490572|ref|XP_004158644.1| PREDICTED: solanesyl diphosphate synthase 3, chloroplastic/mitochondrial-like [Cucumis sativus]

 Score =  372 bits (955), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 187/292 (64%), Positives = 223/292 (76%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           V+LLMATALN+   +  P+++ + L +DLR RQQC+AEITEMIHVASL+HDDVLDDADTR
Sbjct: 132 VLLLMATALNMPISKPLPHLVEDNLTMDLRTRQQCVAEITEMIHVASLLHDDVLDDADTR 191

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RGIGSL+ VMGNK+++LAGD L+SRA VALASLK+TEV+                     
Sbjct: 192 RGIGSLNFVMGNKISVLAGDFLLSRACVALASLKNTEVVSLIAQVVEHLVTGETMQMTTT 251

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 ME YMQKTY KTA+L+SNSCK+VA L+GQ  EVA LA+EYGKNLGLAYQLIDD+
Sbjct: 252 SDQRYSMEYYMQKTYYKTASLISNSCKSVALLAGQTAEVAMLAYEYGKNLGLAYQLIDDV 311

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+ +GIITAP+LFAMEEFPQLR  +    DN  NVD+ +EYLGK
Sbjct: 312 LDFTGTSASLGKGSLSDIHHGIITAPLLFAMEEFPQLRTVVERGFDNTENVDIAMEYLGK 371

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           SHGIQR  ELA  HA+LAA AIDSLPE +D D   +R ALV +TQ++ITR K
Sbjct: 372 SHGIQRARELAAMHANLAAEAIDSLPENNDEDVRKSRRALVDLTQRVITRTK 423

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255578548|ref|XP_002530137.1| geranylgeranyl pyrophosphate synthase, putative [Ricinus communis] gi|223530362|gb|EEF32253.1| geranylgeranyl pyrophosphate synthase, putative [Ricinus communis]

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 196/292 (67%), Positives = 228/292 (78%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           V+LLMATALNV  PE +P  +G+ +  +LR RQQ IAEITEMIHVASL+HDDVLDDADTR
Sbjct: 126 VLLLMATALNVHIPEPTPTGVGDVVATELRARQQSIAEITEMIHVASLLHDDVLDDADTR 185

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RGIGSL+ VMGNK+A+LAGD L+SRA VALASLK+TEV+                     
Sbjct: 186 RGIGSLNFVMGNKVAVLAGDFLLSRACVALASLKNTEVVSLLATVVEHLVTGETMQMTST 245

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 ME YMQKTY KTA+L+SNSCKA+A L+GQ  EVA LAFEYGKNLGLA+QLIDD+
Sbjct: 246 SEQRCSMEYYMQKTYYKTASLISNSCKAIALLAGQTAEVAMLAFEYGKNLGLAFQLIDDV 305

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+GI+TAPILFAMEEFPQLRA ++   D P NVD+ LEYLGK
Sbjct: 306 LDFTGTSASLGKGSLSDIRHGIVTAPILFAMEEFPQLRAVVDRGFDKPGNVDIALEYLGK 365

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQRT ELA KHA+LAAAAIDSLPET D +   +R ALV +TQ++ITRNK
Sbjct: 366 SRGIQRTRELAAKHANLAAAAIDSLPETDDEEVRKSRRALVDLTQRVITRNK 417

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|12055493|emb|CAC20852.1| geranyl diphosphat synthase [Quercus robur]

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 190/292 (65%), Positives = 223/292 (76%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           V+LLMATA+N+   E S    G+ L  +LR RQQ IAEITEMIHVASL+HDDVLDDADTR
Sbjct: 125 VLLLMATAMNISILEPSLRGPGDALTTELRARQQRIAEITEMIHVASLLHDDVLDDADTR 184

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RGIGSL+ VMGNKLA+LAGD L+SRA VALASLK+TEV+                     
Sbjct: 185 RGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVSLLAKVVEHLVTGETMQMTTT 244

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 ME YMQKTY KTA+L+SNSCKA+A L GQ  EVA LA+EYGKNLGLAYQLIDD+
Sbjct: 245 CEQRCSMEYYMQKTYYKTASLISNSCKAIALLGGQTSEVAMLAYEYGKNLGLAYQLIDDV 304

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+GIITAPILFAMEEFPQLR  ++   D+PANVDV L+YLGK
Sbjct: 305 LDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLREVVDRGFDDPANVDVALDYLGK 364

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQR  ELA KHA++AA AIDSLPE++D D   +R AL+ +T+++ITR K
Sbjct: 365 SRGIQRARELAKKHANIAAEAIDSLPESNDEDVRKSRRALLDLTERVITRTK 416

Source: Quercus robur

Species: Quercus robur

Genus: Quercus

Family: Fagaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359489044|ref|XP_002268229.2| PREDICTED: decaprenyl-diphosphate synthase subunit 1 [Vitis vinifera] gi|296090181|emb|CBI40000.3| unnamed protein product [Vitis vinifera]

 Score =  365 bits (938), Expect = 8e-99,   Method: Compositional matrix adjust.
 Identities = 186/292 (63%), Positives = 224/292 (76%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           V+LLMATALNV  P  +   +  TL  +LR RQQCIAEITEMIHVASL+HDDVLDDA+TR
Sbjct: 131 VLLLMATALNVPLPRPALAEVPETLSTELRTRQQCIAEITEMIHVASLLHDDVLDDAETR 190

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RGIGSL+ +MGNK+A+LAGD L+SRA VALASLK+TEV+                     
Sbjct: 191 RGIGSLNIMMGNKVAVLAGDFLLSRACVALASLKNTEVVSLLATVVEHLVTGETMQMTST 250

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 ME Y+QKTY KTA+L+SNSCKA+A L+GQ  EV+ LAFEYGKNLGLA+QLIDD+
Sbjct: 251 SEQRVSMEYYLQKTYYKTASLISNSCKAIALLAGQTAEVSMLAFEYGKNLGLAFQLIDDV 310

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+GIITAPILFA+EEFPQL A +    DNPA++D+ L+YLGK
Sbjct: 311 LDFTGTSASLGKGSLSDIRHGIITAPILFAIEEFPQLDAVVKRGLDNPADIDLALDYLGK 370

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQRT ELA+KHA+LAA AIDSLPE+ D D   +R AL+ +T ++ITR K
Sbjct: 371 SRGIQRTRELAMKHANLAAEAIDSLPESGDEDVLRSRRALIDLTHRVITRTK 422

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	267
TAIR|locus:2062315	422	GPS1 "geranyl diphosphate synt	0.767	0.485	0.552	5.5e-54
UNIPROTKB|F6RJN8	418	PDSS1 "Uncharacterized protein	0.666	0.425	0.364	2.6e-47
UNIPROTKB|F1RTW8	410	PDSS1 "Uncharacterized protein	0.666	0.434	0.358	1.4e-46
UNIPROTKB|F1PV51	365	PDSS1 "Uncharacterized protein	0.666	0.487	0.358	3.7e-46
ZFIN|ZDB-GENE-030131-4430	411	pdss1 "prenyl (decaprenyl) dip	0.666	0.433	0.353	6e-46
UNIPROTKB|Q5T2R2	415	PDSS1 "Decaprenyl-diphosphate	0.666	0.428	0.358	7.6e-46
UNIPROTKB|E1BZW8	366	PDSS1 "Uncharacterized protein	0.666	0.486	0.353	1.1e-44
CGD|CAL0005672	510	orf19.7478 [Candida albicans (	0.610	0.319	0.360	5.3e-44
DICTYBASE|DDB_G0280293	456	coq1 "trans-prenyltransferase"	0.606	0.355	0.357	1.9e-43
ASPGD|ASPL0000038406	456	AN10340 [Emericella nidulans (	0.614	0.359	0.335	8.4e-42

TAIR|locus:2062315 GPS1 "geranyl diphosphate synthase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 115/208 (55%), Positives = 147/208 (70%)

Query:    63 RGIGSLSSVMGNKL-AILAGDL--LISRALVALASLKHTEVIMECYMQKTYNKTAALVSN 119
             R  G+L+++   ++ A+LA  +  L++   + + S       M+ YMQKTY KTA+L+SN
Sbjct:   215 RACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISN 274

Query:   120 SCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 179
             SCKAVA L+GQ  EVA LAFEYG+NLGLA+QLIDDILDFTGTSASLGK SL+D+R+G+IT
Sbjct:   275 SCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVIT 334

Query:   180 APILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTEXXXXXXXXXXXXIDS 239
             APILFAMEEFPQLR  ++    +P NVD+ LEYLGKS GIQR  E            I S
Sbjct:   335 APILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGS 394

Query:   240 LPETHDVDATNARTALVHITQKIITRNK 267
             LPET + D   +R AL+ +T ++ITRNK
Sbjct:   395 LPETDNEDVKRSRRALIDLTHRVITRNK 422

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0004161 "dimethylallyltranstransferase activity" evidence=IGI;IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0009536 "plastid" evidence=IDA

GO:0009790 "embryo development" evidence=IMP

GO:0004659 "prenyltransferase activity" evidence=IDA

GO:0006744 "ubiquinone biosynthetic process" evidence=IMP

GO:0050347 "trans-octaprenyltranstransferase activity" evidence=IMP

UNIPROTKB|F6RJN8 PDSS1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 325 (119.5 bits), Expect = 2.6e-47, Sum P(2) = 2.6e-47
 Identities = 67/184 (36%), Positives = 110/184 (59%)

Query:    84 LISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGK 143
             L+    + L S ++       Y++KT+ KTA+L++NSCKAV+ L      V  +A++YGK
Sbjct:   241 LVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDPAVHEIAYQYGK 300

Query:   144 NLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNP 203
             N+G+A+QLIDD+LDFT  S  +GK +  DL+ G+ T P+LFA ++FP++ A I     +P
Sbjct:   301 NVGIAFQLIDDVLDFTSCSEQMGKPTSADLKLGLATGPVLFACQQFPEMNAMIMRRFGSP 360

Query:   204 ANVDVILEYLGKSHGIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKII 263
              +VD  L+Y+ +S G+Q+TT             I  L  + +      R AL+ +++ ++
Sbjct:   361 GDVDRALQYVLQSDGVQQTTYLAQRYCHKAVSEISKLRPSPE------RDALIQLSEMVL 414

Query:   264 TRNK 267
             TR+K
Sbjct:   415 TRDK 418

GO:0051290 "protein heterotetramerization" evidence=IEA

GO:0050347 "trans-octaprenyltranstransferase activity" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0000010 "trans-hexaprenyltranstransferase activity" evidence=IEA

UNIPROTKB|F1RTW8 PDSS1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 312 (114.9 bits), Expect = 1.4e-46, Sum P(2) = 1.4e-46
 Identities = 66/184 (35%), Positives = 108/184 (58%)

Query:    84 LISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGK 143
             L+    + L S ++       Y++KT+ KTA+L++NSCKAV+ L      V  +A++YGK
Sbjct:   233 LVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDPAVHEIAYQYGK 292

Query:   144 NLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNP 203
             N+G+A+QLIDD+LDFT  S  +GK +  DL+ G+ T P+LFA ++FP++ A I      P
Sbjct:   293 NVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGLATGPVLFACQQFPEMNAMIMRRFSLP 352

Query:   204 ANVDVILEYLGKSHGIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKII 263
              +VD   +Y+ +S G+Q+TT             I  L  + +      R AL+ +++ ++
Sbjct:   353 GDVDRARQYVLQSDGVQQTTYLAQRYCHEAIREISKLRPSPE------REALIQLSEIVL 406

Query:   264 TRNK 267
             TR+K
Sbjct:   407 TRDK 410

GO:0016740 "transferase activity" evidence=IEA

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

UNIPROTKB|F1PV51 PDSS1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 311 (114.5 bits), Expect = 3.7e-46, Sum P(2) = 3.7e-46
 Identities = 66/184 (35%), Positives = 108/184 (58%)

Query:    84 LISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGK 143
             L+    + L S ++       Y++KT+ KTA+L++NSCKAV+ L      V  +A++YGK
Sbjct:   188 LVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDPVVHEIAYQYGK 247

Query:   144 NLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNP 203
             N+G+A+QLIDD+LDFT  S  +GK +  DL+ G+ T P+LFA ++FP++ A I      P
Sbjct:   248 NVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGLATGPVLFACQQFPEMNAMIMRRFSLP 307

Query:   204 ANVDVILEYLGKSHGIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKII 263
              +VD   +Y+ +S G+Q+TT             I  L  + +      R AL+ +++ ++
Sbjct:   308 GDVDRARQYVLQSDGVQQTTYLAQRYCHEAIREISKLRPSAE------RDALIQLSEIVL 361

Query:   264 TRNK 267
             TR+K
Sbjct:   362 TRDK 365

GO:0051290 "protein heterotetramerization" evidence=IEA

GO:0050347 "trans-octaprenyltranstransferase activity" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0000010 "trans-hexaprenyltranstransferase activity" evidence=IEA

ZFIN|ZDB-GENE-030131-4430 pdss1 "prenyl (decaprenyl) diphosphate synthase, subunit 1" [Danio rerio (taxid:7955)]

 Score = 312 (114.9 bits), Expect = 6.0e-46, Sum P(2) = 6.0e-46
 Identities = 65/184 (35%), Positives = 108/184 (58%)

Query:    84 LISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGK 143
             L+    + L S ++     + Y++KT+ KTA+L++NSCKAV+ L     EV  +A++YG+
Sbjct:   234 LVRGEFMQLGSKENENERFKHYLEKTFKKTASLIANSCKAVSILVNSDPEVHEIAYQYGR 293

Query:   144 NLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNP 203
             N+G+A+QL+DDILDFT  +  LGK S  DL+ G+ T P+LFA ++FP+L + I     + 
Sbjct:   294 NVGIAFQLVDDILDFTSNANCLGKPSAADLKLGLATGPVLFACQQFPELHSMIMRRFSSD 353

Query:   204 ANVDVILEYLGKSHGIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKII 263
              +VD   +Y+ KS G+++T              I  L  + +      R AL+ +T+ ++
Sbjct:   354 GDVDRAWQYVLKSDGVEQTNYLAQHYCQEAIRQISRLRPSSE------RDALIRLTELVL 407

Query:   264 TRNK 267
              R+K
Sbjct:   408 RRDK 411

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0016740 "transferase activity" evidence=IEA

UNIPROTKB|Q5T2R2 PDSS1 "Decaprenyl-diphosphate synthase subunit 1" [Homo sapiens (taxid:9606)]

 Score = 311 (114.5 bits), Expect = 7.6e-46, Sum P(2) = 7.6e-46
 Identities = 66/184 (35%), Positives = 108/184 (58%)

Query:    84 LISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGK 143
             L+    + L S ++       Y++KT+ KTA+L++NSCKAV+ L      V  +A++YGK
Sbjct:   238 LVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDPVVHEIAYQYGK 297

Query:   144 NLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNP 203
             N+G+A+QLIDD+LDFT  S  +GK +  DL+ G+ T P+LFA ++FP++ A I      P
Sbjct:   298 NVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGLATGPVLFACQQFPEMNAMIMRRFSLP 357

Query:   204 ANVDVILEYLGKSHGIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKII 263
              +VD   +Y+ +S G+Q+TT             I  L  + +      R AL+ +++ ++
Sbjct:   358 GDVDRARQYVLQSDGVQQTTYLAQQYCHEAIREISKLRPSPE------RDALIQLSEIVL 411

Query:   264 TRNK 267
             TR+K
Sbjct:   412 TRDK 415

GO:0046872 "metal ion binding" evidence=IEA

GO:0050347 "trans-octaprenyltranstransferase activity" evidence=IEA

GO:0051290 "protein heterotetramerization" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0006744 "ubiquinone biosynthetic process" evidence=IEA;IDA

GO:0000010 "trans-hexaprenyltranstransferase activity" evidence=IDA

GO:0008299 "isoprenoid biosynthetic process" evidence=IDA

GO:0046982 "protein heterodimerization activity" evidence=IDA

UNIPROTKB|E1BZW8 PDSS1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 310 (114.2 bits), Expect = 1.1e-44, Sum P(2) = 1.1e-44
 Identities = 65/184 (35%), Positives = 107/184 (58%)

Query:    84 LISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGK 143
             L+    + L S ++       Y++KT+ KTA+L++NSCKAV+ L     +V  +A++YGK
Sbjct:   189 LVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSILGCPDPKVHEIAYQYGK 248

Query:   144 NLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNP 203
             N+G+A+QLIDD+LDFT  +  LGK +  DL+ G+ T P+LFA  +FP++ A I      P
Sbjct:   249 NVGIAFQLIDDVLDFTSCADHLGKPAAADLKLGLATGPVLFACRQFPEMNAMIMRRFSKP 308

Query:   204 ANVDVILEYLGKSHGIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKII 263
              +V+   +Y+ +S G+Q+TT             I  L  + +      R AL+ +T+ ++
Sbjct:   309 GDVERARKYVLQSDGVQQTTYLAQRYCHEATREISKLRPSPE------REALIQLTEMVL 362

Query:   264 TRNK 267
              R+K
Sbjct:   363 MRDK 366

GO:0000010 "trans-hexaprenyltranstransferase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0050347 "trans-octaprenyltranstransferase activity" evidence=IEA

GO:0051290 "protein heterotetramerization" evidence=IEA

CGD|CAL0005672 orf19.7478 [Candida albicans (taxid:5476)]

 Score = 297 (109.6 bits), Expect = 5.3e-44, Sum P(2) = 5.3e-44
 Identities = 61/169 (36%), Positives = 100/169 (59%)

Query:    97 HTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDIL 156
             + E   E Y+ KTY KTA+L+S SC+A A LSG ++++    +++G+NLGL +Q++DD+L
Sbjct:   346 NVEAAFEYYLHKTYLKTASLMSKSCRAAAVLSGAQDDIIENCYQFGRNLGLCFQIVDDML 405

Query:   157 DFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKS 216
             D+T +  ++GK S  DL+ G+ TAPILFA ++ P+L   I    + P +V++    + K 
Sbjct:   406 DYTSSDKTIGKPSQADLKLGLATAPILFAWKQEPKLGDLIARKFNQPGDVEIARRAVEKY 465

Query:   217 HGIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKIITR 265
              G+ +T E            +  LPE+       AR+AL  +T  ++TR
Sbjct:   466 DGVAQTKEMATMYCHQALKNLRVLPESE------ARSALELLTNSVLTR 508

GO:0032476 "decaprenyl diphosphate synthase complex" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0019418 "sulfide oxidation" evidence=IEA

GO:0070219 "cellular sulfide ion homeostasis" evidence=IEA

GO:0006744 "ubiquinone biosynthetic process" evidence=IEA

GO:0016209 "antioxidant activity" evidence=IEA

GO:0008834 "di-trans,poly-cis-decaprenylcistransferase activity" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0000010 "trans-hexaprenyltranstransferase activity" evidence=IEA

DICTYBASE|DDB_G0280293 coq1 "trans-prenyltransferase" [Dictyostelium discoideum (taxid:44689)]

 Score = 297 (109.6 bits), Expect = 1.9e-43, Sum P(2) = 1.9e-43
 Identities = 60/168 (35%), Positives = 97/168 (57%)

Query:   100 VIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFT 159
             V  + Y+QKTY KT +L++NSC++ A LSG    +  ++ E+GKNLGLA+Q++DD+LD+T
Sbjct:   295 VSFDNYLQKTYLKTGSLITNSCRSAAILSGADSNIINISTEFGKNLGLAFQIVDDLLDYT 354

Query:   160 GTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGI 219
             G++   GKA+  DL  G+ TAP+L+A +EFPQL   I        +V+     +  S GI
Sbjct:   355 GSAEECGKATSVDLTLGLATAPVLYATQEFPQLEKLIKRKFSEIGDVEEAKRLVALSKGI 414

Query:   220 QRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKIITRNK 267
             ++T              +  LP++       +R  L+ ++  ++TR K
Sbjct:   415 EKTRNLAIEYCNRAIQSLLKLPQSE------SRDLLITLSHIVVTRTK 456

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0006743 "ubiquinone metabolic process" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISS

GO:0000010 "trans-hexaprenyltranstransferase activity" evidence=ISS

GO:0046872 "metal ion binding" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0006744 "ubiquinone biosynthetic process" evidence=IEA

ASPGD|ASPL0000038406 AN10340 [Emericella nidulans (taxid:162425)]

 Score = 275 (101.9 bits), Expect = 8.4e-42, Sum P(2) = 8.4e-42
 Identities = 57/170 (33%), Positives = 94/170 (55%)

Query:    98 TEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILD 157
             T+  +  Y+QKTY KTA+L+S SC+A A L     +V   A+ YG+NLGLA+QL+DD+LD
Sbjct:   293 TDDTISYYLQKTYLKTASLISKSCRAAALLGHSTPDVVEAAYSYGRNLGLAFQLVDDMLD 352

Query:   158 FTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSH 217
             +T +   LGK +  DL  G+ TAP+LFA ++ P+L   +        +V+   E + +++
Sbjct:   353 YTVSGVELGKPAGADLELGLATAPLLFAWKQHPELGPLVGRKFCREGDVEKARELVYRAN 412

Query:   218 GIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKIITRNK 267
             G+++T              I   P++       A+  L+ + +K + R K
Sbjct:   413 GVEQTRALAQEYADKAIAAISPFPDSE------AKAGLIEMCRKTMNRRK 456

GO:0032476 "decaprenyl diphosphate synthase complex" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0016209 "antioxidant activity" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IEA

GO:0008834 "di-trans,poly-cis-decaprenylcistransferase activity" evidence=IEA

GO:0000010 "trans-hexaprenyltranstransferase activity" evidence=IEA

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0019418 "sulfide oxidation" evidence=IEA

GO:0070219 "cellular sulfide ion homeostasis" evidence=IEA

GO:0006744 "ubiquinone biosynthetic process" evidence=IEA

---

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)
Q653T6	SPS1_ORYSJ	2, ., 5, ., 1, ., 8, 4	0.5714	0.9850	0.6116	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	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GPPS	SubName- Full=Chromosome chr6 scaffold_28, whole genome shotgun sequence; (422 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00033429001	SubName- Full=Chromosome chr19 scaffold_66, whole genome shotgun sequence; (341 aa)						•	•	•	0.919
	GSVIVG00025071001	SubName- Full=Chromosome chr4 scaffold_32, whole genome shotgun sequence; (234 aa)						•	•		0.916
	GSVIVG00019758001	SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (285 aa)			•			•	•	•	0.915
	GSVIVG00025000001	SubName- Full=Chromosome chr4 scaffold_32, whole genome shotgun sequence; (368 aa)			•			•	•	•	0.915
	GSVIVG00014674001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (371 aa)			•			•	•	•	0.914
	GSVIVG00036188001	SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence (Chromosome undetermine [...] (341 aa)			•			•	•	•	0.914
	GSVIVG00027948001	SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (420 aa)			•	•		•	•	•	0.908
	GSVIVG00001656001	SubName- Full=Chromosome undetermined scaffold_119, whole genome shotgun sequence; (242 aa)						•	•		0.905
	GSVIVG00036436001	SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (465 aa)						•	•		0.900
	GSVIVG00027313001	SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (298 aa)						•			0.899

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	267
PLN02890	422	PLN02890, PLN02890, geranyl diphosphate synthase	1e-134
TIGR02749	322	TIGR02749, prenyl_cyano, solanesyl diphosphate syn	1e-68
PLN02857	416	PLN02857, PLN02857, octaprenyl-diphosphate synthas	1e-63
CHL00151	323	CHL00151, preA, prenyl transferase; Reviewed	7e-59
COG0142	322	COG0142, IspA, Geranylgeranyl pyrophosphate syntha	2e-58
cd00685	259	cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphat	1e-56
cd00867	236	cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate S	2e-40
TIGR02748	319	TIGR02748, GerC3_HepT, heptaprenyl diphosphate syn	7e-40
pfam00348	260	pfam00348, polyprenyl_synt, Polyprenyl synthetase	1e-39
PRK10888	323	PRK10888, PRK10888, octaprenyl diphosphate synthas	5e-29
cd00385	243	cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynth	2e-26
PRK10581	299	PRK10581, PRK10581, geranyltranstransferase; Provi	1e-12

>gnl|CDD|178478 PLN02890, PLN02890, geranyl diphosphate synthase

 Score =  386 bits (992), Expect = e-134
 Identities = 189/292 (64%), Positives = 227/292 (77%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           V+LLMATALNV  PE +   + + +  +LR RQQ IAEITEMIHVASL+HDDVLDDADTR
Sbjct: 131 VLLLMATALNVPLPESTEGGVLDIVASELRTRQQNIAEITEMIHVASLLHDDVLDDADTR 190

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RG+GSL+ VMGNKL++LAGD L+SRA VALA+LK+TEV+                     
Sbjct: 191 RGVGSLNVVMGNKLSVLAGDFLLSRACVALAALKNTEVVSLLATAVEHLVTGETMQITSS 250

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 M+ YMQKTY KTA+L+SNSCKAVA L+GQ  EVA LAFEYG+NLGLA+QLIDD+
Sbjct: 251 REQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDV 310

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+G+ITAPILFAMEEFPQLR  ++   DNPANVD+ LEYLGK
Sbjct: 311 LDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLGK 370

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQRT ELA +HA+LAAAAI+SLPET D D   +R AL+ +T+++ITRNK
Sbjct: 371 SRGIQRTRELAREHANLAAAAIESLPETDDEDVLTSRRALIDLTERVITRNK 422

Length = 422

>gnl|CDD|131796 TIGR02749, prenyl_cyano, solanesyl diphosphate synthase

 Score =  214 bits (548), Expect = 1e-68
 Identities = 105/263 (39%), Positives = 159/263 (60%), Gaps = 33/263 (12%)

Query: 30  DLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRAL 89
           +L  R + +AEITEMIH ASL+HDDV+D++DTRRGI ++ S+ G ++A+LAGD L ++A 
Sbjct: 64  ELTPRHRRLAEITEMIHTASLVHDDVIDESDTRRGIETVHSLFGTRVAVLAGDFLFAQAS 123

Query: 90  VALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCK 122
             LA+L++ EV+                           +E Y++K++ KTA+LV+ S K
Sbjct: 124 WYLANLENLEVVKLISKVITDFAEGEIKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSK 183

Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
           A A LS    +VA   +EYGK+LGLA+Q++DDILDFTG++  LGK + +DL  G +TAP+
Sbjct: 184 AAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKPAGSDLMKGNLTAPV 243

Query: 183 LFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPE 242
           LFA+EE P+L   I        +++  L  + KS GI++  ELA + A LA  ++  LP 
Sbjct: 244 LFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQAQLALQSLSFLPP 303

Query: 243 THDVDATNARTALVHITQKIITR 265
                 +  R AL  +   +++R
Sbjct: 304 ------SPPREALKELVHFVLSR 320

Members of this family all are from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterized by heterologous expression as a solanesyl diphosphate synthase [Biosynthesis of cofactors, prosthetic groups, and carriers, Menaquinone and ubiquinone]. Length = 322

>gnl|CDD|215462 PLN02857, PLN02857, octaprenyl-diphosphate synthase

 Score =  204 bits (521), Expect = 1e-63
 Identities = 97/265 (36%), Positives = 151/265 (56%), Gaps = 33/265 (12%)

Query: 28  ILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISR 87
           + +L    + +AEITEMIH ASLIHDDVLD++D RRG  ++  + G ++A+LAGD + ++
Sbjct: 156 LKELTTEHRRLAEITEMIHTASLIHDDVLDESDMRRGKETVHQLYGTRVAVLAGDFMFAQ 215

Query: 88  ALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNS 120
           +   LA+L + EVI                           ++ Y+ K+Y KTA+L++ S
Sbjct: 216 SSWYLANLDNLEVIKLISQVIKDFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAAS 275

Query: 121 CKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
            K+ A  SG    V    +EYGKNLGLA+Q++DDILDFT ++  LGK + +DL  G +TA
Sbjct: 276 TKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQSTEQLGKPAGSDLAKGNLTA 335

Query: 181 PILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL 240
           P++FA+E+ P+LR  I S      +++  +E + +  GI+R  ELA + A LA   ++ L
Sbjct: 336 PVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEKADLAIQNLECL 395

Query: 241 PETHDVDATNARTALVHITQKIITR 265
           P          R++L  +    + R
Sbjct: 396 PR------GAFRSSLEDMVDYNLER 414

Length = 416

>gnl|CDD|164542 CHL00151, preA, prenyl transferase; Reviewed

 Score =  189 bits (482), Expect = 7e-59
 Identities = 94/266 (35%), Positives = 152/266 (57%), Gaps = 33/266 (12%)

Query: 29  LDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA 88
           ++++  QQ +AEITE+IH ASL+HDDV+D+   RRGI ++  + G K+A+LAGD L +++
Sbjct: 64  MEIKTSQQRLAEITEIIHTASLVHDDVIDECSIRRGIPTVHKIFGTKIAVLAGDFLFAQS 123

Query: 89  LVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSC 121
              LA+L + EV+                           +  Y++K++ KTA+L++ SC
Sbjct: 124 SWYLANLNNLEVVKLISKVITDFAEGEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASC 183

Query: 122 KAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP 181
           KA A LS   E+     + YGK+LGLA+Q+IDD+LD T ++ SLGK   +DL+NG +TAP
Sbjct: 184 KAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIGSDLKNGNLTAP 243

Query: 182 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLP 241
           +LFA+ +  +L   I        ++   L+ + +++GI++  +LAL+H   A   +  LP
Sbjct: 244 VLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEHMQAAIQCLKFLP 303

Query: 242 ETHDVDATNARTALVHITQKIITRNK 267
            +   D      +L+ I   II R  
Sbjct: 304 PSSAKD------SLIEIANFIINRLN 323

Length = 323

>gnl|CDD|223220 COG0142, IspA, Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]

 Score =  188 bits (480), Expect = 2e-58
 Identities = 92/291 (31%), Positives = 136/291 (46%), Gaps = 47/291 (16%)

Query: 5   LLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRG 64
           LL A AL +       + L              +A   E+IH ASLIHDD++DD D RRG
Sbjct: 51  LLAAEALGIDLETGGNDALD-------------LAAAIELIHTASLIHDDLMDDDDLRRG 97

Query: 65  IGSLSSVMGNKLAILAGDLLISRALVALASL----------------------------K 96
             ++ +  G   AILAGD L++ A   L+ L                            +
Sbjct: 98  KPTVHAKFGEATAILAGDALLAAAFELLSKLGSEALEAIKALAEAINGLCGGQALDLAFE 157

Query: 97  HTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDIL 156
           +  V +E Y++    KTAAL + +    A L+G  EE+     +YG+NLGLA+Q+ DDIL
Sbjct: 158 NKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDIL 217

Query: 157 DFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKS 216
           D TG    LGK   +DL+ G  T P+L A+E+  + +  +    +    V+  LE L KS
Sbjct: 218 DITGDEEELGKPVGSDLKEGKPTLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKS 277

Query: 217 HGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
             I+    LA  +   A  A++ LP++       A+ AL+ +   II R  
Sbjct: 278 GAIEYAKNLAKTYVEKAKEALEKLPDSE------AKEALLELADFIIKRKY 322

Length = 322

>gnl|CDD|173833 cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphate Synthases, head-to-tail

 Score =  181 bits (463), Expect = 1e-56
 Identities = 83/266 (31%), Positives = 117/266 (43%), Gaps = 72/266 (27%)

Query: 30  DLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRAL 89
                   +A   E++H ASL+HDDV+D++D RRG  ++  V GN  AILAGD L++RA 
Sbjct: 36  PELEAALRLAAAIELLHTASLVHDDVMDNSDLRRGKPTVHKVFGNATAILAGDYLLARAF 95

Query: 90  VALASLKH----------TEVIMEC--------------------YMQKTYNKTAALVSN 119
             LA L +          +E I+E                     Y++    KTAAL + 
Sbjct: 96  ELLARLGNPYYPRALELFSEAILELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAA 155

Query: 120 SCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 179
           +    A L+G  EE A     +G+NLGLA+Q+ DDILD  G   +LGK   +DLR G  T
Sbjct: 156 APLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCT 215

Query: 180 APILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDS 239
            P+L A+                                     ELA ++   A  A+ +
Sbjct: 216 LPVLLALR------------------------------------ELAREYEEKALEALKA 239

Query: 240 LPETHDVDATNARTALVHITQKIITR 265
           LPE      + AR AL  +   I+ R
Sbjct: 240 LPE------SPAREALRALADFILER 259

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|173836 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate Synthases

 Score =  139 bits (353), Expect = 2e-40
 Identities = 69/196 (35%), Positives = 96/196 (48%), Gaps = 29/196 (14%)

Query: 22  VLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSV-MGNKLAILA 80
           +L    +         +A   E++H ASL+HDD++DD+D RRG  +      GN LAILA
Sbjct: 7   LLLARALGGDLEAALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALAILA 66

Query: 81  GDLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKT 113
           GD L++RA   LA L +   +                           ++ Y++    KT
Sbjct: 67  GDYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKT 126

Query: 114 AALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDL 173
           A LV   C   A LSG  +E A    +YG+ LGLA+QL DD+LD  G +  LGK   +DL
Sbjct: 127 AGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGKV-GSDL 185

Query: 174 RNGIITAPILFAMEEF 189
           R G IT P++ A E  
Sbjct: 186 REGRITLPVILARERA 201

Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. The head-to-head (HH) IPPS catalyze the successive 1'-1 condensation of 2 farnesyl or 2 geranylgeranyl isoprenoid diphosphates. 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 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, stabilizing reactive carbocation intermediates. Mechanistically and structurally distinct, cis-IPPS are not included in this CD. Length = 236

>gnl|CDD|131795 TIGR02748, GerC3_HepT, heptaprenyl diphosphate synthase component II

 Score =  140 bits (354), Expect = 7e-40
 Identities = 79/257 (30%), Positives = 128/257 (49%), Gaps = 34/257 (13%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLK- 96
           +A   E+IH+ASL+HDDV+DDAD RRG  ++ S  GN++A+  GD L +++L  +  +K 
Sbjct: 68  VAVALELIHMASLVHDDVIDDADLRRGRPTIKSKWGNRIAMYTGDYLFAKSLETMTEIKD 127

Query: 97  ---HT---EVIMEC--------------------YMQKTYNKTAALVSNSCKAVAYLSGQ 130
              H      I+E                     Y+++   KTA L++ SC+  A  SG 
Sbjct: 128 PRAHQILSHTIVEVCRGEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGA 187

Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP 190
            E +    + +G  +G++YQ+ DDILDF GT   LGK +  DL  G +T P+L+AME+  
Sbjct: 188 NEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLLQGNVTLPVLYAMEDPF 247

Query: 191 QLRAFINSSSDNPAN-VDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDAT 249
             +       +  A  ++ ++E + KS  I+    ++ ++   A   +D LP        
Sbjct: 248 LKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRYLKKALELLDGLP------DG 301

Query: 250 NARTALVHITQKIITRN 266
            A+  L  I + I  R 
Sbjct: 302 RAKKPLQEIAKYIGKRK 318

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 [Biosynthesis of cofactors, prosthetic groups, and carriers, Menaquinone and ubiquinone]. Length = 319

>gnl|CDD|215873 pfam00348, polyprenyl_synt, Polyprenyl synthetase

 Score =  138 bits (349), Expect = 1e-39
 Identities = 68/183 (37%), Positives = 93/183 (50%), Gaps = 33/183 (18%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
           +A   EMIH ASL+HDD++D++D RRG  +     G   AILAGD L+SRA   LA L H
Sbjct: 38  LACAIEMIHTASLVHDDLMDNSDLRRGKPTCHKKFGEAGAILAGDALLSRAFQLLALLGH 97

Query: 98  --------------TEVIMEC-------------------YMQKTYNKTAALVSNSCKAV 124
                           V  +                    Y++    KTAAL   S +  
Sbjct: 98  VRPEPKYILISELANAVGAQGEVGQLMDLETEGKDITLEEYLRIVSYKTAALFYASVQLG 157

Query: 125 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 184
           A ++G  EE     +++G++LGLA+Q+ DDILD TG +  LGK   TDL+ G  T P+L 
Sbjct: 158 AIVAGADEEDEKDLYDFGRDLGLAFQIQDDILDLTGDTEELGKPVGTDLQEGKSTLPVLL 217

Query: 185 AME 187
           A+E
Sbjct: 218 ALE 220

Length = 260

>gnl|CDD|182813 PRK10888, PRK10888, octaprenyl diphosphate synthase; Provisional

 Score =  111 bits (280), Expect = 5e-29
 Identities = 81/252 (32%), Positives = 124/252 (49%), Gaps = 34/252 (13%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA---LVALAS 94
           IA + E IH A+L+HDDV+D++D RRG  + ++  GN  ++L GD + +RA   + +L S
Sbjct: 69  IAALIEFIHTATLLHDDVVDESDMRRGKATANAAFGNAASVLVGDFIYTRAFQMMTSLGS 128

Query: 95  LKHTEV---------------IMEC---------YMQKTYNKTAALVSNSCKAVAYLSGQ 130
           LK  EV               +M           YM+  Y+KTA L   + +    L+G 
Sbjct: 129 LKVLEVMSEAVNVIAEGEVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGC 188

Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE-F 189
             E      +YG+ LG A+QLIDD+LD++    +LGK    DL  G  T P+L AM    
Sbjct: 189 TPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKNVGDDLNEGKPTLPLLHAMHHGT 248

Query: 190 PQLRAFINSSSDNPAN---VDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDV 246
           P+  A I ++ +       ++ +LE +     ++ T + A + A  A AA+  LP+T   
Sbjct: 249 PEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIAALQVLPDT--- 305

Query: 247 DATNARTALVHI 258
               A   L HI
Sbjct: 306 PWREALIGLAHI 317

Length = 323

>gnl|CDD|173830 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynthesis enzymes, Class 1

 Score =  102 bits (257), Expect = 2e-26
 Identities = 66/256 (25%), Positives = 102/256 (39%), Gaps = 58/256 (22%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVM---GNKLAILAGDLLISRALVALAS 94
           +    E +H ASL+HDD++DD+ TRRG+ +    +   G   AILAGDLL++ A   LA 
Sbjct: 15  LRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEELAR 74

Query: 95  LKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYL 127
               E +                           +E Y++    KTA LV   C   A L
Sbjct: 75  EGSPEALEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGL 134

Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME 187
           SG   E+     + G+ LGLA+QL +D+LD+ G +             G  T P+L+A+E
Sbjct: 135 SGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG---------EGKCTLPVLYALE 185

Query: 188 EFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVD 247
                   +                + KS  ++   E   K A  A   ++ L  +    
Sbjct: 186 YGVPAEDLL---------------LVEKSGSLEEALEELAKLAEEALKELNELILSLPD- 229

Query: 248 ATNARTALVHITQKII 263
                 AL+ +   + 
Sbjct: 230 ---VPRALLALALNLY 242

Superfamily of trans-isoprenyl diphosphate synthases (IPPS) and class I terpene cyclases which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, and diterpenes; and are widely distributed among archaea, bacteria, and eukaryota.The enzymes in this superfamily share the same 'isoprenoid synthase fold' and include several subgroups. The head-to-tail (HT) IPPS catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. Cyclic monoterpenes, diterpenes, and sesquiterpenes, are formed from their respective linear isoprenoid diphosphates by class I terpene cyclases. The head-to-head (HH) IPPS catalyze the successive 1'-1 condensation of 2 farnesyl or 2 geranylgeranyl isoprenoid diphosphates. Cyclization of these 30- and 40-carbon linear forms are catalyzed by class II cyclases. Both the isoprenoid chain elongation reactions and the class I terpene cyclization 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 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, stabilizing reactive carbocation intermediates. Generally, the enzymes in this family exhibit an all-trans reaction pathway, an exception, is the cis-trans terpene cyclase, trichodiene synthase. Mechanistically and structurally distinct, class II terpene cyclases and cis-IPPS are not included in this CD. Length = 243

>gnl|CDD|182567 PRK10581, PRK10581, geranyltranstransferase; Provisional

 Score = 65.9 bits (161), Expect = 1e-12
 Identities = 58/189 (30%), Positives = 82/189 (43%), Gaps = 39/189 (20%)

Query: 39  AEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLK 96
           A   E IH  SLIHDD+  +DD D RRG+ +     G   AILAGD L + A   L+   
Sbjct: 70  AAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAP 129

Query: 97  HTEV--------IMECYM----------------------------QKTYNKTAALVSNS 120
             EV        I E                               +   +KT AL+  +
Sbjct: 130 MPEVSDRDRISMISELASASGIAGMCGGQALDLEAEGKQVPLDALERIHRHKTGALIRAA 189

Query: 121 CKAVAYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 179
            +  A  +G +   A    + Y +++GLA+Q+ DDILD  G +A+LGK    D + G  T
Sbjct: 190 VRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKST 249

Query: 180 APILFAMEE 188
            P L  +E+
Sbjct: 250 YPALLGLEQ 258

Length = 299

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	267
PLN02890	422	geranyl diphosphate synthase	100.0
TIGR02749	322	prenyl_cyano solanesyl diphosphate synthase. Membe	100.0
PLN02857	416	octaprenyl-diphosphate synthase	100.0
CHL00151	323	preA prenyl transferase; Reviewed	100.0
TIGR02748	319	GerC3_HepT heptaprenyl diphosphate synthase compon	100.0
PRK10888	323	octaprenyl diphosphate synthase; Provisional	100.0
COG0142	322	IspA Geranylgeranyl pyrophosphate synthase [Coenzy	100.0
PRK10581	299	geranyltranstransferase; Provisional	100.0
KOG0776	384	consensus Geranylgeranyl pyrophosphate synthase/Po	100.0
PF00348	260	polyprenyl_synt: Polyprenyl synthetase; InterPro:	100.0
cd00685	259	Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthase	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	99.88
PF07307	212	HEPPP_synt_1: Heptaprenyl diphosphate synthase (HE	96.58
PF00494	267	SQS_PSY: Squalene/phytoene synthase; InterPro: IPR	95.49
PLN02632	334	phytoene synthase	95.37
TIGR03464	266	HpnC squalene synthase HpnC. This family of genes	94.77
cd00683	265	Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthase	94.74
TIGR03465	266	HpnD squalene synthase HpnD. The genes of this fam	91.92
TIGR01559	336	squal_synth farnesyl-diphosphate farnesyltransfera	90.73
PRK12884	279	ubiA prenyltransferase; Reviewed	90.69
PRK12882	276	ubiA prenyltransferase; Reviewed	89.11
TIGR01474	281	ubiA_proteo 4-hydroxybenzoate polyprenyl transfera	86.37
PRK09573	279	(S)-2,3-di-O-geranylgeranylglyceryl phosphate synt	85.41
PRK07566	314	bacteriochlorophyll/chlorophyll a synthase; Review	83.36
TIGR02056	306	ChlG chlorophyll synthase, ChlG. This model repres	81.63
PRK12848	282	ubiA 4-hydroxybenzoate octaprenyltransferase; Revi	81.03
PRK12872	285	ubiA prenyltransferase; Reviewed	80.85

>PLN02890 geranyl diphosphate synthase

Probab=100.00  E-value=3e-61  Score=449.20  Aligned_cols=266  Identities=71%  Similarity=1.021  Sum_probs=235.6

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++|+++++|...+...+..-.....++.+++++++|+++|+||+||||||||||++++|||+||+|.+||++.||++|
T Consensus       130 ~LvLL~a~a~g~~~~~~~~~~~~~~~~~~~~~~~~~~AaavEliH~ASLVHDDIiD~s~~RRG~pt~~~~~G~~~AIlaG  209 (422)
T PLN02890        130 TVLLLMATALNVPLPESTEGGVLDIVASELRTRQQNIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKLSVLAG  209 (422)
T ss_pred             HHHHHHHHHcCCCcccccccccchhhccchhhhHHHHHHHHHHHHHHHHHHcccccCCCCcCCCcChhhhcChHHHHHHH
Confidence            47999999998532211000000112345678899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||+++|+..++...+.+++                           +++|++++.+|||+||+.+|++||+++|++++.
T Consensus       210 D~Lla~A~~~l~~~~~~~~~~~~s~a~~~l~~Gq~ld~~~~~~~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~  289 (422)
T PLN02890        210 DFLLSRACVALAALKNTEVVSLLATAVEHLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEV  289 (422)
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHH
Confidence            99999999999887665433                           578999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLG  214 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~  214 (267)
                      .+.+++||+++|+||||+||++||+++++.+||+.++||++||+|+|++++++..+++++++.+...++++++++++++.
T Consensus       290 ~~~l~~fG~~lGlAFQI~DDiLD~~g~~~~~GK~~g~DL~eGk~TlPvl~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~  369 (422)
T PLN02890        290 AVLAFEYGRNLGLAFQLIDDVLDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDRGFDNPANVDIALEYLG  369 (422)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcCChhhhCCCchhhHhcCCccHHHHHHHhcCHHHHHHHhcccCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999998888888999888888899999999999


Q ss_pred             hcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          215 KSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       215 ~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      ++|++++|+.++++|.++|.+.|+.+|+++.++....|+.|..|++++++|+|
T Consensus       370 ~~gaie~a~~la~~~~~~A~~~L~~lp~s~~~~~~~~r~~L~~L~~~vi~R~k  422 (422)
T PLN02890        370 KSRGIQRTRELAREHANLAAAAIESLPETDDEDVLTSRRALIDLTERVITRNK  422 (422)
T ss_pred             HcCHHHHHHHHHHHHHHHHHHHHHhCCCCccccchHHHHHHHHHHHHHHhccC
Confidence            99999999999999999999999999988632222368999999999999987

>TIGR02749 prenyl_cyano solanesyl diphosphate synthase

Probab=100.00  E-value=2.8e-60  Score=432.73  Aligned_cols=246  Identities=44%  Similarity=0.689  Sum_probs=228.7

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|..              ++.++..+.+|+++|++|+||||||||||+|+.|||+||+|.+||+++||++|
T Consensus        50 ~l~ll~~~~~~~~--------------~~~~~~~~~~A~avEliH~asLiHDDiiD~s~~RRG~pt~h~~~G~~~Ail~G  115 (322)
T TIGR02749        50 AIVLLVSRATAEQ--------------QELTPRHRRLAEITEMIHTASLVHDDVIDESDTRRGIETVHSLFGTRVAVLAG  115 (322)
T ss_pred             HHHHHHHHHcCCC--------------ccccHHHHHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHhCcHHHHHHH
Confidence            3688888888742              12457789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||+++|++.+++.++.+++                           .++|++++.+|||+||+.||++|++++|.+++.
T Consensus       116 D~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~  195 (322)
T TIGR02749       116 DFLFAQASWYLANLENLEVVKLISKVITDFAEGEIKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQV  195 (322)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHcccCCCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHH
Confidence            99999999999887654332                           578999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLG  214 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~  214 (267)
                      ++.+++||+++|++|||+||++|++++++.+|||.++||++||+|+|++++++..+.+.+++.+...++++++++++++.
T Consensus       196 ~~~l~~~G~~lG~aFQi~DDild~~~~~~~~GK~~g~Dl~~Gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~  275 (322)
T TIGR02749       196 ANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKPAGSDLMKGNLTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVR  275 (322)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCCChHhhCCChhHHHhCCCchHHHHHHHhcChHHHHHHHhccCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999888888899888888889999999999


Q ss_pred             hcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          215 KSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       215 ~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      ++|+++++++++++|.++|++.|+.+|+++      .++.|..|++++++|++
T Consensus       276 ~~ga~~~a~~~~~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~~  322 (322)
T TIGR02749       276 KSGGIKKARELAKEQAQLALQSLSFLPPSP------PREALKELVHFVLSRLY  322 (322)
T ss_pred             HCCHHHHHHHHHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHHhcCC
Confidence            999999999999999999999999999988      89999999999999974

Members of this family all are from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterized by heterologous expression as a solanesyl diphosphate synthase.

>PLN02857 octaprenyl-diphosphate synthase

Probab=100.00  E-value=6.4e-60  Score=440.44  Aligned_cols=249  Identities=40%  Similarity=0.642  Sum_probs=230.3

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|....           ..+..++++++|+++|+||+||||||||||+|++|||+||+|.+||+.+|||+|
T Consensus       141 ~Lvll~a~a~g~~~g-----------~~~~~~~~~~lAaaiEliH~ASLIHDDI~D~s~~RRG~pt~h~~~G~~~AIlaG  209 (416)
T PLN02857        141 ALVFLVSRATAELAG-----------LKELTTEHRRLAEITEMIHTASLIHDDVLDESDMRRGKETVHQLYGTRVAVLAG  209 (416)
T ss_pred             HHHHHHHHHhccccC-----------CCcchHHHHHHHHHHHHHHHHHHHHCccccCCcccCCCCCccccCCcceeeeHH
Confidence            478899999874110           012457889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||+++|++.++++++++++                           +++|++++++|||+||+.+|++|++++|++++.
T Consensus       210 D~L~a~A~~~la~~~~~~~~~~~s~~~~~l~~Gei~q~~~~~~~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~  289 (416)
T PLN02857        210 DFMFAQSSWYLANLDNLEVIKLISQVIKDFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSV  289 (416)
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhHHHHHhcccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHH
Confidence            99999999999887654432                           578999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLG  214 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~  214 (267)
                      .+.+.+||++||++|||+||++||+++++.+||+.++||++||+|+|++++++..+++++++.+...+++++++++++++
T Consensus       290 ~~~l~~fG~~LGiAFQI~DDiLD~~~~~~~~GK~~g~DL~eGK~TlPli~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~  369 (416)
T PLN02857        290 KEQMYEYGKNLGLAFQVVDDILDFTQSTEQLGKPAGSDLAKGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVN  369 (416)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcCCHHHhCCCcchhhhcCCccHHHHHHHhcChHHHHHHhhccCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999988999999888888899999999999


Q ss_pred             hcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          215 KSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       215 ~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      ++|+++++++++++|.++|++.|+.+|.++      .++.|..+++++++|++
T Consensus       370 ~~Ggie~a~~~a~~~~~~A~~~L~~Lp~~~------~~~~L~~L~~~~~~R~~  416 (416)
T PLN02857        370 EGGGIERAQELAKEKADLAIQNLECLPRGA------FRSSLEDMVDYNLERIY  416 (416)
T ss_pred             HcCHHHHHHHHHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHHhccC
Confidence            999999999999999999999999999988      88999999999999975

>CHL00151 preA prenyl transferase; Reviewed

Probab=100.00  E-value=7.3e-60  Score=430.41  Aligned_cols=245  Identities=40%  Similarity=0.655  Sum_probs=226.3

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|...+              ....++.+|+++|++|+||||||||||+|++|||+||+|.+||++.||++|
T Consensus        51 ~L~ll~~~~~~~~~~--------------~~~~~~~~A~aiEllH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~Ail~G  116 (323)
T CHL00151         51 AIVLLVAKATGGNME--------------IKTSQQRLAEITEIIHTASLVHDDVIDECSIRRGIPTVHKIFGTKIAVLAG  116 (323)
T ss_pred             HHHHHHHHHcCCCcc--------------ccHHHHHHHHHHHHHHHHHHHHcccccCccccCCCccHHHHhCCcchhhhH
Confidence            368888888875221              335678999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||+++|++.++...+++..                           +++|++++.+|||+||++||.+|++++|.+++.
T Consensus       117 D~l~~~a~~~l~~~~~~~~~~~~~~~~~~l~~G~~~~~~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~  196 (323)
T CHL00151        117 DFLFAQSSWYLANLNNLEVVKLISKVITDFAEGEIRQGLVQFDTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKD  196 (323)
T ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHH
Confidence            99999999998877654321                           578999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLG  214 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~  214 (267)
                      .+.+++||+++|++|||+||++|++++++.+|||.|+||++||+|||++++++..+++.+++.+...++++++++++++.
T Consensus       197 ~~~l~~~G~~lG~aFQi~DDilD~~~~~~~~GK~~g~Dl~eGk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~  276 (323)
T CHL00151        197 HNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIGSDLKNGNLTAPVLFALTQNSKLAKLIEREFCETKDISQALQIIK  276 (323)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcccChhhhCCCchhhHhcCchHHHHHHHHhcChHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999888888888877778889999999999


Q ss_pred             hcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhcc
Q 024463          215 KSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRN  266 (267)
Q Consensus       215 ~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~  266 (267)
                      ++|++++|++.+++|.++|++.|+.+|.++      .++.|..+++++++|+
T Consensus       277 ~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~  322 (323)
T CHL00151        277 ETNGIEKAKDLALEHMQAAIQCLKFLPPSS------AKDSLIEIANFIINRL  322 (323)
T ss_pred             HCCcHHHHHHHHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999987      8899999999999986

>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II

Probab=100.00  E-value=4.1e-59  Score=424.84  Aligned_cols=241  Identities=32%  Similarity=0.517  Sum_probs=218.9

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 .++.++++|+++|+||+||||||||+|+|+.|||+||+|.+||+++||++|
T Consensus        49 ~L~ll~~~~~~~-----------------~~~~~~~~A~aiEliH~asLiHDDI~D~s~~RRg~pt~~~~~G~~~Ail~G  111 (319)
T TIGR02748        49 VFVLLAGKFGDY-----------------DLDAIKHVAVALELIHMASLVHDDVIDDADLRRGRPTIKSKWGNRIAMYTG  111 (319)
T ss_pred             HHHHHHHHHcCC-----------------CHHHHHHHHHHHHHHHHHHHHhccccCCCCCCCCCcCHHHHhChHHHHHHH
Confidence            367777777653                 346789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||++++++.++++++++++                           +++|++++.+|||+||++||.+|++++|.+++.
T Consensus       112 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~  191 (319)
T TIGR02748       112 DYLFAKSLETMTEIKDPRAHQILSHTIVEVCRGEIEQIKDKYNFDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAI  191 (319)
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHH
Confidence            99999999999887654322                           678999999999999999999999999999998


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhCh---HHHHHhccCCCChhhHHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP---QLRAFINSSSDNPANVDVILE  211 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~---~~~~~l~~~~~~~~~~~~i~~  211 (267)
                      ++.+++||+++|++|||+||++||+++++.+|||.++||++||+|+|++++++..+   .+..++...  ++++++.+++
T Consensus       192 ~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~l~~~~~~~--~~~~~~~~~~  269 (319)
T TIGR02748       192 VKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLLQGNVTLPVLYAMEDPFLKKRIEQVLEET--TAEEMEPLIE  269 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccCCHHhhCCChhhHHhCCCchHHHHHHhcCcchhHHHHHHHcCC--CHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999998543   344444433  5778999999


Q ss_pred             HHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          212 YLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       212 ~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      ++.++|++++|+.++++|.++|.+.|+.+|.++      .++.|..+++++++|++
T Consensus       270 ~i~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~~  319 (319)
T TIGR02748       270 EVKKSDAIEYAYAVSDRYLKKALELLDGLPDGR------AKKPLQEIAKYIGKRKY  319 (319)
T ss_pred             HHHHcCcHHHHHHHHHHHHHHHHHHHhcCCCCH------HHHHHHHHHHHHHhccC
Confidence            999999999999999999999999999999988      89999999999999975

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

Probab=100.00  E-value=2.3e-58  Score=420.09  Aligned_cols=243  Identities=33%  Similarity=0.526  Sum_probs=217.9

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++|+++++|.                 ..+..+++|+++|++|+||||||||+|+|++|||+||+|.+||+++||++|
T Consensus        50 ~l~ll~~~~~g~-----------------~~~~~~~~A~avEllH~asLiHDDI~D~s~~RRG~pt~~~~~G~~~Ail~G  112 (323)
T PRK10888         50 MIAVLAARAVGY-----------------QGNAHVTIAALIEFIHTATLLHDDVVDESDMRRGKATANAAFGNAASVLVG  112 (323)
T ss_pred             HHHHHHHHHcCC-----------------ChHHHHHHHHHHHHHHHHHHHHcccccCCcccCCCCCHHHHhCccHHHHHH
Confidence            367788888764                 346689999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||++.+++.+++.++.+++                           +++|++++.+|||+||++||.+|++++|.+++.
T Consensus       113 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~d~~~~~~~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~  192 (323)
T PRK10888        113 DFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEGEVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQ  192 (323)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHH
Confidence            99999999999877654322                           578999999999999999999999999999998


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC-hHHHHHhcc---CCCChhhHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-PQLRAFINS---SSDNPANVDVIL  210 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~-~~~~~~l~~---~~~~~~~~~~i~  210 (267)
                      ++.+++||+++|++|||+||++||+++++.+||+.|+||++||+|||++++++.. ++.++.+..   .....++++.++
T Consensus       193 ~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~~gk~Tlp~l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~  272 (323)
T PRK10888        193 EKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKNVGDDLNEGKPTLPLLHAMHHGTPEQAAMIRTAIEQGNGRHLLEPVL  272 (323)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhcccCChHhhCCCchhhhhcCCchHHHHHHHHhCCHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999864 333333322   122356789999


Q ss_pred             HHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          211 EYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       211 ~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      +++.++|+++++++++++|.++|++.|+.+|.++      .++.|..+++++++|++
T Consensus       273 ~~l~~~g~~e~~~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~~  323 (323)
T PRK10888        273 EAMNACGSLEWTRQRAEEEADKAIAALQVLPDTP------WREALIGLAHIAVQRDR  323 (323)
T ss_pred             HHHHHcChHHHHHHHHHHHHHHHHHHHhcCCCCH------HHHHHHHHHHHHHhCcC
Confidence            9999999999999999999999999999999988      89999999999999974

>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]

Probab=100.00  E-value=6.4e-58  Score=417.18  Aligned_cols=246  Identities=38%  Similarity=0.527  Sum_probs=221.0

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++| ++..            ...++++.+|++||++|++|||||||||+|++|||+||+|.+||++.||++|
T Consensus        48 ~l~l~~~~~~~-~~~~------------~~~~~~~~~aaavEliH~~SLiHDDvmD~s~~RRG~pt~~~~~g~~~AIlaG  114 (322)
T COG0142          48 LLVLLAAEALG-IDLE------------TGGNDALDLAAAIELIHTASLIHDDLMDDDDLRRGKPTVHAKFGEATAILAG  114 (322)
T ss_pred             HHHHHHHHHcC-CCcc------------cchhhHHHHHHHHHHHHHHHHHHhhcccCCCccCCCCCchhHhccHHHHHHH
Confidence            37899999998 3321            0167899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCC--hhHH--------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHH
Q 024463           82 DLLISRALVALASLKH--TEVI--------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREE  133 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~--~~~~--------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~  133 (267)
                      |+|++.||+.+++..+  ++..                          +++|++|+++|||+||++++++|+++++++++
T Consensus       115 D~L~~~Af~~l~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~  194 (322)
T COG0142         115 DALLAAAFELLSKLGSEALEAIKALAEAINGLCGGQALDLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEE  194 (322)
T ss_pred             HHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHHHhHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHH
Confidence            9999999999999876  3322                          58899999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChH-HHHHhccCCCChhhHHHHHHH
Q 024463          134 VATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQ-LRAFINSSSDNPANVDVILEY  212 (267)
Q Consensus       134 ~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~-~~~~l~~~~~~~~~~~~i~~~  212 (267)
                      ..+.+..||+++|++|||+||++|++++++.+||++|+|+++||+|||++++++..++ .. .+........++++++++
T Consensus       195 ~~~~l~~~g~~lGlaFQi~DDiLD~~~d~~~lGK~~g~Dl~~gK~T~p~l~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~  273 (322)
T COG0142         195 LLEALEDYGRNLGLAFQIQDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKANEDQK-LLRILLEGGGEVEEALEL  273 (322)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHhhcCCCChHHhCCCcchHHHcCCchHHHHHHHHcCchhhH-HHHHHhhcchHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999997543 22 333322222299999999


Q ss_pred             HHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          213 LGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       213 i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      +.++|+++++...+..|.++|++.|+.+|.++      .++.|..+++++++|++
T Consensus       274 ~~~~g~~~~~~~~a~~~~~~a~~~L~~l~~~~------~~~~L~~la~~i~~R~~  322 (322)
T COG0142         274 LRKSGAIEYAKNLAKTYVEKAKEALEKLPDSE------AKEALLELADFIIKRKY  322 (322)
T ss_pred             HHHcchHHHHHHHHHHHHHHHHHHHHhCCCch------HHHHHHHHHHHHHhccC
Confidence            99999999999999999999999999999667      89999999999999974

>PRK10581 geranyltranstransferase; Provisional

Probab=100.00  E-value=3e-53  Score=382.57  Aligned_cols=211  Identities=30%  Similarity=0.421  Sum_probs=188.5

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.+.++|+++|++|+||||||||  ||+|++|||+||+|.+||++.||+
T Consensus        50 ~L~l~~~~~~g~-----------------~~~~~~~~A~avEliH~aSLiHDDip~~D~s~~RRG~pt~h~~~G~~~AIl  112 (299)
T PRK10581         50 FLVYATGQMFGV-----------------STNTLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAIL  112 (299)
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHcCcccccCCCccCCCcChHHHhCcchHHH
Confidence            366777777763                 3467889999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCh--------hHH----------------------------HHHHHHHHhchHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLKHT--------EVI----------------------------MECYMQKTYNKTAALVSNSCKA  123 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~~~--------~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~  123 (267)
                      +||||++.|++.++....+        +.+                            .++|++|+.+|||+||.+||.+
T Consensus       113 ~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GQ~ld~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~  192 (299)
T PRK10581        113 AGDALQTLAFSILSDAPMPEVSDRDRISMISELASASGIAGMCGGQALDLEAEGKQVPLDALERIHRHKTGALIRAAVRL  192 (299)
T ss_pred             HHHHHHHHHHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHhhHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999999988764321        000                            5689999999999999999999


Q ss_pred             HHHHhCCCH-HHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCC
Q 024463          124 VAYLSGQRE-EVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDN  202 (267)
Q Consensus       124 ga~la~~~~-~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~  202 (267)
                      |++++|.++ +.++.+.+||+++|++|||+||++|++++++.+||+.++|+++||+|||++++                 
T Consensus       193 gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~-----------------  255 (299)
T PRK10581        193 GALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLG-----------------  255 (299)
T ss_pred             HHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHHCCCcchhhhcCCCCHHHHHH-----------------
Confidence            999999864 57889999999999999999999999999999999999999999999999994                 


Q ss_pred             hhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          203 PANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       203 ~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                      ++++++.+++|.++|++.|+.+|.++.     .++.|..+++++++|+|
T Consensus       256 ----------------~e~a~~~a~~~~~~A~~~l~~l~~~~~-----~~~~L~~l~~~~~~R~~  299 (299)
T PRK10581        256 ----------------LEQARKKARDLIDDARQSLDQLAAQSL-----DTSALEALANYIIQRDK  299 (299)
T ss_pred             ----------------HHHHHHHHHHHHHHHHHHHHhCcCCch-----hHHHHHHHHHHHHhccC
Confidence                            467889999999999999999998761     37899999999999986

>KOG0776 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]

Probab=100.00  E-value=5.6e-53  Score=382.79  Aligned_cols=236  Identities=45%  Similarity=0.631  Sum_probs=224.7

Q ss_pred             Cccccchhh-hhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHHHHHHHHHHHHHHHHcCCC
Q 024463           21 NVLGNTLIL-DLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH   97 (267)
Q Consensus        21 ~~l~~~~~~-~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~~l~~~~~   97 (267)
                      -.++|+.++ |+...+.++|+++||||++|||||||  ||++++|||+||.|..||+++||++||||+++|++.++.+.|
T Consensus       115 ~~~~~e~~~~g~~~~q~~~A~i~EMIHtaSLIHDDv~~mD~~d~RRGkpt~h~vfG~k~AvLaGD~LLa~A~~~la~l~n  194 (384)
T KOG0776|consen  115 CLAACELVGSGDESSQRSLAEIVEMIHTASLIHDDVPCMDDADLRRGKPTNHKVFGNKMAVLAGDALLALASEHLASLEN  194 (384)
T ss_pred             hhhHHHhccccccHHHHHHHHHHHHHHHHHHHhcCcccccccccccCCCCcchhhcchhhhhhhHHHHHHHHHHHHhccC
Confidence            456788888 89999999999999999999999999  999999999999999999999999999999999999999987


Q ss_pred             hhHH-------------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Q 024463           98 TEVI-------------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLG  146 (267)
Q Consensus        98 ~~~~-------------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG  146 (267)
                      +.++                               +++|+.+..+|||+|++.+|++|++++|.+++.++.+++||+++|
T Consensus       195 ~~v~elm~~aI~dLv~ge~~~~~~~~~~~d~~~~~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lG  274 (384)
T KOG0776|consen  195 PVVVELMASAIADLVRGEFTQGLVAGEGLDLDDVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLG  274 (384)
T ss_pred             chHHHHHHHHHHHHHHhhhhcccccccccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence            6433                               678999999999999999999999999999999999999999999


Q ss_pred             HHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHH
Q 024463          147 LAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELA  226 (267)
Q Consensus       147 ~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~  226 (267)
                      ++||+.||++|++...+.+||+.+.|+..|+.|+|+++++++.|++.+.+.+.+.++.+.++..+.+.   ++..|..++
T Consensus       275 L~fQvvDDildftkss~elGK~ag~Dl~~g~lT~P~Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~---~v~~a~~la  351 (384)
T KOG0776|consen  275 LAFQVVDDILDFTKSSEELGKTAGKDLKAGKLTAPVLFALEKSPELREKLEREFSEPLDGFDADKAVP---GVALAKYLA  351 (384)
T ss_pred             HHHHHhhcccCcccchhhcCcchhhhhhhccccccchhhhhhChHHHHHHHHhccccchhhHHHHHHH---HHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999988888888877777   899999999


Q ss_pred             HHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhc
Q 024463          227 LKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITR  265 (267)
Q Consensus       227 ~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R  265 (267)
                      ++|.++|.+.|+.+|.++      +|+.|.+|+..++.|
T Consensus       352 ~~~~~~Al~~l~~~p~s~------ar~aL~~l~~~~~~r  384 (384)
T KOG0776|consen  352 RRHNNKALEALQSLPRSE------ARSALENLVLAVLTR  384 (384)
T ss_pred             HHHHHHHHHHHhCCCCch------HHHHHHHHHHHHhcC
Confidence            999999999999999999      999999999999876

>PF00348 polyprenyl_synt: Polyprenyl synthetase; InterPro: IPR000092 A variety of isoprenoid compounds are synthesized by various organisms

Probab=100.00  E-value=5.8e-51  Score=361.81  Aligned_cols=207  Identities=36%  Similarity=0.554  Sum_probs=183.2

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 .++.+..+|+++|++|++|||||||+|+|++|||+||+|.+||++.|||+|
T Consensus        19 ~l~~~~~~~~~~-----------------~~~~~~~~a~avEliH~asLIhDDI~D~s~~RRG~pt~~~~~G~~~Ail~g   81 (260)
T PF00348_consen   19 LLVLLAAEALGG-----------------DPEKAIPLAAAVELIHAASLIHDDIIDNSDLRRGKPTVHKKFGNAIAILAG   81 (260)
T ss_dssp             HHHHHHHHHTTC-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEETTEECHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHhhhhhcccccCCCCccccccccccchhhhc
Confidence            367888888863                 789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCC--hh--HH-----------------------------HHHHHHHHhchHHHHHHHHHHHHHHHh
Q 024463           82 DLLISRALVALASLKH--TE--VI-----------------------------MECYMQKTYNKTAALVSNSCKAVAYLS  128 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~--~~--~~-----------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la  128 (267)
                      |+|++.|++.++...+  +.  ..                             +++|++|+++|||+||++||++|++++
T Consensus        82 d~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~la  161 (260)
T PF00348_consen   82 DYLLALAFELLARLGHFDPSERVLRILELFIEALIEGEIGQALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILA  161 (260)
T ss_dssp             HHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhcccceeehhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhc
Confidence            9999999999988761  11  00                             589999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhCh-HHHHHhccCCCChhhHH
Q 024463          129 GQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP-QLRAFINSSSDNPANVD  207 (267)
Q Consensus       129 ~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~-~~~~~l~~~~~~~~~~~  207 (267)
                      |.+++..+.+++||+++|++|||+||++|++++++..||+.++||++||+|||+++++++.+ +.++++... .+..+.+
T Consensus       162 g~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~~~~~gK~~~~Dl~~gk~Tlp~~~al~~~~~~~~~~l~~~-~~~~~~~  240 (260)
T PF00348_consen  162 GADEEQIEALREFGRHLGIAFQIRDDLLDLFGDEEELGKPVGSDLKEGKPTLPVLHALERAREELRELLQEA-YGKEDSE  240 (260)
T ss_dssp             TSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHSSTTTHHHHTTTSSHHHHHHHHHHHHHHHHHHHHH-HHHSHHH
T ss_pred             cchhHHHHHHHHHHHHHHHHHhhhhhhhhccCcHHHhcccchhHHhcCcccHHHHHHHHhCHHHHHHHHHHH-HcccchH
Confidence            99999999999999999999999999999999999999999999999999999999999864 455555543 3344667


Q ss_pred             HHHHHHHhcchHHHHHHHH
Q 024463          208 VILEYLGKSHGIQRTTELA  226 (267)
Q Consensus       208 ~i~~~i~~~g~i~~a~~~~  226 (267)
                      .+.+.+..++.++++++++
T Consensus       241 ~~~~~~~~~~~~~~~~~~~  259 (260)
T PF00348_consen  241 EALEIIAQTGALEYTRKFM  259 (260)
T ss_dssp             HHHHHHHHHHHHTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhc
Confidence            7788888888888887765

For example in eukaryotes the isoprenoid biosynthetic pathway is responsible for the synthesis of a variety of end products including cholesterol, dolichol, ubiquinone or coenzyme Q. In bacteria this pathway leads to the synthesis of isopentenyl tRNA, isoprenoid quinones, and sugar carrier lipids. Among the enzymes that participate in that pathway, are a number of polyprenyl synthetase enzymes which catalyze a 1'4-condensation between 5 carbon isoprene units. It has been shown [, , , , ] that all the above enzymes share some regions of sequence similarity. Two of these regions are rich in aspartic-acid residues and could be involved in the catalytic mechanism and/or the binding of the substrates.; GO: 0008299 isoprenoid biosynthetic process; PDB: 3AQC_B 3AQB_D 3Q1O_C 3LLW_B 3EFQ_A 3EGT_A 3DYG_A 2P1C_A 2OGD_A 2EWG_B ....

>cd00685 Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthases, head-to-tail

Probab=100.00  E-value=1.1e-49  Score=353.50  Aligned_cols=205  Identities=42%  Similarity=0.582  Sum_probs=189.1

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhH-HHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLR-RRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILA   80 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~   80 (267)
                      .++++.++++|.                 .+ +.+..+|+++|++|+||||||||+|+|+.|||+||+|.+||+..|||+
T Consensus        24 ~l~~~~~~~~g~-----------------~~~~~~~~la~aiEllh~asLIhDDI~D~s~~RRG~p~~~~~~G~~~Ail~   86 (259)
T cd00685          24 LLVLLAARALGG-----------------PELEAALRLAAAIELLHTASLVHDDVMDNSDLRRGKPTVHKVFGNATAILA   86 (259)
T ss_pred             HHHHHHHHHhCC-----------------CchHHHHHHHHHHHHHHHHHHHHhhhccCCcccCCCCcHHHHhCcccHHHH
Confidence            367788888874                 33 789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCC---hhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCC
Q 024463           81 GDLLISRALVALASLKH---TEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ  130 (267)
Q Consensus        81 Gd~Ll~~a~~~l~~~~~---~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~  130 (267)
                      ||+|++.+++.+++..+   .+++                           +++|++|+.+|||+||..+|.+|+++++.
T Consensus        87 gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~  166 (259)
T cd00685          87 GDYLLARAFELLARLGNPYYPRALELFSEAILELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGA  166 (259)
T ss_pred             HHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCC
Confidence            99999999999988765   3322                           57899999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHH
Q 024463          131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVIL  210 (267)
Q Consensus       131 ~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~  210 (267)
                      +++.++.+++||+++|++|||+||++|++++++.+||+.++||++||+|||+++++                        
T Consensus       167 ~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~~~~~l------------------------  222 (259)
T cd00685         167 DEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLAL------------------------  222 (259)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHHHHHHH------------------------
Confidence            99999999999999999999999999999999999999999999999999999976                        


Q ss_pred             HHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhc
Q 024463          211 EYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITR  265 (267)
Q Consensus       211 ~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R  265 (267)
                                  ++.++.|.++|+..|+.+|.+.      .++.|..+++++++|
T Consensus       223 ------------~~~~~~~~~~a~~~l~~~~~~~------~~~~l~~~~~~~~~r  259 (259)
T cd00685         223 ------------RELAREYEEKALEALKALPESP------AREALRALADFILER  259 (259)
T ss_pred             ------------HHHHHHHHHHHHHHHHcCCCcH------HHHHHHHHHHHHHcC
Confidence                        6778999999999999999887      788999999999887

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

>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases

Probab=100.00  E-value=1.9e-39  Score=283.07  Aligned_cols=204  Identities=42%  Similarity=0.587  Sum_probs=177.8

Q ss_pred             HHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhc-cchhHHHHHH
Q 024463            3 VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSV-MGNKLAILAG   81 (267)
Q Consensus         3 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~-~G~~~Ai~~G   81 (267)
                      +++++++++|.                 ..+.+..+++++|++|++++|||||+|++..|||+||+|.+ ||+..|++.|
T Consensus         5 ~~~~~~~~~~~-----------------~~~~~~~~a~ave~l~~~~li~DDI~D~~~~rrg~~~~~~~~~g~~~ai~~g   67 (236)
T cd00867           5 LVLLLARALGG-----------------DLEAALRLAAAVELLHAASLVHDDIVDDSDLRRGKPTAHLRRFGNALAILAG   67 (236)
T ss_pred             HHHHHHHHcCC-----------------CHHHHHHHHHHHHHHHHHHHHHcccccCCccCCCCccHhHHhhCHhHHHHHH
Confidence            57778888875                 46889999999999999999999999999999999999999 9999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |++++.++..+.+....+..                           +++|++++++|||++|+.+|..++.+++.+++.
T Consensus        68 d~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~  147 (236)
T cd00867          68 DYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQ  147 (236)
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHH
Confidence            99999999988875432211                           678999999999999999999999999999888


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLG  214 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~  214 (267)
                      .+.+.+||+++|++|||.||++|++++.+.+|| .++||++||+|||++++                             
T Consensus       148 ~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk-~~~D~~~gr~tlp~~~~-----------------------------  197 (236)
T cd00867         148 AEALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPVILA-----------------------------  197 (236)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccccCChHHHCc-cHHHHHcCCchHHHHHH-----------------------------
Confidence            899999999999999999999999999999999 99999999999999995                             


Q ss_pred             hcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhc
Q 024463          215 KSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITR  265 (267)
Q Consensus       215 ~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R  265 (267)
                              .+.+.++.+++.+.+..+++...    ..+..+..++..+++|
T Consensus       198 --------~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~r  236 (236)
T cd00867         198 --------RERAAEYAEEAYAALEALPPSLP----RARRALIALADFLYRR  236 (236)
T ss_pred             --------HHHHHHHHHHHHHHHHhCCCCch----HHHHHHHHHHHHHHhC
Confidence                    44566666777777776655431    1567888888888765

Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates

>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]

Probab=100.00  E-value=2e-36  Score=255.62  Aligned_cols=209  Identities=24%  Similarity=0.315  Sum_probs=189.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHHHHHHHHHHHHHHcCCChhHH----------
Q 024463           32 RRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI----------  101 (267)
Q Consensus        32 ~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~~l~~~~~~~~~----------  101 (267)
                      .++...+..++|++|++||..|||.|+|..|||.|+.|..||++..||+++|++++|++.+..+..|+.+          
T Consensus        54 ~dkLaii~~ivemLHNsSLLIDDIEDNs~LRRG~pvaHsIyGvpStINtANY~yFlalekV~qLdhP~a~kifteqLleL  133 (322)
T KOG0777|consen   54 KDKLAIISQIVEMLHNSSLLIDDIEDNSPLRRGQPVAHSIYGVPSTINTANYMYFLALEKVSQLDHPNAIKIFTEQLLEL  133 (322)
T ss_pred             HHHHHHHHHHHHHHhccceeeccccccchhhcCCcchhhhccCcchhhhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            3567788999999999999999999999999999999999999999999999999999999998877644          


Q ss_pred             ------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCcc
Q 024463          102 ------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSA  163 (267)
Q Consensus       102 ------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~  163 (267)
                                        +++|..|+..|||.||+++.+++..++...++    +..+-.-+|+.|||+|||+++...+.
T Consensus       134 HrGQGldIYWRD~~tcPtee~Yk~Mv~~KTGGLF~La~rLMqlfS~~ked----l~pl~n~LGl~fQIRDDY~NL~~key  209 (322)
T KOG0777|consen  134 HRGQGLDIYWRDFLTCPTEEMYKNMVMNKTGGLFRLALRLMQLFSHHKED----LVPLINLLGLIFQIRDDYLNLKDKEY  209 (322)
T ss_pred             hcCCCcceeeeccCcCCCHHHHHHHHHHhcccHHHHHHHHHHHHHhcchh----HHHHHHHHhHhhhhhhhhccchhhhh
Confidence                              78999999999999999999999999976555    45666889999999999999988877


Q ss_pred             ccCCCcccccccCcccHHHHHHhhhCh---HHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcC
Q 024463          164 SLGKASLTDLRNGIITAPILFAMEEFP---QLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL  240 (267)
Q Consensus       164 ~~GK~~~~Dl~~gk~Tlp~l~al~~~~---~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~l  240 (267)
                      .-.|.+++||.|||.++|+++|+...+   +...++.+...+-+-...++.++++.|+++|++....+...+|+..++..
T Consensus       210 senKsFaEDlTEGKfsFP~iHA~~t~~q~~Qvl~ILrqRT~didiKkyci~~LEd~gSf~YTrn~l~~L~a~a~~~i~~~  289 (322)
T KOG0777|consen  210 SENKSFAEDLTEGKFSFPIIHALKTKGQTEQVLRILRQRTSDIDIKKYCIQILEDTGSFAYTRNFLNQLVAEARSMIKND  289 (322)
T ss_pred             hcccchhhhhccCccCCcchhhhhcCCchHHHHHHHHHhhccchHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHhc
Confidence            778999999999999999999997643   56778888888888888999999999999999999999999999999998


Q ss_pred             CCCC
Q 024463          241 PETH  244 (267)
Q Consensus       241 p~~~  244 (267)
                      ..++
T Consensus       290 g~Np  293 (322)
T KOG0777|consen  290 GENP  293 (322)
T ss_pred             CCCc
Confidence            8877

>KOG0711 consensus Polyprenyl synthetase [Coenzyme transport and metabolism]

Probab=100.00  E-value=2e-35  Score=259.89  Aligned_cols=238  Identities=20%  Similarity=0.121  Sum_probs=204.4

Q ss_pred             cchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccch-hHHHHHHHHHHHHHHHHHHcC----CC-h
Q 024463           25 NTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGN-KLAILAGDLLISRALVALASL----KH-T   98 (267)
Q Consensus        25 ~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~-~~Ai~~Gd~Ll~~a~~~l~~~----~~-~   98 (267)
                      ++........+..++|+||++++++||.|||||+|.+|||+||||++-|+ -.|||.+-+|-+....+|.+.    .. .
T Consensus        70 ~~l~~~~~~~a~~lGw~vElLQaffLiaDDIMDnS~tRRGqpCWy~~~gVG~~AINDA~lLea~Iy~lLkk~fr~~~~y~  149 (347)
T KOG0711|consen   70 RKLDEEELQLALILGWCVELLQAFFLVADDIMDNSKTRRGQPCWYQKPGVGLDAINDAFLLEAAIYKLLKKHFRNIYCYV  149 (347)
T ss_pred             cCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccCCCcceeecCCcchhhhhHHHHHHHHHHHHHHHhccCCccHH
Confidence            45567788999999999999999999999999999999999999999999 589998877666555555421    11 0


Q ss_pred             -------h----------------------HHHHHHHHHHhchHHHH-HHHHHHHHHHHhCC-CHHHHHHHHHHHHHHHH
Q 024463           99 -------E----------------------VIMECYMQKTYNKTAAL-VSNSCKAVAYLSGQ-REEVATLAFEYGKNLGL  147 (267)
Q Consensus        99 -------~----------------------~~~~~y~~~~~~KTa~l-~~~~~~~ga~la~~-~~~~~~~l~~~g~~lG~  147 (267)
                             +                      ..++.|..++.+|||.| |.+|..+|..++|. +.+.......+...+|.
T Consensus       150 ~l~elf~ev~f~T~lGdllt~~~~~~~ls~fsl~~y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~  229 (347)
T KOG0711|consen  150 DLVELFHEVTFQTELGDLLTTPEGNKDLSKFSLEKYVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGE  229 (347)
T ss_pred             HHHHHHHHHHHHHhhhccccCcccchhHhhhhHHHHHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHH
Confidence                   0                      11788999999999999 99999999999984 44566678899999999


Q ss_pred             HhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhh-ChHHHHHhccCCC--ChhhHHHHHHHHHhcchHHHHHH
Q 024463          148 AYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE-FPQLRAFINSSSD--NPANVDVILEYLGKSHGIQRTTE  224 (267)
Q Consensus       148 afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~-~~~~~~~l~~~~~--~~~~~~~i~~~i~~~g~i~~a~~  224 (267)
                      .||++|||+|++||++.+|| .|+||+++||||.+.+|++. .+++.+++...+.  +++.++.+..+..+.+......+
T Consensus       230 ~FQvQDDYLd~fgDp~vtgk-iGtDIqDnKCsWlv~~al~~~~~eq~~~l~~~yg~~~~~~v~~vk~ly~el~l~~~f~~  308 (347)
T KOG0711|consen  230 YFQVQDDYLDCFGDPEVTGK-IGTDIQDNKCSWLVVKALQRASAEQYKILFENYGKPEAEAVAKVKALYKELHLPALFIE  308 (347)
T ss_pred             HHhcchHHHHhcCChhhcCC-CCCccccCceeeehHHHHhhcCHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHH
Confidence            99999999999999999999 58999999999999999998 5788888877664  56788999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          225 LALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       225 ~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      .-.....+..+.|+.++.+..+    .+..+..+++.+.+|+|
T Consensus       309 yE~~~~~~Ik~~I~~~~~~~~~----~~~v~t~fl~kiykr~k  347 (347)
T KOG0711|consen  309 YEEGSYKKIKKLISQVDEDTGV----KVKVGTSFLNKIYKRSK  347 (347)
T ss_pred             hhhhHHHHHHHHHHHccCCCcc----hhhhHHHHHHHHHhhcC
Confidence            9999999999999999876632    67788889999999975

>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1

Probab=99.88  E-value=1.1e-20  Score=161.53  Aligned_cols=199  Identities=34%  Similarity=0.451  Sum_probs=162.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhc---cchhHHHHHHHHHHHHHHHHHHcCCChhHH-----------
Q 024463           36 QCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSV---MGNKLAILAGDLLISRALVALASLKHTEVI-----------  101 (267)
Q Consensus        36 ~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~---~G~~~Ai~~Gd~Ll~~a~~~l~~~~~~~~~-----------  101 (267)
                      ..++.++|.+|+++++||||+|++..|+++|++|..   +|...+++.|++++..++..+.....+...           
T Consensus        13 ~~~~~~~~~~~~~~~~~DDi~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (243)
T cd00385          13 SRLRAAVEKLHAASLVHDDIVDDSGTRRGLPTAHLAVAIDGLPEAILAGDLLLADAFEELAREGSPEALEILAEALLDLL   92 (243)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccCCCCCCCchhhhhhHHhcCchHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence            588999999999999999999999999999999998   999999999999999999888765432111           


Q ss_pred             ----------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCcccc
Q 024463          102 ----------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASL  165 (267)
Q Consensus       102 ----------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~  165 (267)
                                      +++|+++++.|||.++...+..++...+.+......+..++..+|.+||+.||+.|+..+....
T Consensus        93 ~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~  172 (243)
T cd00385          93 EGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG  172 (243)
T ss_pred             HHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHh
Confidence                            5889999999999999999999998887777777889999999999999999999998776431


Q ss_pred             CCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 024463          166 GKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHD  245 (267)
Q Consensus       166 GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~  245 (267)
                               +|+.|+|.+++.+.......               ...+..++.++.+...+..+.+++.+.+..+.....
T Consensus       173 ---------~~~~~l~~~~~~~~~~~~~~---------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  228 (243)
T cd00385         173 ---------EGKCTLPVLYALEYGVPAED---------------LLLVEKSGSLEEALEELAKLAEEALKELNELILSLP  228 (243)
T ss_pred             ---------CCchHHHHHHHHHhCChhhH---------------HHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcH
Confidence                     58999999998876422111               116778889999999999999999999988776541


Q ss_pred             ccchHHHHHHHHHHHHH
Q 024463          246 VDATNARTALVHITQKI  262 (267)
Q Consensus       246 ~~~~~~~~~L~~l~~~~  262 (267)
                          .....+...+..+
T Consensus       229 ----~~~~~~~~~~~~~  241 (243)
T cd00385         229 ----DVPRALLALALNL  241 (243)
T ss_pred             ----HHHHHHHHHHHHH
Confidence                1344555554443

Superfamily of trans-isoprenyl diphosphate synthases (IPPS) and class I terpene cyclases which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, and diterpenes; and are widely distributed among archaea, bacteria, and eukaryota.The enzymes in this superfamily share the same 'isoprenoid synthase fold' and include several subgroups. The head-to-tail (HT) IPPS catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. Cyclic monoter

>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

Probab=96.58  E-value=0.053  Score=46.72  Aligned_cols=81  Identities=22%  Similarity=0.178  Sum_probs=58.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHHHHHHHHHHHHHHcCCChhHH---HHHHHH
Q 024463           31 LRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI---MECYMQ  107 (267)
Q Consensus        31 ~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~~l~~~~~~~~~---~~~y~~  107 (267)
                      .++.....+.++-++|.|...||.|-. +..+++...-.+    ...|++|||.=+.-+.+|+..++...+   -+..-+
T Consensus        31 ~~~~~~~~~~a~~LVq~aLDtHd~V~~-~~~~~~~~~k~R----QLtVLAGDy~S~~yY~lLA~~~~i~li~~ls~aI~e  105 (212)
T PF07307_consen   31 SEEEAERYALATMLVQIALDTHDEVDN-AGDESEESSKER----QLTVLAGDYYSGLYYQLLAESGDISLIRALSEAIKE  105 (212)
T ss_pred             CHHHHHHHHHHHHHHHHHHHhhhhhcc-ccccccHHHHhh----hhhhhhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            456778888899999999999999977 333322221111    478999999999999999999987655   344455


Q ss_pred             HHhchHHHH
Q 024463          108 KTYNKTAAL  116 (267)
Q Consensus       108 ~~~~KTa~l  116 (267)
                      +...|+..+
T Consensus       106 iNE~K~~ly  114 (212)
T PF07307_consen  106 INELKMSLY  114 (212)
T ss_pred             HHHHHHHHH
Confidence            556666655

5.1.30 from EC) (approximately 230 residues long). The enzyme consists of two subunits, both of which are required for catalysis of heptaprenyl diphosphate synthesis, the precursor for the side chain of the isoprenoid quinone menaquinone-7 (MQ-7) [, ].

>PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2

Probab=95.49  E-value=0.26  Score=43.53  Aligned_cols=117  Identities=18%  Similarity=0.139  Sum_probs=69.8

Q ss_pred             HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccc-cccCcccH
Q 024463          102 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTD-LRNGIITA  180 (267)
Q Consensus       102 ~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~D-l~~gk~Tl  180 (267)
                      ++++..-+++-+|++..+.+.+...-  .+.   .....++.++|.++|+.|=+.|+           +.| +..|++-+
T Consensus       112 ~~~L~~Y~~~vag~vg~l~~~~~~~~--~~~---~~~~~~a~~lG~alql~nilRd~-----------~~D~~~~gR~yl  175 (267)
T PF00494_consen  112 FADLERYCYYVAGSVGLLLLQLLGAH--DPD---EAARDAARALGRALQLTNILRDI-----------PEDALRRGRIYL  175 (267)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHHSS--TSH---HHHHHHHHHHHHHHHHHHHHHTH-----------HHH-HHTT---S
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccc--cch---hhHHHHHHHHHHHHHHHHHHHHh-----------HHHHHhcccccC
Confidence            56666667777777766665554331  222   34678889999999999888887           478 78999999


Q ss_pred             HHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 024463          181 PILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH  244 (267)
Q Consensus       181 p~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~  244 (267)
                      |.=..-+..=....++.....+ +.+..         .+......++.+.+++...+..+|+..
T Consensus       176 P~d~l~~~gv~~~dl~~~~~~~-~~~~~---------~~~~~~~~A~~~l~~a~~~~~~l~~~~  229 (267)
T PF00494_consen  176 PLDDLRRFGVTPEDLLAGRPRS-ERLRA---------LIRELAARARAHLDEARAGLSALPPPR  229 (267)
T ss_dssp             -HHHHHHTTSSHHHHHHHG-GG-HHHHH---------HHHHHHHHHHHHHHHHHHGGGGS--TT
T ss_pred             CchhHHHcCCCHHHHHhcccCC-HHHHH---------HHHHHHHHHHHHHHHHHHHHHHcCCHh
Confidence            8776543211111222111111 11222         244666778999999999999995554

5.1.21 from EC (farnesyl-diphosphate farnesyltransferase) (SQS) and Phytoene synthase 2.5.1.32 from EC (PSY) share a number of functional similarities. These similarities are also reflected at the level of their primary structure [, , ]. In particular three well conserved regions are shared by SQS and PSY; they could be involved in substrate binding and/or the catalytic mechanism. SQS catalyzes the conversion of two molecules of farnesyl diphosphate (FPP) into squalene. It is the first committed step in the cholesterol biosynthetic pathway. The reaction carried out by SQS is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of FPP to form presqualene diphosphate; this intermediate is then rearranged in a NADP-dependent reduction, to form squalene: 2 FPP -> presqualene diphosphate + NADP -> squalene SQS is found in eukaryotes. In yeast it is encoded by the ERG9 gene, in mammals by the FDFT1 gene. SQS seems to be membrane-bound. PSY catalyzes the conversion of two molecules of geranylgeranyl diphosphate (GGPP) into phytoene. It is the second step in the biosynthesis of carotenoids from isopentenyl diphosphate. The reaction carried out by PSY is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of GGPP to form prephytoene diphosphate; this intermediate is then rearranged to form phytoene. 2 GGPP -> prephytoene diphosphate -> phytoene PSY is found in all organisms that synthesize carotenoids: plants and photosynthetic bacteria as well as some non- photosynthetic bacteria and fungi. In bacteria PSY is encoded by the gene crtB. In plants PSY is localized in the chloroplast.; GO: 0016740 transferase activity, 0009058 biosynthetic process; PDB: 3NRI_A 3NPR_A 2ZCR_A 2ZCP_B 4F6V_A 4EA0_A 3ACW_A 4F6X_A 3VJE_B 3ACX_A ....

>PLN02632 phytoene synthase

Probab=95.37  E-value=0.74  Score=42.48  Aligned_cols=118  Identities=13%  Similarity=0.015  Sum_probs=70.0

Q ss_pred             HHHHHHHHhchHHHHHHHHHHHHHHHhCCC--HHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCccc
Q 024463          102 MECYMQKTYNKTAALVSNSCKAVAYLSGQR--EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT  179 (267)
Q Consensus       102 ~~~y~~~~~~KTa~l~~~~~~~ga~la~~~--~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~T  179 (267)
                      ++++..-+++-.|.+..+++.+.   +..+  ....+.+...+.++|+|+|+.|=+.|+           +.|+..|++-
T Consensus       161 ~~eL~~Ycy~vAgtVG~l~l~vl---g~~~~~~~~~~~~~~~A~~lG~AlQltNILRDv-----------~eD~~~GRvY  226 (334)
T PLN02632        161 FDELYLYCYYVAGTVGLMSVPVM---GIAPESKASTESVYNAALALGIANQLTNILRDV-----------GEDARRGRVY  226 (334)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHh---CCCCccccchHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHhCCcee
Confidence            45555556665566555555442   2222  122244678899999999999988887           4778889999


Q ss_pred             HHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 024463          180 APILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH  244 (267)
Q Consensus       180 lp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~  244 (267)
                      +|.=..-+..=....++... .++ ....         .+.+-...++.|+++|...+..+|...
T Consensus       227 LP~e~L~~~Gv~~edl~~~~-~~~-~~~~---------l~~~~~~~Ar~~~~~a~~~l~~lp~~~  280 (334)
T PLN02632        227 LPQDELAQFGLTDEDIFAGK-VTD-KWRA---------FMKFQIKRARMYFAEAEEGVSELDPAS  280 (334)
T ss_pred             CCHHHHHHcCCCHHHHhcCC-CCH-HHHH---------HHHHHHHHHHHHHHHHHHhHhhCCHHh
Confidence            88655333211112222221 111 1111         123334668888899999898888654

>TIGR03464 HpnC squalene synthase HpnC

Probab=94.77  E-value=1.4  Score=39.19  Aligned_cols=114  Identities=10%  Similarity=-0.055  Sum_probs=67.9

Q ss_pred             HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHH
Q 024463          102 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP  181 (267)
Q Consensus       102 ~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp  181 (267)
                      ++++..-+++-.|++..+++.+   ++..+++    ...++.++|.|+|+.|=+.|+           +.|...|++.+|
T Consensus       107 ~~eL~~Y~~~vAg~vg~l~~~i---~g~~~~~----~~~~A~~lG~AlQltniLRDl-----------~eD~~~gR~YLP  168 (266)
T TIGR03464       107 WAELLDYCRYSANPVGRLVLDL---YGASDPE----NVALSDAICTALQLINFWQDV-----------GVDYRKGRVYLP  168 (266)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHH---cCCCChh----HHHHHHHHHHHHHHHHHHHhh-----------HHHHhcCCccCC
Confidence            4555555555555555555433   2223332    246789999999999888886           467778999998


Q ss_pred             HHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 024463          182 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH  244 (267)
Q Consensus       182 ~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~  244 (267)
                      .=..-+..=...+++.. ..+ ..+..         .+......++.++.++...+..+|...
T Consensus       169 ~~~l~~~Gv~~edl~~~-~~~-~~~~~---------~~~~~~~~A~~~~~~a~~~~~~lp~~~  220 (266)
T TIGR03464       169 RDDLARFGVSEEDLAAG-RAT-PALRE---------LMAFEVSRTRALLDRGAPLAARVDGRL  220 (266)
T ss_pred             HHHHHHcCCCHHHHhcC-CCC-HHHHH---------HHHHHHHHHHHHHHHHHHhHHhCCHhh
Confidence            65433221112222222 111 12222         244555668899999999999998553

This family of genes are members of a superfamily (pfam00494) of phytoene and squalene synthases which catalyze the head-t0-head condensation of polyisoprene pyrophosphates. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnD gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.

>cd00683 Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthases, head-to-head

Probab=94.74  E-value=1.6  Score=38.63  Aligned_cols=115  Identities=20%  Similarity=0.188  Sum_probs=69.9

Q ss_pred             HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHH
Q 024463          102 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP  181 (267)
Q Consensus       102 ~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp  181 (267)
                      ++++..-+++-.|+...+++.+.   +....   +....++.++|+|+|+.|=+.|+           +.|+..|++.+|
T Consensus       114 ~~eL~~Y~~~vAg~vg~l~~~i~---~~~~~---~~~~~~A~~lG~AlqltnilRdv-----------~eD~~~gR~YlP  176 (265)
T cd00683         114 LDELDEYCYYVAGVVGLMLLRVF---GASSD---EAALERARALGLALQLTNILRDV-----------GEDARRGRIYLP  176 (265)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHh---CCCCC---hHHHHHHHHHHHHHHHHHHHHHH-----------HHHHccCCCcCC
Confidence            45555555555555544444332   22112   23568899999999999988887           367788999998


Q ss_pred             HHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 024463          182 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH  244 (267)
Q Consensus       182 ~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~  244 (267)
                      .=..-+..-...+++.. ..+ +.+..         .+.+....++.++..|...+..+|...
T Consensus       177 ~d~l~~~gv~~~~l~~~-~~~-~~~~~---------~~~~~~~~A~~~~~~a~~~~~~lp~~~  228 (265)
T cd00683         177 REELARFGVTLEDLLAP-ENS-PAFRA---------LLRRLIARARAHYREALAGLAALPRRS  228 (265)
T ss_pred             HHHHHHcCCCHHHHcCC-CCC-HHHHH---------HHHHHHHHHHHHHHHHHHhHHhCCHhh
Confidence            76644332122222221 111 22222         244556678999999999999999543

These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze a head-to-head (HH) (1'-1) condensation reaction. This CD includes squalene and phytoene synthases which catalyze the 1'-1 condensation of two 15-carbon (farnesyl) and 20-carbon (geranylgeranyl) isoprenyl diphosphates, respectively. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DXXXD) located on opposite walls. These residues mediate binding of prenyl phosphates. A two-step reaction has been proposed for squalene synthase (farnesyl-diphosphate farnesyltransferase) in which, two molecules of FPP react to form a stable cyclopropylcarbinyl diphosphate intermediate, and then the intermediate undergoes heterolysis, isomerization, and reduction with NADPH to form squalene, a precursor of cholestrol. The carotenoid biosynthesis enzyme, phytoene synthase (CrtB), catalyzes

>TIGR03465 HpnD squalene synthase HpnD

Probab=91.92  E-value=2.7  Score=37.21  Aligned_cols=114  Identities=18%  Similarity=0.082  Sum_probs=70.2

Q ss_pred             HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHH
Q 024463          102 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP  181 (267)
Q Consensus       102 ~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp  181 (267)
                      ++++..-++.-.|++..+.+.+   ++..++    .....+.++|.++|+.|=+.|+           +.|+..|++.+|
T Consensus       106 ~~dL~~Y~~~vAg~vg~l~~~l---lg~~~~----~~~~~a~~lG~AlqltnilRdv-----------~eD~~~gR~ylP  167 (266)
T TIGR03465       106 FAELDLYCDRVAGAVGRLSARI---FGATDA----RTLEYAHHLGRALQLTNILRDV-----------GEDARRGRIYLP  167 (266)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHH---hCCCCh----hHHHHHHHHHHHHHHHHHHHHh-----------HHHHhCCCeecC
Confidence            5566666666666666655554   232222    2467889999999999988887           367788999998


Q ss_pred             HHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 024463          182 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH  244 (267)
Q Consensus       182 ~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~  244 (267)
                      .=..-+..-...+++.. ..+ +....         .+.+-...++.+++++...+..+|...
T Consensus       168 ~~~l~~~gv~~~~l~~~-~~~-~~~~~---------~~~~l~~~A~~~l~~a~~~~~~~p~~~  219 (266)
T TIGR03465       168 AEELQRFGVPAADILEG-RYS-PALAA---------LCRFQAERARAHYAEADALLPACDRRA  219 (266)
T ss_pred             HHHHHHcCCCHHHhcCC-CCC-HHHHH---------HHHHHHHHHHHHHHHHHHhhhhCCHhh
Confidence            76543322112222222 111 12222         234445568888888888888888543

The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnC gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.

>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase

Probab=90.73  E-value=1.4  Score=40.79  Aligned_cols=85  Identities=21%  Similarity=0.239  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcc
Q 024463          138 AFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSH  217 (267)
Q Consensus       138 l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g  217 (267)
                      ..+++..+|+++|+.|=+.|+.           +|+.+|++=||-=..-+.......+.. .    +..+...+      
T Consensus       166 ~~~~A~~lG~aLQlTNIlRDv~-----------ED~~~GR~YlP~e~l~~~g~~~~dl~~-~----~~~~~~~~------  223 (336)
T TIGR01559       166 SEALSNSMGLFLQKTNIIRDYL-----------EDINEGRMFWPREIWSKYAKKLGDFKK-P----ENSDKALQ------  223 (336)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHH-----------hHHhCCCCCCCHHHHHHcCCCHHHhcC-c----cccHHHHH------
Confidence            4688999999999999998883           677889998985532221111222111 1    11112221      


Q ss_pred             hHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 024463          218 GIQRTTELALKHASLAAAAIDSLPETH  244 (267)
Q Consensus       218 ~i~~a~~~~~~~~~~a~~~L~~lp~~~  244 (267)
                      .+++-...+..|++.|..-+..++...
T Consensus       224 ~l~~lv~~A~~~~~~al~yl~~l~~~~  250 (336)
T TIGR01559       224 CLNELVTNALHHATDCLTYLSRLRDQS  250 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence            344556678888889988888886544

This model describes farnesyl-diphosphate farnesyltransferase, also known as squalene synthase, as found in eukaryotes. This family is related to phytoene synthases. Tentatively identified archaeal homologs (excluded from this model) lack the C-terminal predicted transmembrane region universally conserved among members of this family.

>PRK12884 ubiA prenyltransferase; Reviewed

Probab=90.69  E-value=5  Score=35.68  Aligned_cols=142  Identities=18%  Similarity=0.072  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhcCCCC---CCCCcCcchhccchhHHHHHHHHHHHHHHHHHHcCCChhHH---------
Q 024463           34 RQQCIAEITEMIHVASLIHDDVLDDAD---TRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI---------  101 (267)
Q Consensus        34 ~~~~~AaavEllH~asLIhDDI~D~s~---~RRg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~~l~~~~~~~~~---------  101 (267)
                      ...-...++=++|.+.-+.+|+.|.+.   .|..+|-+..+...+.|...+-.+...++-...-+ ++...         
T Consensus        38 ~~~l~~l~~~l~~~a~~~~Nd~~D~~~D~~~r~~Rpl~~G~is~~~a~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~~~  116 (279)
T PRK12884         38 EALLGFLTAFFASGSANALNDYFDYEVDRINRPDRPIPSGRISRREALLLAILLFILGLIAAYLI-SPLAFLVVILVSVL  116 (279)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHhhhhccCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-hHHHHHHHHHHHHH
Confidence            345556677899999999999977654   35666666666667777766655555444322222 22211         


Q ss_pred             HHHHHHHHhchH--HH-----HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccc
Q 024463          102 MECYMQKTYNKT--AA-----LVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLR  174 (267)
Q Consensus       102 ~~~y~~~~~~KT--a~-----l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~  174 (267)
                      .=-|--..+..|  +.     .+..+...|....+......=.+.-+.--..+.+++.+|+.|.-           +|-+
T Consensus       117 ~~~Ys~~lK~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~D~e-----------~D~~  185 (279)
T PRK12884        117 GILYNWKLKEYGLIGNLYVAFLTGMTFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKDIEDVE-----------GDRL  185 (279)
T ss_pred             HHHHHHhhccccchhHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHhhhhh-----------hHHH
Confidence            112321111111  21     12333444444333322211122233344456677788888875           4557


Q ss_pred             cCcccHHHHHHhh
Q 024463          175 NGIITAPILFAME  187 (267)
Q Consensus       175 ~gk~Tlp~l~al~  187 (267)
                      .|+.|+|+.+.-+
T Consensus       186 ~G~~Tl~v~~G~~  198 (279)
T PRK12884        186 RGARTLAILYGEK  198 (279)
T ss_pred             cCCeeechHhcHH
Confidence            8999999988654

>PRK12882 ubiA prenyltransferase; Reviewed

Probab=89.11  E-value=14  Score=32.77  Aligned_cols=142  Identities=16%  Similarity=0.110  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcCCCC---CCCCcCcchhccchhHHHHHHHHHHHHHHHHHHcCCChhHH---------H
Q 024463           35 QQCIAEITEMIHVASLIHDDVLDDAD---TRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI---------M  102 (267)
Q Consensus        35 ~~~~AaavEllH~asLIhDDI~D~s~---~RRg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~~l~~~~~~~~~---------~  102 (267)
                      ..-+..+.=++|.++-+..|+.|.+.   .|+++|-+..+...+.|...+-.+...++-....++ +...         .
T Consensus        40 ~~l~~l~~~l~~~~~~~~Nd~~D~~iD~~~~~~Rpl~~G~is~~~a~~~~~~l~~~g~~~~~~l~-~~~~~~~~~~~~~~  118 (276)
T PRK12882         40 TGLAFAAVFLATGAGNAINDYFDREIDRINRPDRPIPSGAVSPRGALAFSILLFAAGVALAFLLP-PLCLAIALFNSLLL  118 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhccccccCCCCCcCCCCcCHHHHHHHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHH
Confidence            34455566789999999999977654   457888888888888888888777766654333332 2111         1


Q ss_pred             HHHHHHHhchHH--HH-----HHHHHHHHHHHhCCC-HHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccc
Q 024463          103 ECYMQKTYNKTA--AL-----VSNSCKAVAYLSGQR-EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLR  174 (267)
Q Consensus       103 ~~y~~~~~~KTa--~l-----~~~~~~~ga~la~~~-~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~  174 (267)
                      --|-...+.++.  ..     ...+...|+...+.+ ....-.+.-+.-..-+++-+.+|+.|..           +|.+
T Consensus       119 ~~Yt~~lK~~~~~g~~~vg~~~g~~~~~g~~~~~~~~~~~~~~l~~~~fl~~~~~~~~~~~~D~e-----------~D~~  187 (276)
T PRK12882        119 VLYAETLKGTPGLGNASVAYLTGSTFLFGGAAVGTEGLLALLVLFALAALATLAREIIKDVEDIE-----------GDRA  187 (276)
T ss_pred             HHHHHHHhcccchhHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHhhhhhhh-----------hHHH
Confidence            234332232222  11     111222333333322 1111122222222345666777887774           4567


Q ss_pred             cCcccHHHHHHhhh
Q 024463          175 NGIITAPILFAMEE  188 (267)
Q Consensus       175 ~gk~Tlp~l~al~~  188 (267)
                      .|.+|+|+.+..+.
T Consensus       188 ~G~~tlpv~~G~~~  201 (276)
T PRK12882        188 EGARTLPILIGVRK  201 (276)
T ss_pred             cCCccccHHhhHHH
Confidence            89999999986654

>TIGR01474 ubiA_proteo 4-hydroxybenzoate polyprenyl transferase, proteobacterial

Probab=86.37  E-value=11  Score=33.82  Aligned_cols=58  Identities=19%  Similarity=0.075  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcCCCCC----C-CCcCcchhccchhHHHHHHHHHHHHHHHHH
Q 024463           35 QQCIAEITEMIHVASLIHDDVLDDADT----R-RGIGSLSSVMGNKLAILAGDLLISRALVAL   92 (267)
Q Consensus        35 ~~~~AaavEllH~asLIhDDI~D~s~~----R-Rg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~~l   92 (267)
                      ..-+..++=++|.+.-+..|+.|.+..    | +.+|-+..+...+.|...+-.+...++-..
T Consensus        42 ~~~~~~~~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~~~~~~~~l~  104 (281)
T TIGR01474        42 LGLFTVGAILMRGAGCVINDIWDRDFDPQVERTKSRPLASGAVSVRQAILFLLVQLLVALGVL  104 (281)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhhhcccccCCcccCCCCCCCCcCHHHHHHHHHHHHHHHHHHH
Confidence            444555567899999999999886433    3 467877788888888888777666665433

A fairly deep split by both clustering (UPGMA) and phylogenetics (NJ tree) separates this group (mostly Proteobacterial and mitochondrial), with several characterized members, from another group (mostly archaeal and Gram-positive bacterial) lacking characterized members.

>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed

Probab=85.41  E-value=26  Score=31.16  Aligned_cols=56  Identities=14%  Similarity=0.014  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcCCCCCC---CCcCcchhccchhHHHHHHHHHHHHHHH
Q 024463           35 QQCIAEITEMIHVASLIHDDVLDDADTR---RGIGSLSSVMGNKLAILAGDLLISRALV   90 (267)
Q Consensus        35 ~~~~AaavEllH~asLIhDDI~D~s~~R---Rg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~   90 (267)
                      ..-...++=++|.+.-+..|+.|-+..|   +.+|-+..+...+.|...+-.+...++-
T Consensus        39 ~~l~~l~~~l~~~~~~~iNd~~D~~iD~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~   97 (279)
T PRK09573         39 IILAALVVFLVCAGGNVINDIYDIEIDKINKPERPIPSGRISLKEAKIFSITLFIVGLI   97 (279)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcccccccccCCCCCcCCCccCHHHHHHHHHHHHHHHHH
Confidence            4455556779999999999998876544   6788888888888998888777776664

>PRK07566 bacteriochlorophyll/chlorophyll a synthase; Reviewed

Probab=83.36  E-value=21  Score=32.59  Aligned_cols=51  Identities=12%  Similarity=-0.009  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHHhhhcCCCCCC---CCcCcchhccchhHHHHHHHHHHHHHHH
Q 024463           40 EITEMIHVASLIHDDVLDDADTR---RGIGSLSSVMGNKLAILAGDLLISRALV   90 (267)
Q Consensus        40 aavEllH~asLIhDDI~D~s~~R---Rg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~   90 (267)
                      .+.-++|.++-++.|+.|.+..|   +.+|....+...+.+...+-.++..++-
T Consensus        72 l~~~l~~~~~~~~Nd~~D~~~D~~~~~~Rpl~sG~is~~~a~~~~~~l~~~~~~  125 (314)
T PRK07566         72 LAGPLLCGTSQTLNDYFDREVDAINEPYRPIPSGAISLRWVLYLIAVLTVLGLA  125 (314)
T ss_pred             HHHHHHHHHHHHHhhhhccCccccCCCCCCCCCceeCHHHHHHHHHHHHHHHHH
Confidence            34456899999999999976644   5577777777888888877766665553

>TIGR02056 ChlG chlorophyll synthase, ChlG

Probab=81.63  E-value=29  Score=31.45  Aligned_cols=51  Identities=12%  Similarity=-0.078  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHhhhcCCCCCC---CCcCcchhccchhHHHHHHHHHHHHHH
Q 024463           39 AEITEMIHVASLIHDDVLDDADTR---RGIGSLSSVMGNKLAILAGDLLISRAL   89 (267)
Q Consensus        39 AaavEllH~asLIhDDI~D~s~~R---Rg~pt~~~~~G~~~Ai~~Gd~Ll~~a~   89 (267)
                      ..+.=++|.++-++.|+.|.+..|   |.+|....+...+.+...+-.++..++
T Consensus        60 ll~~~l~~~~~n~~NDy~D~d~D~~~~~~Rpi~~G~is~~~a~~~~~~l~~~~~  113 (306)
T TIGR02056        60 LLSGPCLTGYTQTINDFYDRDIDAINEPYRPIPSGAISEPEVITQIVLLFIAGI  113 (306)
T ss_pred             HHHHHHHHHHHHHHHhHhhhhhhccCCCCCCCCCCccCHHHHHHHHHHHHHHHH
Confidence            355579999999999999876433   456666666777788777765555443

This model represents the strictly cyanobacterial and plant-specific chlorophyll synthase ChlG. ChlG is the enzyme (esterase) which attaches the side chain moiety onto chlorophyllide a. Both geranylgeranyl and phytyl pyrophosphates are substrates to varying degrees in enzymes from different sources. Thus, ChlG may act as the final or penultimate step in chlorophyll biosynthesis (along with the geranylgeranyl reductase, ChlP).

>PRK12848 ubiA 4-hydroxybenzoate octaprenyltransferase; Reviewed

Probab=81.03  E-value=37  Score=30.32  Aligned_cols=140  Identities=16%  Similarity=0.045  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhcCCCCCC-----CCcCcchhccchhHHHHHHHHHHHHHHHHHHcCCChhHH---------
Q 024463           36 QCIAEITEMIHVASLIHDDVLDDADTR-----RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI---------  101 (267)
Q Consensus        36 ~~~AaavEllH~asLIhDDI~D~s~~R-----Rg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~~l~~~~~~~~~---------  101 (267)
                      .-...+.=++|.+..+..|+.|.+-.|     |.||-+-.+-....|...+-.++..+.-....+ ++...         
T Consensus        45 ~l~~~g~~l~~~a~~~~Nd~~D~~iD~~~~Rt~~RPl~sG~is~~~a~~~~~~l~~~~~~l~~~l-~~~~~~l~~~~~~~  123 (282)
T PRK12848         45 VVFVLGVFLMRAAGCVINDYADRDFDGHVKRTKNRPLASGAVSEKEALALFVVLVLVAFLLVLTL-NTLTIWLSVAALAL  123 (282)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHhccCCCCCCCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHHHHH-hHHHHHHHHHHHHH
Confidence            333444458999999999998864433     468888888888899888877777665433322 22111         


Q ss_pred             HHHHHHHHhchH-------HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccc
Q 024463          102 MECYMQKTYNKT-------AALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLR  174 (267)
Q Consensus       102 ~~~y~~~~~~KT-------a~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~  174 (267)
                      .=-|- ..++.|       |..+..+..+|....+.+-.. ..+--+  -.-..+|+.-|+..-..|.       -+|.+
T Consensus       124 ~~~Y~-~~Kr~~~~~~~~~g~~~g~~~~~g~~a~~~~~~~-~~~~l~--~~~~~w~~~~~~~~a~~D~-------e~D~~  192 (282)
T PRK12848        124 AWIYP-FMKRYTHLPQVVLGAAFGWGIPMAFAAVQGSVPL-EAWLLF--LANILWTVAYDTQYAMVDR-------DDDLK  192 (282)
T ss_pred             HHHHH-hHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCcH-HHHHHH--HHHHHHHHHHHHHHHhccH-------hhHHH
Confidence            11241 112222       222444444444333222111 111111  1223456666654333332       26778


Q ss_pred             cCcccHHHHHHhh
Q 024463          175 NGIITAPILFAME  187 (267)
Q Consensus       175 ~gk~Tlp~l~al~  187 (267)
                      .|.+|+|+.+-.+
T Consensus       193 ~G~~tlpv~~G~~  205 (282)
T PRK12848        193 IGIKSTAILFGRY  205 (282)
T ss_pred             cCCccccHHhccc
Confidence            9999999998654

>PRK12872 ubiA prenyltransferase; Reviewed

Probab=80.85  E-value=38  Score=30.03  Aligned_cols=33  Identities=27%  Similarity=0.487  Sum_probs=25.6

Q ss_pred             HHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhh
Q 024463          145 LGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE  188 (267)
Q Consensus       145 lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~  188 (267)
                      +-...++.+|+.|..+|           -+.|+.|+|+.+..++
T Consensus       173 ~~~~~~~~~d~~D~e~D-----------~~~G~~Tlpv~lG~~~  205 (285)
T PRK12872        173 KSFIREIVFDIKDIEGD-----------RKSGLKTLPIVLGKER  205 (285)
T ss_pred             HHHHHHHHHhcccchhH-----------HHcCCcccchhcchHH
Confidence            45677888999998654           4689999999997654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	267
3aq0_A	348	Ligand-Bound Form Of Arabidopsis MediumLONG-Chain L		3e-92
3apz_A	348	Apo Form Of Arabidopsis MediumLONG-Chain Length Pre		3e-92
3aqb_B	325	M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphospha		2e-21
3tc1_A	315	Crystal Structure Of Octaprenyl Pyrophosphate Synth		3e-20
3lmd_A	360	Crystal Structure Of Geranylgeranyl Pyrophosphate S		4e-20
1v4i_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		1e-19
1vg6_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		1e-19
1vg7_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		1e-19
1vg4_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		2e-19
2azl_A	299	Crystal Structure For The Mutant F117e Of Thermotog		2e-19
1v4h_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		2e-19
3mzv_A	341	Crystal Structure Of A Decaprenyl Diphosphate Synth		2e-19
1v4e_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		2e-19
1wl0_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		2e-19
1wkz_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		2e-19
1wy0_A	342	Crystal Structure Of Geranylgeranyl Pyrophosphate S		4e-19
1v4j_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		5e-19
1v4k_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		8e-19
1vg2_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		9e-19
1wl2_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		2e-18
1wl3_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		2e-18
3oyr_A	345	Crystal Structure Of Polyprenyl Synthase From Caulo		2e-18
3pko_A	334	Crystal Structure Of Geranylgeranyl Pyrophosphate S		4e-18
3n3d_A	335	Crystal Structure Of Geranylgeranyl Pyrophosphate S		4e-18
1vg3_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-18
1wl1_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		1e-15
3rmg_A	334	Crystal Structure Of Geranylgeranyl Pyrophosphate S		4e-14
3ipi_A	295	Crystal Structure Of A Geranyltranstransferase From		2e-13
3kra_A	295	Mint Heterotetrameric Geranyl Pyrophosphate Synthas		5e-13
3nf2_A	352	Crystal Structure Of Polyprenyl Synthetase From Str		1e-12
3uca_A	324	Crystal Structure Of Isoprenoid Synthase (Target Ef		5e-12
4dhd_A	358	Crystal Structure Of Isoprenoid Synthase A3msh1 (Ta		4e-11
3lk5_A	380	Crystal Structure Of Putative Geranylgeranyl Pyroph		5e-10
3npk_A	291	The Crystal Structure Of Geranyltranstransferase Fr		5e-09
1rtr_A	301	Crystal Structure Of S. Aureus Farnesyl Pyrophospha		6e-09
4f62_A	317	Crystal Structure Of A Putative Farnesyl-Diphosphat		8e-09
4fp4_A	285	Crystal Structure Of Isoprenoid Synthase A3mx09 (Ta		2e-08
2q80_A	301	Crystal Structure Of Human Geranylgeranyl Pyrophosp		2e-08
2ftz_A	284	Crystal Structure Of Geranyltranstransferase (Ec 2.		3e-08
2j1p_A	293	Geranylgeranyl Diphosphate Synthase From Sinapis Al		3e-08
3p8l_A	302	Crystal Structure Of Polyprenyl Synthase From Enter		1e-07
1rqj_A	299	Active Conformation Of Farnesyl Pyrophosphate Synth		3e-07
2for_A	323	Crystal Structure Of The Shigella Flexneri Farnesyl		4e-07
1rqi_A	300	Active Conformation Of Farnesyl Pyrophosphate Synth		4e-07
3m9u_A	309	Crystal Structure Of Geranylgeranyl Pyrophosphate S		4e-07
3lom_A	313	Crystal Structure Of Geranyltransferase From Legion		6e-07
3lvs_A	298	Crystal Structure Of Farnesyl Diphosphate Synthase		6e-07
3p8r_A	302	Crystal Structure Of Polyprenyl Synthase From Vibri		8e-07
3q1o_A	310	Crystal Structure Of Geranyltransferase From Helico		1e-06
3llw_A	311	Crystal Structure Of Geranyltransferase From Helico		1e-06
2h8o_A	335	The 1.6a Crystal Structure Of The Geranyltransferas		3e-06
1wmw_A	330	Crystal Structure Of Geranulgeranyl Diphosphate Syn		1e-05
2j1o_A	268	Geranylgeranyl Diphosphate Synthase From Sinapis Al		2e-05
2dh4_A	340	Geranylgeranyl Pyrophosphate Synthase Length = 340		2e-05
3p41_A	303	Crystal Structure Of Polyprenyl Synthetase From Pse		4e-05
3lji_A	304	Crystal Structure Of Putative Geranyltranstransfera		5e-05
2azk_A	289	Crystal Structure For The Mutant W136e Of Sulfolobu		1e-04
2azj_A	289	Crystal Structure For The Mutant D81c Of Sulfolobus		8e-04

>pdb|3AQ0|A Chain A, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length Prenyl Pyrophosphate Synthase (Surface Polar Residue Mutant) Length = 348

Iteration: 1
 Score =  334 bits (857), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 171/292 (58%), Positives = 209/292 (71%), Gaps = 27/292 (9%)
Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           ++LLMATAL+V  PE       + +  +LR RQ+ IAEITEMIHVASL+HDDVLDDADTR
Sbjct: 57  ILLLMATALDVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTR 116
Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RG+GSL+ VMGNK+++LAGD L+SRA  ALA+LK+TEV+                     
Sbjct: 117 RGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSS 176
Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 M+ YMQKTY KTA+L+SNSCKAVA L+GQ  EVA LAFEYG+NLGLA+QLIDDI
Sbjct: 177 TAARYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDI 236
Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+G+ITAPILFAMEEFPQLR  ++  + +P NVD+ LEYLGK
Sbjct: 237 LDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVAADPRNVDIALEYLGK 296
Query: 216 SHGIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQR  E            I SLPET + D   +R AL+ +T ++ITRNK
Sbjct: 297 SKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 348

>pdb|3APZ|A Chain A, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl Pyrophosphate Synthase Length = 348

Iteration: 1
 Score =  334 bits (857), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 171/292 (58%), Positives = 208/292 (71%), Gaps = 27/292 (9%)
Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           ++LLMATAL+V  PE       + +  +LR RQ+ IAEITEMIHVASL+HDDVLDDADTR
Sbjct: 57  ILLLMATALDVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTR 116
Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RG+GSL+ VMGNK+++LAGD L+SRA  ALA+LK+TEV+                     
Sbjct: 117 RGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSS 176
Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 M+ YMQKTY KTA+L+SNSCKAVA L+GQ  EVA LAFEYG+NLGLA+QLIDDI
Sbjct: 177 TEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDI 236
Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+G+ITAPILFAMEEFPQLR  ++    +P NVD+ LEYLGK
Sbjct: 237 LDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGK 296
Query: 216 SHGIQRTTEXXXXXXXXXXXXIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQR  E            I SLPET + D   +R AL+ +T ++ITRNK
Sbjct: 297 SKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 348

>pdb|3AQB|B Chain B, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate Synthase In Complex With Magnesium Length = 325

Iteration: 1
 Score = 99.4 bits (246), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 59/172 (34%), Positives = 94/172 (54%), Gaps = 29/172 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTE--- 99
           E++H+ASL+HDD +D++D RRG  S+        AI  G  L++RAL  +A++ +++   
Sbjct: 74  ELVHMASLVHDDYIDNSDMRRGNTSVHIAFDKDTAIRTGHFLLARALQNIATINNSKFHQ 133
Query: 100 ------------------------VIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVA 135
                                   V    Y+++   KTA L+  SC   A LS Q +E +
Sbjct: 134 IFSKTILEVCFGEFDQMADRFNYPVSFTAYLRRINRKTAILIEASCHLGA-LSSQLDEQS 192
Query: 136 TLAF-EYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM 186
           T    ++G  +G++YQ+IDDILD+T   A+LGK   +D+RNG IT P++ A+
Sbjct: 193 TYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAI 244

>pdb|3TC1|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Helicobacter Pylori Length = 315

Iteration: 1
 Score = 95.5 bits (236), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 59/177 (33%), Positives = 93/177 (52%), Gaps = 29/177 (16%)
Query: 41  ITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALAS------ 94
           I EMI  ASL+HDDV+D A  RR + S++++ GN  A++ GD+  S+A   L+       
Sbjct: 65  IVEMIQTASLLHDDVIDKATMRRKLPSINALFGNFNAVMLGDVFYSKAFFELSKMGELIA 124
Query: 95  ---------LKHTEV----IMECY---MQKTY----NKTAALVSNSCKAVAYLSGQREEV 134
                    L   E+    + EC+    QK +    +KTA  +  S K++A L  +    
Sbjct: 125 QALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLNKD--- 181
Query: 135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQ 191
           A +  ++G N G+A+Q+IDD+LD T  + +LGK + +D + G  T P L   E+  Q
Sbjct: 182 AKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKLNQ 238

>pdb|3LMD|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Corynebacterium Glutamicum Atcc 13032 Length = 360

Iteration: 1
 Score = 95.1 bits (235), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 66/234 (28%), Positives = 111/234 (47%), Gaps = 29/234 (12%)
Query: 39  AEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHT 98
           A + E+ H+A+L HDDV+D+A  RRG+ S ++   N +AILAGD+L++ A   ++ L   
Sbjct: 101 AVVVEITHLATLYHDDVMDEASMRRGVPSANARWDNSVAILAGDILLAHASGLMSQLGTD 160
Query: 99  EVI-------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREE 133
            V                          +E Y      KT  L++++    A  +G   E
Sbjct: 161 TVAHFAETFGELVTGQMRETVGPRDTDPIEHYTNVIREKTGVLIASAGYLGAMHAGAAPE 220
Query: 134 VATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM-EEFP-- 190
                  +G  +G+ +Q++DDI+D    +   GK   TDLR G+ T P+L+A+ E+ P  
Sbjct: 221 HIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVG 280
Query: 191 -QLRAFINSSSDNPANVDVILEYLGKSHGIQRTTEXXXXXXXXXXXXIDSLPET 243
            +LR  +    ++   V+ +LE L +S G Q   +            +D LP++
Sbjct: 281 AELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELDRLPDS 334

>pdb|1V4I|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132a Mutant Length = 299

Iteration: 1
 Score = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLI----------------S 86
           E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++                 
Sbjct: 71  ELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 87  RALVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
            AL  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AALNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1VG6|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132aL128AI123A MUTANT Length = 299

Iteration: 1
 Score = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLI----------------S 86
           E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++                 
Sbjct: 71  ELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEAGNNKARR 130
Query: 87  RALVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
            AL  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AALNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1VG7|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132aL128AI123AD62A MUTANT Length = 299

Iteration: 1
 Score = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLI----------------S 86
           E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++                 
Sbjct: 71  ELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEAGNNKARR 130
Query: 87  RALVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
            AL  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AALNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1VG4|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F132aL128A MUTANT Length = 299

Iteration: 1
 Score = 93.2 bits (230), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLI----------------S 86
           E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++                 
Sbjct: 71  ELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKARR 130
Query: 87  RALVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
            AL  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AALNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|2AZL|A Chain A, Crystal Structure For The Mutant F117e Of Thermotoga Maritima Octaprenyl Pyrophosphate Synthase Length = 299

Iteration: 1
 Score = 92.8 bits (229), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAEHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1V4H|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima F52a Mutant Length = 299

Iteration: 1
 Score = 92.8 bits (229), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|3MZV|A Chain A, Crystal Structure Of A Decaprenyl Diphosphate Synthase From Rhodobacter Capsulatus Length = 341

Iteration: 1
 Score = 92.8 bits (229), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/176 (31%), Positives = 90/176 (51%), Gaps = 27/176 (15%)
Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALV------- 90
           +A   E IH A+L+HDDV+D++  RRG  + + +  NK ++L GD L +R+         
Sbjct: 78  LAATVEFIHTATLLHDDVVDESRQRRGRPTANLLWDNKSSVLVGDYLFARSFQLMTDTGN 137
Query: 91  ---------ALASLKHTEVIM-----------ECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
                    A A +   EV+            + Y++    KTAAL S + +    + G 
Sbjct: 138 MRVMEILANASAVIAEGEVLQLTAAQNLATTEDIYLRVIRGKTAALFSAATEVGGIIGGA 197
Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM 186
            E+     F+YG  LG+A+Q++DD+LD+ G SA +GK +  D R   +T P++ A+
Sbjct: 198 PEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKAV 253

>pdb|1V4E|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima Length = 299

Iteration: 1
 Score = 92.8 bits (229), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1WL0|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima R44a Mutant Length = 299

Iteration: 1
 Score = 92.8 bits (229), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1WKZ|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima K41a Mutant Length = 299

Iteration: 1
 Score = 92.8 bits (229), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 91/177 (51%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1WY0|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthetase From Pyrococcus Horikoshii Ot3 Length = 342

Iteration: 1
 Score = 91.7 bits (226), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 54/166 (32%), Positives = 78/166 (46%), Gaps = 32/166 (19%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL------- 95
           E+IH  SL+HDD++D  +TRRG  ++  + G  +AILAGDLL S+A  A+A         
Sbjct: 76  ELIHNYSLVHDDIMDMDETRRGKPTVHRIWGVNMAILAGDLLFSKAFEAVARAEIPPEKK 135
Query: 96  -------------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
                                    K + V +E YM+    KT AL   S K    +   
Sbjct: 136 ARVLEVIVKASNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGALFEASAKVGGIIGTD 195
Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNG 176
            EE       +G+N+G+A+Q+ DD+LD       LGK   +D+R G
Sbjct: 196 NEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKG 241

>pdb|1V4J|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima V73y Mutant Length = 299

Iteration: 1
 Score = 91.3 bits (225), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 90/177 (50%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E+ H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELYHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1V4K|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima S77f Mutant Length = 299

Iteration: 1
 Score = 90.5 bits (223), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 56/177 (31%), Positives = 90/177 (50%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E++H+A L+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELVHLAFLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1VG2|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima A76y Mutant Length = 299

Iteration: 1
 Score = 90.5 bits (223), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 53/177 (29%), Positives = 89/177 (50%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL------- 95
           E++H+ SL+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A   +  +       
Sbjct: 71  ELVHLYSLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 96  -------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
                              ++  +  E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1WL2|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima R90a Mutant Length = 299

Iteration: 1
 Score = 89.7 bits (221), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 56/177 (31%), Positives = 90/177 (50%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E++H+ASL+HDDV+D A   RG  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELVHLASLLHDDVIDGARFARGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1WL3|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima R91a Mutant Length = 299

Iteration: 1
 Score = 89.7 bits (221), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 56/177 (31%), Positives = 90/177 (50%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E++H+ASL+HDDV+D A  R G  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELVHLASLLHDDVIDGARFRAGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|3OYR|A Chain A, Crystal Structure Of Polyprenyl Synthase From Caulobacter Crescentus Cb15 Complexed With Calcium And Isoprenyl Diphosphate Length = 345

Iteration: 1
 Score = 89.4 bits (220), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 58/178 (32%), Positives = 87/178 (48%), Gaps = 27/178 (15%)
Query: 36  QCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA---LVAL 92
           Q +A   E IH A+L+HDDV+D +  RRG  +   + G   ++L GD L +RA   +V  
Sbjct: 88  QKLAAAVEFIHTATLLHDDVVDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELMVET 147
Query: 93  ASLKHTEVIMEC------------------------YMQKTYNKTAALVSNSCKAVAYLS 128
            S+K  E++                           Y++    KTA L + + +A A  +
Sbjct: 148 NSMKALEILARASRVIAEGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAASEAGAVSA 207
Query: 129 GQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM 186
           G     +    +YG NLGLA+QL DD LD+ G + +LGK +  D R G  T P+L A+
Sbjct: 208 GVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAI 265

>pdb|3PKO|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Lactobacillus Brevis Atcc 367 Complexed With Citrate Length = 334

Iteration: 1
 Score = 88.6 bits (218), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 55/170 (32%), Positives = 85/170 (50%), Gaps = 28/170 (16%)
Query: 36  QCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLIS--------- 86
           Q  A   E++HV +LIHDDV+DD+ TRRG+ ++    G + AI AGD + +         
Sbjct: 79  QAGAAAIEILHVGTLIHDDVIDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLKS 138
Query: 87  ---RALV-----ALASLKHTE-----------VIMECYMQKTYNKTAALVSNSCKAVAYL 127
              R+L+     A+  +   E           + ++ Y+ +   KTA L + SC   A L
Sbjct: 139 TTDRSLIQNHIDAMHRILQGELHQMDLNYREDITLDAYLNEIAGKTAELFALSCYQGAQL 198
Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGI 177
           +G  + V     + G  +G AYQ++DDILD+ G      K  L DLR+G+
Sbjct: 199 AGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGV 248

>pdb|3N3D|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Lactobacillus Brevis Atcc 367 Length = 335

Iteration: 1
 Score = 88.6 bits (218), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 55/170 (32%), Positives = 85/170 (50%), Gaps = 28/170 (16%)
Query: 36  QCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLIS--------- 86
           Q  A   E++HV +LIHDDV+DD+ TRRG+ ++    G + AI AGD + +         
Sbjct: 72  QAGAAAIEILHVGTLIHDDVIDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLKS 131
Query: 87  ---RALV-----ALASLKHTE-----------VIMECYMQKTYNKTAALVSNSCKAVAYL 127
              R+L+     A+  +   E           + ++ Y+ +   KTA L + SC   A L
Sbjct: 132 TTDRSLIQNHIDAMHRILQGELHQMDLNYREDITLDAYLNEIAGKTAELFALSCYQGAQL 191
Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGI 177
           +G  + V     + G  +G AYQ++DDILD+ G      K  L DLR+G+
Sbjct: 192 AGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGV 241

>pdb|1VG3|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima A76yS77F MUTANT Length = 299

Iteration: 1
 Score = 88.2 bits (217), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 55/177 (31%), Positives = 89/177 (50%), Gaps = 30/177 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E++H+  L+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A              
Sbjct: 71  ELVHLYFLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRR 130
Query: 89  --LVALASLKHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
             L  +  +   E+I           E Y++    K+ AL   + +  A L G   E+  
Sbjct: 131 AFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGE 187
Query: 137 LAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
             +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 188 DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|1WL1|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase From Hyperthermophilic Thermotoga Maritima H74a Mutant Length = 299

Iteration: 1
 Score = 80.5 bits (197), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 82/168 (48%), Gaps = 30/168 (17%)
Query: 52  HDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA----------------LVALASL 95
           HDDV+D A  RRG  +++ + G+K A+ AGDL++  A                L  +  +
Sbjct: 80  HDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNKLRRAFLNVIGKM 139
Query: 96  KHTEVI----------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNL 145
              E+I           E Y++    K+ AL   + +  A L G   E+    +  G  +
Sbjct: 140 SEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGEDLYNLGVTI 196
Query: 146 GLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLR 193
           G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+ R
Sbjct: 197 GTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEAR 243

>pdb|3RMG|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Bacteroides Thetaiotaomicron Length = 334

Iteration: 1
 Score = 75.1 bits (183), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 62/217 (28%), Positives = 105/217 (48%), Gaps = 36/217 (16%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIM 102
           E++H ASL+HDDV+D++  RRG  S++++  NK+++LAGD L++ +LV      + E+I 
Sbjct: 77  ELLHTASLVHDDVVDESTERRGQLSVNAIFNNKVSVLAGDYLLATSLVHAEQTNNYEIIR 136
Query: 103 ---------------------------ECYMQKTYNKTAALVSNSCKAVAYLSGQREEVA 135
                                      E Y      KTAAL +   +A A      EE  
Sbjct: 137 LVSSLGQKLAEGELLQLSNVSNHSFSEEVYFDVIRKKTAALFAACAEAAALSVQVGEEEV 196
Query: 136 TLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM----EEFPQ 191
             A   G+ +G+ +Q+ DDI D+   S  +GK +  D+  G +T P L+A+    + + +
Sbjct: 197 AFARLLGEYIGICFQIKDDIFDYFD-SKKIGKPTGNDMLEGKLTLPALYALNTTKDAWAE 255
Query: 192 LRAF-INSSSDNPANVDVILEYLGKSHGIQ---RTTE 224
             AF +   +  P  +  ++E+   + GI+   RT E
Sbjct: 256 QIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIE 292

>pdb|3IPI|A Chain A, Crystal Structure Of A Geranyltranstransferase From The Methanosarcina Mazei Length = 295

Iteration: 1
 Score = 72.8 bits (177), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/142 (34%), Positives = 66/142 (46%), Gaps = 27/142 (19%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIM 102
           E  H ASLIHDD+LD    RR + S     G   A+L GD LI+++ +A  S    +VI 
Sbjct: 72  EXXHSASLIHDDLLDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKS-IAFISPYGEKVIQ 130
Query: 103 EC--------------------------YMQKTYNKTAALVSNSCKAVAYLSGQREEVAT 136
           +                           Y +  Y KTA+L + S    AY  G  EE+A 
Sbjct: 131 DFGKAGXDXAEGEVLDLKLEDESFGENDYFKCIYKKTASLFAISASIGAYTGGAEEELAE 190
Query: 137 LAFEYGKNLGLAYQLIDDILDF 158
               +G  LG AYQ++DDIL+F
Sbjct: 191 RFSHFGNALGTAYQIVDDILEF 212

>pdb|3KRA|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In Complex With Magnesium Length = 295

Iteration: 1
 Score = 71.2 bits (173), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 59/204 (28%), Positives = 86/204 (42%), Gaps = 52/204 (25%)
Query: 42  TEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALAS----- 94
            EMIH  SL+HDD+  +D+ D RRG  +     G  +A+LAGD L+S A   +A+     
Sbjct: 72  VEMIHTMSLMHDDLPCMDNDDLRRGKPTNHMAFGESVAVLAGDALLSFAFEHVAAATKGA 131
Query: 95  --------------------------------------LKHTEVIMECYMQKTYNKTAAL 116
                                                 L H E I        ++KTAAL
Sbjct: 132 PPERIVRVLGELAVSIGSEGLVAGQVVDVCSEGMAEVGLDHLEFI-------HHHKTAAL 184
Query: 117 VSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNG 176
           +  S    A L G +EE      ++   +GL +Q++DDILD T +S  LGK +  DL   
Sbjct: 185 LQGSVVLGAILGGGKEEEVAKLRKFANCIGLLFQVVDDILDVTKSSKELGKTAGKDLVAD 244
Query: 177 IITAPILFAMEEFPQLRAFINSSS 200
             T P L  +E+  +    +N  +
Sbjct: 245 KTTYPKLIGVEKSKEFADRLNREA 268

>pdb|3NF2|A Chain A, Crystal Structure Of Polyprenyl Synthetase From Streptomyces Coelicolor A3(2) Length = 352

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 51/172 (29%), Positives = 77/172 (44%), Gaps = 32/172 (18%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV-- 100
           E++H  SL+HDD++D  + RR   ++  V G   AIL GD L + A   L  L   E   
Sbjct: 84  ELVHNFSLLHDDLMDGDEQRRHRDTVWKVHGPAQAILVGDALFALANEVLLELGTVEAGR 143
Query: 101 -----------------------------IMECYMQKTYNKTAALVSNSCKAVAYLSGQR 131
                                        + EC ++   NKT AL++ +    A L G  
Sbjct: 144 ATRRLTKASRSLIDGQAQDISYEHRDRVSVEEC-LEMEGNKTGALLACASSIGAVLGGAD 202
Query: 132 EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPIL 183
           E  A    +YG +LGLA+Q +DD+L   G   + GK + +DLR    + P++
Sbjct: 203 ERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVV 254

>pdb|3UCA|A Chain A, Crystal Structure Of Isoprenoid Synthase (Target Efi-501974) From Clostridium Perfringens Length = 324

Iteration: 1
 Score = 67.8 bits (164), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 60/188 (31%), Positives = 84/188 (44%), Gaps = 47/188 (25%)
Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVAL-------- 92
           EMIH  SLIHDD+  +D+ D RRG  +   V G  +A+LAGD L++ A+  L        
Sbjct: 104 EMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLNEAMKILVDYSLEEG 163
Query: 93  -ASLKHTEVIMEC----------------------------YMQKTYNKTAALVSNSCKA 123
            ++LK T++I +                             YM     KT  L+  S  +
Sbjct: 164 KSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMH--LKKTGELIKASIMS 221
Query: 124 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDL---RNGIITA 180
            A L+   E        +G  LGLA+Q+ DDILD  G +  LGK    D    +N  IT 
Sbjct: 222 GAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNYIT- 280
Query: 181 PILFAMEE 188
             +F +EE
Sbjct: 281 --IFGLEE 286

>pdb|4DHD|A Chain A, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target Efi-501992) From Pyrobaculum Calidifontis Length = 358

Iteration: 1
 Score = 65.1 bits (157), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/178 (27%), Positives = 77/178 (43%), Gaps = 42/178 (23%)
Query: 39  AEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG----------------- 81
           A I E+IH  SLI+DD++D  D RRG+ ++    G+  AIL G                 
Sbjct: 71  AAIVELIHNYSLIYDDIIDRGDVRRGLPTVRKAFGDNAAILVGIWYREAIEEAVLDTPKP 130
Query: 82  --------------------DLLI---SRALVALASLKHTEVIMECYMQKTYNKTAALVS 118
                               D+L     R+       +  EV ++ Y++    KT AL++
Sbjct: 131 TLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVSLKTGALIA 190
Query: 119 NSCK-AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRN 175
            + K  V  +S  R  +A  A+ +G   G+A+Q+IDD+LD  G     GK    D++ 
Sbjct: 191 AAAKWGVLSVSDDR-GLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDIKE 247

>pdb|3LK5|A Chain A, Crystal Structure Of Putative Geranylgeranyl Pyrophosphate Synthase From Corynebacterium Glutamicum Length = 380

Iteration: 1
 Score = 61.2 bits (147), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 60/228 (26%), Positives = 101/228 (44%), Gaps = 58/228 (25%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVM----------------GNKLAILAGDLLIS 86
           E I   +LIHDD++D +DTRRG  ++   +                G  ++ILAGD  + 
Sbjct: 98  EFIQACALIHDDIIDSSDTRRGAPTVHRAVEADHRANNFEGDPEHFGVSVSILAGDXALV 157
Query: 87  RA----------LVALASLK------HTEVI----MECYMQKTYNKTAALVS--NSCKAV 124
            A            ALA  +       TEVI    ++ Y++   N++  L    N  K  
Sbjct: 158 WAEDXLQDSGLSAEALARTRDAWRGXRTEVIGGQLLDIYLESHANESVELADSVNRFKTA 217
Query: 125 AY-----------LSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDL 173
           AY           ++G   ++      YG ++G+A+QL DD+L   G  A  GK +  D+
Sbjct: 218 AYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDI 277
Query: 174 RNGIITAPILFAME----EFPQ----LRAFINSSSDNPANVDVILEYL 213
           R G  T  +  A++    + P+    +RA +   + +P ++ VI E++
Sbjct: 278 REGKRTVLLALALQRADKQSPEAATAIRAGVGKVT-SPEDIAVITEHI 324

>pdb|3NPK|A Chain A, The Crystal Structure Of Geranyltranstransferase From Campylobacter Jejuni Length = 291

Iteration: 1
 Score = 58.2 bits (139), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 72/167 (43%), Gaps = 35/167 (20%)
Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVAL--ASLKHT 98
           E IH  SLIHDD+   D+AD RRGI +L        AIL GD L + A + L  A LK  
Sbjct: 70  EFIHTYSLIHDDLPAXDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLSHAHLKDE 129
Query: 99  EVI--------------------MECYMQKTY-----------NKTAALVSNSCKAVAYL 127
             I                    ++C+ +              +KTA L++ + K    +
Sbjct: 130 IKIKLIKTLAFNAGLNGXVIGQAIDCFFEDKRLSLNELEFLHTHKTARLIAAALKXGCEI 189
Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLR 174
                E +   ++ G  LGL +Q+ DDI+D T +    GK +  D+ 
Sbjct: 190 CELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDIH 236

>pdb|1RTR|A Chain A, Crystal Structure Of S. Aureus Farnesyl Pyrophosphate Synthase Length = 301

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 49/169 (28%), Positives = 74/169 (43%), Gaps = 36/169 (21%)
Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALAS------ 94
           EMIH  SLIHDD+  +D+ D RRG  +   V G   AILAGD L+++A   ++S      
Sbjct: 72  EMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDDRLTD 131
Query: 95  -------------LKHTEVI---------------MECYMQKTYNKTAALVSNSCKAVAY 126
                          H  ++               +E        KT AL++ +  + A 
Sbjct: 132 EVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTFAVMSAAD 191
Query: 127 LSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRN 175
           ++   +        Y  +LG+ +Q+ DD+LD  G  A LGK   +DL N
Sbjct: 192 IANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLEN 240

>pdb|4F62|A Chain A, Crystal Structure Of A Putative Farnesyl-Diphosphate Synthase From Marinomonas Sp. Med121 (Target Efi-501980) Length = 317

Iteration: 1
 Score = 57.4 bits (137), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 55/199 (27%), Positives = 83/199 (41%), Gaps = 39/199 (19%)
Query: 27  LILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLL 84
           L+ D+       A   E IH  SLIHDD+  +D+ + RRG  +         AILAGD L
Sbjct: 59  LVGDISSLTDASAAALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDAL 118
Query: 85  ISRALVALA----------------------------------SLKHTEVIMECYMQKTY 110
            + A   L+                                  S ++  + +    Q   
Sbjct: 119 QTFAFELLSNPTSAQPELAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHV 178
Query: 111 NKTAALVSNSCKAVAYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKA 168
           +KT AL+  S +  A  +GQ   E++A L   Y   +GLA+Q+ DDI+D T  + +LGK 
Sbjct: 179 HKTGALIKASVRMGALSTGQVKPEQLAKLD-AYAHAIGLAFQVQDDIIDLTSDTETLGKT 237
Query: 169 SLTDLRNGIITAPILFAME 187
             +D      T P L  ++
Sbjct: 238 QFSDAEANKATYPKLLGLD 256

>pdb|4FP4|A Chain A, Crystal Structure Of Isoprenoid Synthase A3mx09 (Target Efi-501993) From Pyrobaculum Calidifontis Length = 285

Iteration: 1
 Score = 56.6 bits (135), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 44/136 (32%), Positives = 65/136 (47%), Gaps = 18/136 (13%)
Query: 39  AEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHT 98
           A I E++HV SL+ DDV+D  D RRGI +  ++ G+  AI+A D LI+ ++    +L   
Sbjct: 74  AAIVELLHVVSLLQDDVMDQHDQRRGIKTPRAMYGDGRAIVASDWLIAESIKMAVNLGAD 133
Query: 99  EVI----------------MECYMQKTYN-KTAALVSNSCKAVAYLSGQREEVATLAFEY 141
            V                 +E    K    KTA L+  +      + G+RE + T A + 
Sbjct: 134 VVTYLADVAQRLSVGQALDLEGERDKAAEFKTAPLIEAALVMPLVILGRRELIET-AKKL 192
Query: 142 GKNLGLAYQLIDDILD 157
           G  LG+ YQ  DD  D
Sbjct: 193 GTKLGILYQYSDDYSD 208

>pdb|2Q80|A Chain A, Crystal Structure Of Human Geranylgeranyl Pyrophosphate Synthase Bound To Ggpp Length = 301

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 47/201 (23%), Positives = 79/201 (39%), Gaps = 32/201 (15%)
Query: 36  QCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL 95
           Q I E+TEM+H ASL+ DD+ D++  RRG     S+ G    I + + +    L  + +L
Sbjct: 48  QIIIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTL 107
Query: 96  KHTEVI---------------MECYMQKTY-------------NKTAALVSNSCKAVAYL 127
            H + +               ++ Y +  Y              KT  L   +   +   
Sbjct: 108 DHPDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLF 167
Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME 187
           S  +E++  L       LGL +Q+ DD  +      S  K+   DL  G  + P + A+ 
Sbjct: 168 SDYKEDLKPLL----NTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIW 223
Query: 188 EFPQLRAFINSSSDNPANVDV 208
             P+     N       N+D+
Sbjct: 224 SRPESTQVQNILRQRTENIDI 244

>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

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 45/162 (27%), Positives = 71/162 (43%), Gaps = 37/162 (22%)
Query: 38  IAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL 95
           +A   E+ H ASLIHDD+  +D+AD RRG  S     G  +A+LAGD L   A   ++ +
Sbjct: 71  VAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLFFLAFSQISXI 130
Query: 96  KHTEVIME----CY-------MQKTYNKTAALVSNSC--KAVAYLSGQREEVATLAFEY- 141
            ++ +  E     Y       M   + +    VS     +  A+ +G     A  AF + 
Sbjct: 131 GNSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTG-----ALFAFCFS 185
Query: 142 ----------------GKNLGLAYQLIDDILDFTGTSASLGK 167
                           G+  G+A+Q+ DD+ D  G+   +GK
Sbjct: 186 APFILXGXDHTXMXLLGEXFGVAFQIYDDLXDILGSFEKVGK 227

>pdb|2J1P|A Chain A, Geranylgeranyl Diphosphate Synthase From Sinapis Alba In Complex With Ggpp Length = 293

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 48/161 (29%), Positives = 68/161 (42%), Gaps = 41/161 (25%)
Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           E IH  SLIHDD+   D+ D RRG  +   V G  +A+LAGD L+S A   LAS   +EV
Sbjct: 82  EXIHTXSLIHDDLPCXDNDDLRRGKPTNHKVYGEDVAVLAGDALLSFAFEHLASATSSEV 141
Query: 101 I---------------------------------------MECYMQKTYNKTAALVSNSC 121
                                                   +E       +KTAAL+  S 
Sbjct: 142 SPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHLHKTAALLEASA 201
Query: 122 KAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTS 162
                + G  +E      ++ + +GL +Q++DDILD T +S
Sbjct: 202 VLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS 242

>pdb|3P8L|A Chain A, Crystal Structure Of Polyprenyl Synthase From Enterococcus Faecalis V583 Length = 302

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 53/165 (32%), Positives = 70/165 (42%), Gaps = 35/165 (21%)
Query: 38  IAEITEMIHVASLIHDDVLDDADT--RRGIGSLSSVMGNKLAILAGDLLISRALVALASL 95
           +A   EMIH  SLIHDD+    D   RRG  +   V G   AILAGD L++ A   L+  
Sbjct: 76  VAASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTGAFQLLSLS 135
Query: 96  KHTEVIMECYMQK---------------------------------TYNKTAALVSNSCK 122
           +         MQ+                                    KT AL+  +  
Sbjct: 136 QLGLSEKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELAAVHEKKTGALIEFALI 195
Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGK 167
           A   L+ Q EEV  L  ++  + GLA+Q+ DD+LD T T A LGK
Sbjct: 196 AGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGK 240

>pdb|1RQJ|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase Bound To Isopentyl Pyrophosphate And Risedronate Length = 299

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 58/189 (30%), Positives = 80/189 (42%), Gaps = 39/189 (20%)
Query: 39  AEITEMIHVASLIHDDVLDDADT--RRGIGSLSSVMGNKLAILAGDLLISRALVALASLK 96
           A   E IH  SLIHDD+    D   RRG+ +     G   AILAGD L + A   L+   
Sbjct: 70  AAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAD 129
Query: 97  HTEV--------IME----------CYMQK------------------TYNKTAALVSNS 120
             EV        I E          C  Q                     +KT AL+  +
Sbjct: 130 MPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRAA 189
Query: 121 CKAVAYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 179
            +  A  +G +   A    + Y +++GLA+Q+ DDILD  G +A+LGK    D + G  T
Sbjct: 190 VRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKST 249
Query: 180 APILFAMEE 188
            P L  +E+
Sbjct: 250 YPALLGLEQ 258

>pdb|2FOR|A Chain A, Crystal Structure Of The Shigella Flexneri Farnesyl Pyrophosphate Synthase Complex With An Isopentenyl Pyrophosphate Length = 323

Iteration: 1
 Score = 52.0 bits (123), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 58/189 (30%), Positives = 80/189 (42%), Gaps = 39/189 (20%)
Query: 39  AEITEMIHVASLIHDDVLDDADT--RRGIGSLSSVMGNKLAILAGDLLISRALVALASLK 96
           A   E IH  SLIHDD+    D   RRG+ +     G   AILAGD L + A   L+   
Sbjct: 94  AAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAN 153
Query: 97  HTEV--------IME----------CYMQK------------------TYNKTAALVSNS 120
             EV        I E          C  Q                     +KT AL+  +
Sbjct: 154 MPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRAA 213
Query: 121 CKAVAYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 179
            +  A  +G +   A    + Y +++GLA+Q+ DDILD  G +A+LGK    D + G  T
Sbjct: 214 VRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKST 273
Query: 180 APILFAMEE 188
            P L  +E+
Sbjct: 274 YPALLGLEQ 282

>pdb|1RQI|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase Bound To Isopentyl Pyrophosphate And Dimethylallyl S- Thiolodiphosphate Length = 300

Iteration: 1
 Score = 52.0 bits (123), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 58/189 (30%), Positives = 80/189 (42%), Gaps = 39/189 (20%)
Query: 39  AEITEMIHVASLIHDDVLDDADT--RRGIGSLSSVMGNKLAILAGDLLISRALVALASLK 96
           A   E IH  SLIHDD+    D   RRG+ +     G   AILAGD L + A   L+   
Sbjct: 71  AAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDAD 130
Query: 97  HTEV--------IME----------CYMQK------------------TYNKTAALVSNS 120
             EV        I E          C  Q                     +KT AL+  +
Sbjct: 131 MPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRAA 190
Query: 121 CKAVAYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIIT 179
            +  A  +G +   A    + Y +++GLA+Q+ DDILD  G +A+LGK    D + G  T
Sbjct: 191 VRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKST 250
Query: 180 APILFAMEE 188
            P L  +E+
Sbjct: 251 YPALLGLEQ 259

>pdb|3M9U|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase From Lactobacillus Brevis Atcc 367 Length = 309

Iteration: 1
 Score = 52.0 bits (123), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 48/175 (27%), Positives = 71/175 (40%), Gaps = 37/175 (21%)
Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           E++H  SLIHDD+  +D+   RRG  +     G  +A LAGD L++ A   L +      
Sbjct: 80  ELLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGLLTLAFQWLTATDLPAT 139
Query: 101 IMECYMQKT---------------------------------YNKTAALVSNSCKAVAYL 127
           +    +Q                                     KT AL+  + +A   L
Sbjct: 140 MQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHKEKTGALLHYAVQAGLIL 199
Query: 128 SGQREEVATLAF-EYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP 181
            GQ  E    A+ ++    GLA+Q+ DDILD   + A +GKA+  D      T P
Sbjct: 200 -GQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYP 253

>pdb|3LOM|A Chain A, Crystal Structure Of Geranyltransferase From Legionella Pneumophila Length = 313

Iteration: 1
 Score = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 54/196 (27%), Positives = 78/196 (39%), Gaps = 44/196 (22%)
Query: 38  IAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGD------------- 82
           IA   E+ H  SLIHDD+  +D+ D RRG  S         AIL GD             
Sbjct: 75  IAAALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGDGMQALAIEVLLMR 134
Query: 83  ---LLISRALVA---------------------LASLKHTEVIMECYMQKTYNKTAALVS 118
              LL +  +VA                     L+ L  + V  E   +    KT  L+ 
Sbjct: 135 LSPLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHLLKTGKLIL 194
Query: 119 NSCKAVAYLSGQRE---EVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRN 175
              + V  L+ Q E   ++ +    YGK++GL +Q+ DD LD    +  LGK   +D  N
Sbjct: 195 ACFEMV--LAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQAN 252
Query: 176 GIITAPILFAMEEFPQ 191
              T   LF  ++  +
Sbjct: 253 QKTTFATLFNKQQLEE 268

>pdb|3LVS|A Chain A, Crystal Structure Of Farnesyl Diphosphate Synthase From Rhodobacter Capsulatus Sb1003 Length = 298

Iteration: 1
 Score = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 44/163 (26%), Positives = 69/163 (42%), Gaps = 41/163 (25%)
Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGD------------------ 82
           E +H  SL+HDD+  +D+ D RRG+ ++     +  A+LAGD                  
Sbjct: 72  EALHAYSLVHDDMPCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFELCTDPVLGSA 131
Query: 83  ------------------LLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAV 124
                             ++  +AL   A      + ++  ++    KT AL+S + +A 
Sbjct: 132 ENRVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQAGKTGALISFAAQAG 191
Query: 125 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGK 167
           A L+G      T    Y   LGLA+Q+ DDILD  G   + GK
Sbjct: 192 AILAGADRGPLT---AYATALGLAFQIADDILDVEGNEEAAGK 231

>pdb|3P8R|A Chain A, Crystal Structure Of Polyprenyl Synthase From Vibrio Cholerae Length = 302

Iteration: 1
 Score = 50.8 bits (120), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 53/195 (27%), Positives = 74/195 (37%), Gaps = 53/195 (27%)
Query: 39  AEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALA--- 93
           A   E IH  SLIHDD+  +DD + RRG  +         AIL GD L + A   LA   
Sbjct: 76  ASAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGDALQTLAFTILAEGD 135
Query: 94  ----------------------------------------SLKHTEVIMECYMQKTYNKT 113
                                                   SL+  E I         NKT
Sbjct: 136 LSAAGETQRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELETIHR-------NKT 188
Query: 114 AALVSNSCKAVAYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTD 172
            AL+  + +  A  +G++        + Y + +GLA+Q+ DDILD    + +LGK   +D
Sbjct: 189 GALMRCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSD 248
Query: 173 LRNGIITAPILFAME 187
                 T P L  +E
Sbjct: 249 QELNKSTYPALLGLE 263

>pdb|3Q1O|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter Pylori Complexed With Magnesium And Isoprenyl Diphosphate Length = 310

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 75/171 (43%), Gaps = 36/171 (21%)
Query: 38  IAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALA-S 94
           IA   E +H  SLIHDD+  +D+A  RR   +L +      A+L GD L + +   L+ +
Sbjct: 86  IALSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNA 145
Query: 95  LKHTEVIME---------------------CYMQKT-----------YNKTAALVSNSCK 122
           L  + +I+E                     CY + T            +KTA L+S S  
Sbjct: 146 LLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHEHKTAKLISASLI 205
Query: 123 AVAYLSG-QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTD 172
                SG + EE+      +G  +GL +Q++DDI+D T      GK +  D
Sbjct: 206 MGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD 256

>pdb|3LLW|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter Pylori 26695 Length = 311

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 75/171 (43%), Gaps = 36/171 (21%)
Query: 38  IAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALA-S 94
           IA   E +H  SLIHDD+  +D+A  RR   +L +      A+L GD L + +   L+ +
Sbjct: 79  IALSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNA 138
Query: 95  LKHTEVIME---------------------CYMQKT-----------YNKTAALVSNSCK 122
           L  + +I+E                     CY + T            +KTA L+S S  
Sbjct: 139 LLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHEHKTAKLISASLI 198
Query: 123 AVAYLSG-QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTD 172
                SG + EE+      +G  +GL +Q++DDI+D T      GK +  D
Sbjct: 199 MGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD 249

>pdb|2H8O|A Chain A, The 1.6a Crystal Structure Of The Geranyltransferase From Agrobacterium Tumefaciens Length = 335

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/65 (36%), Positives = 40/65 (61%)
Query: 112 KTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLT 171
           KT AL+  +C+A A ++G  +        +G+ +GL++QL DD+LD T  +A++GKA+  
Sbjct: 221 KTGALLRFACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGK 280
Query: 172 DLRNG 176
           D   G
Sbjct: 281 DAARG 285

>pdb|1WMW|A Chain A, Crystal Structure Of Geranulgeranyl Diphosphate Synthase From Thermus Thermophilus Length = 330

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 50/181 (27%), Positives = 78/181 (43%), Gaps = 34/181 (18%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALA-----SLKH 97
           E+     L+HDD+ D ++ RRG  +L  +    LA+ AGD + +     LA      L  
Sbjct: 69  ELFQNWVLVHDDIEDGSEERRGRPALHRLHPMPLALNAGDAMHAEMWGLLAEGLARGLFP 128
Query: 98  TEVIMECY---MQKTYNKTAALV-----------SNSCKAVAYLSGQREEVATL------ 137
            EV++E +    +  Y +   L+            +  + VA+ +     VA L      
Sbjct: 129 PEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGALL 188
Query: 138 -------AFEYGK-NLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF 189
                  A+E G   LG A+Q++DD+L+  G  A  GK    DL  G  T  +L  +EE 
Sbjct: 189 AGKTPPAAYEEGGLRLGTAFQIVDDVLNLEGGEAY-GKERAGDLYEGKRTLILLRFLEEA 247
Query: 190 P 190
           P
Sbjct: 248 P 248

>pdb|2J1O|A Chain A, Geranylgeranyl Diphosphate Synthase From Sinapis Alba Length = 268

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 43/150 (28%), Positives = 59/150 (39%), Gaps = 48/150 (32%)
Query: 42  TEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI 101
            EMIH  SLIHDDV                 G  +A+LAGD L+S A   LAS   +EV 
Sbjct: 81  VEMIHTMSLIHDDV----------------YGEDVAVLAGDALLSFAFEHLASATSSEVS 124
Query: 102 --------------------------------MECYMQKTYNKTAALVSNSCKAVAYLSG 129
                                           +E       +KTAAL+  S      + G
Sbjct: 125 PARVVRAVGELAKAIGTEGLVAGQVVDISNVGLEHLKFIHLHKTAALLEASAVLGGIIGG 184
Query: 130 QREEVATLAFEYGKNLGLAYQLIDDILDFT 159
             +E      ++ + +GL +Q++DDILD T
Sbjct: 185 GSDEEIERLRKFARCIGLLFQVVDDILDVT 214

>pdb|2DH4|A Chain A, Geranylgeranyl Pyrophosphate Synthase Length = 340

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 44/195 (22%), Positives = 78/195 (40%), Gaps = 37/195 (18%)
Query: 28  ILDLRRRQQCI-AEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLIS 86
           +++L + Q  I ++I E++H +SL+ DD+ D+A  RRG  +   + G    I   + +  
Sbjct: 54  VMNLPKDQLAIVSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPSTINTANYMYF 113
Query: 87  RALVALASLKHTEVI-----------------------------------MECYMQKTYN 111
           RA+  ++ L   E +                                    E Y+    N
Sbjct: 114 RAMQLVSQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMN 173
Query: 112 KTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLT 171
           KT  L   + + +  LS       +L   +   LG+ YQ+ DD L+      S  K    
Sbjct: 174 KTGGLFRLTLRLMEALSPSSHHGHSLV-PFINLLGIIYQIRDDYLNLKDFQMSSEKGFAE 232
Query: 172 DLRNGIITAPILFAM 186
           D+  G ++ PI+ A+
Sbjct: 233 DITEGKLSFPIVHAL 247

>pdb|3P41|A Chain A, Crystal Structure Of Polyprenyl Synthetase From Pseudomonas Fluorescens Pf-5 Complexed With Magnesium And Isoprenyl Pyrophosphate Length = 303

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 52/183 (28%), Positives = 73/183 (39%), Gaps = 39/183 (21%)
Query: 43  EMIHVASLIHDDVLDDADT--RRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           E+IH  SL+HDD+    D   RRG  +         AILAGD L S A  AL     ++ 
Sbjct: 81  ELIHAYSLVHDDLPAXDDDDLRRGQPTTHKAFDEAXAILAGDGLQSLAFSALLDPALSDA 140
Query: 101 IMECYMQKT------------------------------------YNKTAALVSNSCKAV 124
             E  ++                                       +KT AL+  S    
Sbjct: 141 SAEIRLRXVTTLAQAAGPAGXVGGQAIDLGSVGLKLDQQALEYXHRHKTGALIEASVILG 200
Query: 125 AYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPIL 183
           A  SG+ E+    A + Y + +GLA+Q+ DDILD    +A+LGK    D+     T P L
Sbjct: 201 ALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPAL 260
Query: 184 FAM 186
             +
Sbjct: 261 LGL 263

>pdb|3LJI|A Chain A, Crystal Structure Of Putative Geranyltranstransferase From Pseudomonas Fluorescens Pf-5 Length = 304

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 52/183 (28%), Positives = 73/183 (39%), Gaps = 39/183 (21%)
Query: 43  EMIHVASLIHDDVLDDADT--RRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           E+IH  SL+HDD+    D   RRG  +         AILAGD L S A  AL     ++ 
Sbjct: 74  ELIHAYSLVHDDLPAXDDDDLRRGQPTTHKAFDEACAILAGDGLQSLAFSALLDPALSDA 133
Query: 101 IMECYMQKT------------------------------------YNKTAALVSNSCKAV 124
             E  ++                                       +KT AL+  S    
Sbjct: 134 SAEIRLRXVTTLAQAAGPAGXVGGQAIDLGSVGLKLDQQALEYXHRHKTGALIEASVILG 193
Query: 125 AYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPIL 183
           A  SG+ E+    A + Y + +GLA+Q+ DDILD    +A+LGK    D+     T P L
Sbjct: 194 ALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPAL 253
Query: 184 FAM 186
             +
Sbjct: 254 LGL 256

>pdb|2AZK|A Chain A, Crystal Structure For The Mutant W136e Of Sulfolobus Solfataricus Hexaprenyl Pyrophosphate Synthase Length = 289

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 60/136 (44%), Gaps = 21/136 (15%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRAL------------- 89
           E++H ASL  DD++D   TRRG  +   V GN+  I   + LI  AL             
Sbjct: 79  EILHSASLALDDIVDLDATRRGDKAAWVVYGNRKVIFITNYLIPTALRIIQTSYGDDALN 138
Query: 90  VALASLKHTEV--IMECYMQKTYN-----KTAALVSNSCKAVAYLSGQREEVATLAFEYG 142
            ++   K T V  + + Y    Y      KT +L   S    AY S        +  + G
Sbjct: 139 TSIELEKDTSVGALRDMYDNSDYIRTIELKTGSLFKLSTVLSAYASKHYNTKQQM-LDVG 197
Query: 143 KNLGLAYQLIDDILDF 158
           K LG+ YQ+IDD +D+
Sbjct: 198 KYLGIIYQVIDDFVDY 213

>pdb|2AZJ|A Chain A, Crystal Structure For The Mutant D81c Of Sulfolobus Solfataricus Hexaprenyl Pyrophosphate Synthase Length = 289

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 41/136 (30%), Positives = 59/136 (43%), Gaps = 21/136 (15%)
Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRAL------------- 89
           E++H ASL   D++D   TRRG  +   V GN+  I   + LI  AL             
Sbjct: 79  EILHSASLALCDIVDLDATRRGDKAAWVVYGNRKVIFITNYLIPTALRIIQTSYGDDALN 138
Query: 90  VALASLKHTEV--IMECYMQKTYN-----KTAALVSNSCKAVAYLSGQREEVATLAFEYG 142
            ++   K T V  + + Y    Y      KT +L   S    AY S        +  + G
Sbjct: 139 TSIELWKDTSVGALRDMYDNSDYIRTIELKTGSLFKLSTVLSAYASKHYNTKQQM-LDVG 197
Query: 143 KNLGLAYQLIDDILDF 158
           K LG+ YQ+IDD +D+
Sbjct: 198 KYLGIIYQVIDDFVDY 213

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	267
3apz_A	348	Geranyl diphosphate synthase; prenyltransferase, a	1e-103
3pko_A	334	Geranylgeranyl pyrophosphate synthase; isoprenyl d	2e-67
3aqb_B	325	Component B of hexaprenyl diphosphate synthase; pr	9e-65
3oyr_A	345	Trans-isoprenyl diphosphate synthase; isoprenyl sy	2e-62
3lmd_A	360	Geranylgeranyl pyrophosphate synthase; isoprenyl d	8e-62
3rmg_A	334	Octaprenyl-diphosphate synthase; structural genomi	8e-62
3mzv_A	341	Decaprenyl diphosphate synthase; transferase, stru	8e-60
3tc1_A	315	Octaprenyl pyrophosphate synthase; all alpha-helic	3e-57
1v4e_A	299	Octoprenyl-diphosphate synthase; trans-type prenyl	4e-56
2q80_A	301	Geranylgeranyl pyrophosphate synthetase; isoprenoi	2e-51
1wy0_A	342	Geranylgeranyl pyrophosphate synthetase; pyrococcu	1e-49
3ipi_A	295	Geranyltranstransferase; isoprene biosynthesis, he	4e-49
4dhd_A	358	Polyprenyl synthetase; isoprenoid synthesis, isopr	1e-48
3nf2_A	352	Putative polyprenyl synthetase; isoprenyl diphosph	5e-48
2azj_A	289	Geranylgeranyl pyrophosphate synthetase; hexpps, t	3e-43
4fp4_A	285	Polyprenyl synthetase; isoprenoid synthesis, isopr	4e-41
2e8v_A	340	Geranylgeranyl pyrophosphate synthetase; prenyltra	7e-41
1wmw_A	330	Geranylgeranyl diphosphate synthetase; GGPP, preny	9e-40
3lk5_A	380	Geranylgeranyl pyrophosphate synthase; structural	3e-39
1uby_A	367	FPS, farnesyl diphosphate synthase; transferase, i	3e-35
2qis_A	374	Farnesyl pyrophosphate synthetase; trans-prenyltra	2e-30
1yhl_A	362	Farnesyl pyrophosphate synthase; farnesyl diphosph	1e-28
2her_A	368	Fragment, farnesyl pyrophosphate synthase; farnesy	2e-28
3dyh_A	390	Farnesyl pyrophosphate synthase; protein-bisphosph	3e-27
3uca_A	324	Geranyltranstransferase; isoprenoid synthesis, iso	6e-26
2h8o_A	335	Geranyltranstransferase; geranyltransferase,agroba	3e-25
1rtr_A	301	Geranyltranstransferase; 2.50A {Staphylococcus aur	4e-25
3p8l_A	302	Geranyltranstransferase; isoprenyl synthase, struc	1e-24
4f62_A	317	Geranyltranstransferase; enzyme function initiativ	2e-24
3lsn_A	304	Geranyltranstransferase; structural genomics, prot	3e-24
3ts7_A	324	Geranyltranstransferase; isoprenoid synthesis, far	5e-24
3m0g_A	297	Farnesyl diphosphate synthase; structural genomics	5e-24
1rqj_A	299	Geranyltranstransferase; bisphosphonate, isoprenyl	9e-24
3p8r_A	302	Geranyltranstransferase; isoprenyl synthase, struc	2e-23
3pde_A	309	Farnesyl-diphosphate synthase; isoprenyl diphospha	3e-23
3npk_A	291	Geranyltranstransferase; isoprene biosynthesis, SG	8e-23
3lom_A	313	Geranyltranstransferase; geranyltransferase, struc	9e-23
3llw_A	311	Geranyltranstransferase (ISPA); structural genomic	2e-22
3qkc_B	273	Geranyl diphosphate synthase small subunit; struct	2e-20
2j1p_A	293	Geranylgeranyl pyrophosphate synthetase; transfera	3e-20
2ihi_A	395	Pyrophosphate synthase; PV092040, structural genom	1e-18
2ihi_A	395	Pyrophosphate synthase; PV092040, structural genom	3e-10
3kra_B	274	Geranyl diphosphate synthase small subunit; prenyl	3e-16
2ftz_A	284	Geranyltranstransferase; TM0161, structural GE joi	3e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-05

>3apz_A Geranyl diphosphate synthase; prenyltransferase, all alpha-helices fold, chroloplast, TRAN isoprenoid biosynthetic process; 2.60A {Arabidopsis thaliana} PDB: 3aq0_A* Length = 348

 Score =  304 bits (780), Expect = e-103
 Identities = 180/292 (61%), Positives = 220/292 (75%), Gaps = 27/292 (9%)

Query: 3   VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
           ++LLMATAL+V  PE       + +  +LR RQ+ IAEITEMIHVASL+HDDVLDDADTR
Sbjct: 57  ILLLMATALDVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTR 116

Query: 63  RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
           RG+GSL+ VMGNK+++LAGD L+SRA  ALA+LK+TEV+                     
Sbjct: 117 RGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSS 176

Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
                 M+ YMQKTY KTA+L+SNSCKAVA L+GQ  EVA LAFEYG+NLGLA+QLIDDI
Sbjct: 177 TEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDI 236

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           LDFTGTSASLGK SL+D+R+G+ITAPILFAMEEFPQLR  ++    +P NVD+ LEYLGK
Sbjct: 237 LDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGK 296

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           S GIQR  ELA++HA+LAAAAI SLPET + D   +R AL+ +T ++ITRNK
Sbjct: 297 SKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 348

>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

 Score =  211 bits (539), Expect = 2e-67
 Identities = 64/259 (24%), Positives = 114/259 (44%), Gaps = 36/259 (13%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALA---- 93
            A   E++HV +LIHDDV+DD+ TRRG+ ++    G + AI AGD + +     +     
Sbjct: 81  GAAAIEILHVGTLIHDDVIDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLKSTT 140

Query: 94  ------------------------SLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSG 129
                                        ++ ++ Y+ +   KTA L + SC   A L+G
Sbjct: 141 DRSLIQNHIDAMHRILQGELHQMDLNYREDITLDAYLNEIAGKTAELFALSCYQGAQLAG 200

Query: 130 QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF 189
             + V     + G  +G AYQ++DDILD+ G      K  L DLR+G+ + P+L ++   
Sbjct: 201 APQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSLSHA 260

Query: 190 P--QLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVD 247
           P    +      +    ++  +   + +  G+    +LA  +   A   I  LP      
Sbjct: 261 PRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPV----- 315

Query: 248 ATNARTALVHITQKIITRN 266
             +A+ +L  +T+ ++ R+
Sbjct: 316 -GSAQQSLEQLTRLLLRRD 333

>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B* Length = 325

 Score =  204 bits (520), Expect = 9e-65
 Identities = 72/262 (27%), Positives = 125/262 (47%), Gaps = 39/262 (14%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
            A   E++H+ASL+HDD +D++D RRG  S+        AI  G  L++RAL  +A++ +
Sbjct: 69  TAVSLELVHMASLVHDDYIDNSDMRRGNTSVHIAFDKDTAIRTGHFLLARALQNIATINN 128

Query: 98  TEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
           ++                                Y+++   KTA L+  SC   A  S  
Sbjct: 129 SKFHQIFSKTILEVCFGEFDQMADRFNYPVSFTAYLRRINRKTAILIEASCHLGALSSQL 188

Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM---- 186
            E+      ++G  +G++YQ+IDDILD+T   A+LGK   +D+RNG IT P++ A+    
Sbjct: 189 DEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAIANLK 248

Query: 187 -EEFPQLRAFI-NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH 244
            ++  +L A + + +S +   V   +    K +GI+    L+ K+   A   +  L +  
Sbjct: 249 EQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGDKAKYHLSQLQD-- 306

Query: 245 DVDATNARTALVHITQKIITRN 266
               +N +  L  I +K++ R 
Sbjct: 307 ----SNIKDYLEEIHEKMLKRV 324

>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} Length = 345

 Score =  198 bits (506), Expect = 2e-62
 Identities = 70/260 (26%), Positives = 108/260 (41%), Gaps = 38/260 (14%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
           +A   E IH A+L+HDDV+D +  RRG  +   + G   ++L GD L +RA   +     
Sbjct: 90  LAAAVEFIHTATLLHDDVVDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELMVETNS 149

Query: 98  TEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
            + +                              Y++    KTA L + + +A A  +G 
Sbjct: 150 MKALEILARASRVIAEGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAASEAGAVSAGV 209

Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM---- 186
               +    +YG NLGLA+QL DD LD+ G + +LGK +  D R G  T P+L A+    
Sbjct: 210 DVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIARSG 269

Query: 187 -EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHD 245
             E       I       A+     E +  S  +  T +LA  +A  A AA+   P    
Sbjct: 270 PREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAALAMFPA--- 326

Query: 246 VDATNARTALVHITQKIITR 265
               + R AL  +    ++R
Sbjct: 327 ---NDWREALEELADFAVSR 343

>3lmd_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, protein structure initiative, nysgrc; 1.90A {Corynebacterium glutamicum} PDB: 3q2q_A* Length = 360

 Score =  197 bits (504), Expect = 8e-62
 Identities = 69/256 (26%), Positives = 120/256 (46%), Gaps = 35/256 (13%)

Query: 39  AEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHT 98
           A + E+ H+A+L HDDV+D+A  RRG+ S ++   N +AILAGD+L++ A   ++ L   
Sbjct: 101 AVVVEITHLATLYHDDVMDEASMRRGVPSANARWDNSVAILAGDILLAHASGLMSQLGTD 160

Query: 99  EV-------------------------IMECYMQKTYNKTAALVSNSCKAVAYLSGQREE 133
            V                          +E Y      KT  L++++    A  +G   E
Sbjct: 161 TVAHFAETFGELVTGQMRETVGPRDTDPIEHYTNVIREKTGVLIASAGYLGAMHAGAAPE 220

Query: 134 VATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM----EEF 189
                  +G  +G+ +Q++DDI+D    +   GK   TDLR G+ T P+L+A+       
Sbjct: 221 HIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVG 280

Query: 190 PQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDAT 249
            +LR  +    ++   V+ +LE L +S G Q   +   ++  +A A +D LP+      +
Sbjct: 281 AELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELDRLPD------S 334

Query: 250 NARTALVHITQKIITR 265
             + AL ++    + R
Sbjct: 335 TVKEALRNLATFTVKR 350

>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron} Length = 334

 Score =  196 bits (501), Expect = 8e-62
 Identities = 67/262 (25%), Positives = 116/262 (44%), Gaps = 39/262 (14%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
            A   E++H ASL+HDDV+D++  RRG  S++++  NK+++LAGD L++ +LV      +
Sbjct: 72  AAVSLELLHTASLVHDDVVDESTERRGQLSVNAIFNNKVSVLAGDYLLATSLVHAEQTNN 131

Query: 98  TEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
            E+I                            E Y      KTAAL +   +A A     
Sbjct: 132 YEIIRLVSSLGQKLAEGELLQLSNVSNHSFSEEVYFDVIRKKTAALFAACAEAAALSVQV 191

Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM---- 186
            EE    A   G+ +G+ +Q+ DDI D+   S  +GK +  D+  G +T P L+A+    
Sbjct: 192 GEEEVAFARLLGEYIGICFQIKDDIFDYFD-SKKIGKPTGNDMLEGKLTLPALYALNTTK 250

Query: 187 -EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHD 245
                Q+   +   +  P  +  ++E+   + GI+       ++   A   + +LP+   
Sbjct: 251 DAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLLAALPD--- 307

Query: 246 VDATNARTALVHITQKIITRNK 267
              +N   AL      ++ R K
Sbjct: 308 ---SNICLALRTYLDYVVAREK 326

>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} Length = 341

 Score =  192 bits (489), Expect = 8e-60
 Identities = 64/262 (24%), Positives = 115/262 (43%), Gaps = 38/262 (14%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
           +A   E IH A+L+HDDV+D++  RRG  + + +  NK ++L GD L +R+   +    +
Sbjct: 78  LAATVEFIHTATLLHDDVVDESRQRRGRPTANLLWDNKSSVLVGDYLFARSFQLMTDTGN 137

Query: 98  TEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
             V+                            + Y++    KTAAL S + +    + G 
Sbjct: 138 MRVMEILANASAVIAEGEVLQLTAAQNLATTEDIYLRVIRGKTAALFSAATEVGGIIGGA 197

Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM---- 186
            E+     F+YG  LG+A+Q++DD+LD+ G SA +GK +  D R   +T P++ A+    
Sbjct: 198 PEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKAVALAD 257

Query: 187 -EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHD 245
             E    +  I        +++  +  + K   ++ T   A+     A  A+  LP+   
Sbjct: 258 EAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKALAKLPD--- 314

Query: 246 VDATNARTALVHITQKIITRNK 267
                 R  L  +   ++ R +
Sbjct: 315 ---HPLRQMLDDLADYVVERVR 333

>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori} Length = 315

 Score =  184 bits (470), Expect = 3e-57
 Identities = 65/258 (25%), Positives = 114/258 (44%), Gaps = 42/258 (16%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL-- 95
           +  I EMI  ASL+HDDV+D A  RR + S++++ GN  A++ GD+  S+A   L+ +  
Sbjct: 62  LCTIVEMIQTASLLHDDVIDKATMRRKLPSINALFGNFNAVMLGDVFYSKAFFELSKMGE 121

Query: 96  ------------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQR 131
                                   +      + Y +   +KTA  +  S K++A L  + 
Sbjct: 122 LIAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLNKD 181

Query: 132 EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-P 190
            ++     ++G N G+A+Q+IDD+LD T  + +LGK + +D + G  T P L   E+   
Sbjct: 182 AKI---YADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKLNQ 238

Query: 191 QLRAFINS--SSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDA 248
             +  + S    D+   ++   E   +   I+ T + A  ++  A  AI           
Sbjct: 239 HDQGLLISYFKQDSHEIIEWTKEKFKQYGIIEETLKTAQVYSKKALEAIKGEN------- 291

Query: 249 TNARTALVHITQKIITRN 266
                 L  + Q +I+R 
Sbjct: 292 ---NLILEKLAQDVISRT 306

>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

 Score =  181 bits (461), Expect = 4e-56
 Identities = 57/243 (23%), Positives = 105/243 (43%), Gaps = 35/243 (14%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
                E++H+ASL+HDDV+D A  RRG  +++ + G+K A+ AGDL++  A   +  + +
Sbjct: 66  SLAALELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGN 125

Query: 98  TEVI--------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQR 131
            ++                            E Y++    K+ AL   + +  A L G+ 
Sbjct: 126 NKLRRAFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEGEL 185

Query: 132 EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQ 191
            E     +  G  +G  YQ+ DDI+DF G    +GK    DL+NG+ + P++ AME+FP+
Sbjct: 186 GED---LYNLGVTIGTIYQMFDDIMDFAGM-EKIGKDGFLDLKNGVASFPLVTAMEKFPE 241

Query: 192 LRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNA 251
            R    +      +   ++ ++ +   ++   E               L +  D      
Sbjct: 242 ARQMFEN-----RDWSGLMSFMREKGILKECEETLKVLVKNVIIENSWLRDFVDGIFKIK 296

Query: 252 RTA 254
            ++
Sbjct: 297 ISS 299

>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

 Score =  168 bits (429), Expect = 2e-51
 Identities = 54/262 (20%), Positives = 94/262 (35%), Gaps = 42/262 (16%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
           I E+TEM+H ASL+ DD+ D++  RRG     S+ G    I + + +    L  + +L H
Sbjct: 50  IIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTLDH 109

Query: 98  TEVI----------------------------MECYMQKTYNKTAALVSNSCKAVAYLSG 129
            + +                             E Y      KT  L   +   +   S 
Sbjct: 110 PDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSD 169

Query: 130 QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF 189
            +E++          LGL +Q+ DD  +      S  K+   DL  G  + P + A+   
Sbjct: 170 YKEDLK----PLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSR 225

Query: 190 P---QLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDV 246
           P   Q++  +   ++N       + YL      + T     +  + A   ID+       
Sbjct: 226 PESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNP-- 283

Query: 247 DATNARTALVH-ITQKIITRNK 267
                  ALV  +++     N+
Sbjct: 284 ----ELVALVKHLSKMFKEENE 301

>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii} Length = 342

 Score =  165 bits (421), Expect = 1e-49
 Identities = 71/272 (26%), Positives = 111/272 (40%), Gaps = 54/272 (19%)

Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL------- 95
           E+IH  SL+HDD++D  +TRRG  ++  + G  +AILAGDLL S+A  A+A         
Sbjct: 76  ELIHNYSLVHDDIMDMDETRRGKPTVHRIWGVNMAILAGDLLFSKAFEAVARAEIPPEKK 135

Query: 96  -------------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
                                    K + V +E YM+    KT AL   S K    +   
Sbjct: 136 ARVLEVIVKASNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGALFEASAKVGGIIGTD 195

Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME--- 187
            EE       +G+N+G+A+Q+ DD+LD       LGK   +D+R G  T  +    E   
Sbjct: 196 NEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKTLIVAHFFENAD 255

Query: 188 --EFPQLRAFINSSSDNP-----------ANVDVILEYLGKSHGIQRTTELALKHASLAA 234
             +  +        + +            ++V   ++ L K   I    E+A      A 
Sbjct: 256 EKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLKKYGSIDYAAEIAKDMIKKAN 315

Query: 235 AAIDSLPETHDVDATNARTALVHITQKIITRN 266
            A+  LP+      + AR  L  + + I+ R 
Sbjct: 316 EALRILPK------SKARMDLELLAKFIVERE 341

>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle, protein structure initiative II (PSI II), structural genomics, nysgxrc; 1.90A {Methanosarcina mazei} Length = 295

 Score =  163 bits (414), Expect = 4e-49
 Identities = 59/253 (23%), Positives = 91/253 (35%), Gaps = 62/253 (24%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL-- 95
            A   EM+H ASLIHDD+LD    RR + S     G   A+L GD LI++++  ++    
Sbjct: 67  AALAVEMMHSASLIHDDLLDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKSIAFISPYGE 126

Query: 96  -----------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQRE 132
                                  +        Y +  Y KTA+L + S    AY  G  E
Sbjct: 127 KVIQDFGKAGMDMAEGEVLDLKLEDESFGENDYFKCIYKKTASLFAISASIGAYTGGAEE 186

Query: 133 EVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQL 192
           E+A     +G  LG AYQ++DDIL+F             + +    T P ++        
Sbjct: 187 ELAERFSHFGNALGTAYQIVDDILEFL------EVVEGKESKFTSETLPHIYMKST---- 236

Query: 193 RAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNAR 252
                                 K   ++++ +    H + A   +++  E        AR
Sbjct: 237 ---------------------SKEEALKKSIDCVKLHVAAAKETLETFRE------CPAR 269

Query: 253 TALVHITQKIITR 265
             L  IT  I   
Sbjct: 270 DKLFQITDYITVD 282

>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; 1.65A {Pyrobaculum calidifontis} Length = 358

 Score =  163 bits (414), Expect = 1e-48
 Identities = 52/270 (19%), Positives = 90/270 (33%), Gaps = 55/270 (20%)

Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIM 102
           E+IH  SLI+DD++D  D RRG+ ++    G+  AIL G         A+       +  
Sbjct: 75  ELIHNYSLIYDDIIDRGDVRRGLPTVRKAFGDNAAILVGIWYREAIEEAVLDTPKPTLFA 134

Query: 103 EC----------------------------------------YMQKTYNKTAALVSNSCK 122
           +                                         Y++    KT AL++ + K
Sbjct: 135 KEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVSLKTGALIAAAAK 194

Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
                      +A  A+ +G   G+A+Q+IDD+LD  G     GK    D++       +
Sbjct: 195 WGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDIKEHKRGNAV 254

Query: 183 LFAM------EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAA 236
           +          E  +L   +       A+V   +  L      +    LA ++   A   
Sbjct: 255 VAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRLAARYREEAERH 314

Query: 237 IDSLPETHDVDATNARTALVHITQKIITRN 266
           +  +P             L  +   I+ R 
Sbjct: 315 LAKIPN---------NGTLKELLDFIVARE 335

>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; 2.20A {Streptomyces coelicolor} Length = 352

 Score =  161 bits (410), Expect = 5e-48
 Identities = 58/266 (21%), Positives = 108/266 (40%), Gaps = 46/266 (17%)

Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA---LVALASLKHTE 99
           E++H  SL+HDD++D  + RR   ++  V G   AIL GD L + A   L+ L +++   
Sbjct: 84  ELVHNFSLLHDDLMDGDEQRRHRDTVWKVHGPAQAILVGDALFALANEVLLELGTVEAGR 143

Query: 100 VI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQRE 132
                                        +E  ++   NKT AL++ +    A L G  E
Sbjct: 144 ATRRLTKASRSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASSIGAVLGGADE 203

Query: 133 EVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE-FPQ 191
             A    +YG +LGLA+Q +DD+L   G   + GK + +DLR    + P++ A+      
Sbjct: 204 RTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVVAALAAGGAA 263

Query: 192 LRAFI----------NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLP 241
                          + ++ +          + ++ G + T + A +  ++A  A+D++ 
Sbjct: 264 SERLGEILTADAKASDFANFSEEEFAARAALIEEAGGREWTADEARRQHTIAIEALDAVD 323

Query: 242 ETHDVDATNARTALVHITQKIITRNK 267
                     R     +   ++ R +
Sbjct: 324 MPDR-----VRDRFTALADFVVVRKR 344

>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_A Length = 289

 Score =  147 bits (373), Expect = 3e-43
 Identities = 46/211 (21%), Positives = 77/211 (36%), Gaps = 29/211 (13%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
            A   E++H ASL   D++D   TRRG  +   V GN+  I   + LI  AL  + +   
Sbjct: 74  GALAIEILHSASLALCDIVDLDATRRGDKAAWVVYGNRKVIFITNYLIPTALRIIQTSYG 133

Query: 98  TEVI--------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATL 137
            + +                       Y++    KT +L   S    AY S        +
Sbjct: 134 DDALNTSIELWKDTSVGALRDMYDNSDYIRTIELKTGSLFKLSTVLSAYASKHYNTKQQM 193

Query: 138 AFEYGKNLGLAYQLIDDILDFTGTSA----SLGKASLTDLRNGIITAPILFAMEEF-PQL 192
             + GK LG+ YQ+IDD +D+            K      R G +   +     E+  + 
Sbjct: 194 L-DVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGKLEEYVRSVYLEYKQKY 252

Query: 193 RAFINS---SSDNPANVDVILEYLGKSHGIQ 220
              I++    S   + +  + E+L      +
Sbjct: 253 DELISNIPFQSKYLSEIRSLPEFLANGLLKE 283

>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum calidifontis} Length = 285

 Score =  142 bits (359), Expect = 4e-41
 Identities = 46/220 (20%), Positives = 81/220 (36%), Gaps = 34/220 (15%)

Query: 39  AEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL--- 95
           A I E++HV SL+ DDV+D  D RRGI +  ++ G+  AI+A D LI+ ++    +L   
Sbjct: 74  AAIVELLHVVSLLQDDVMDQHDQRRGIKTPRAMYGDGRAIVASDWLIAESIKMAVNLGAD 133

Query: 96  ------KHTEVI--------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEY 141
                    + +             +    KTA L+  +      + G+RE + T   + 
Sbjct: 134 VVTYLADVAQRLSVGQALDLEGERDKAAEFKTAPLIEAALVMPLVILGRRELIETAK-KL 192

Query: 142 GKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM-----EEFPQLRAFI 196
           G  LG+ YQ  DD  D         K+   ++  G     I   +          ++  I
Sbjct: 193 GTKLGILYQYSDDYSDENVERPE-TKSIANEI--GRYLLKIKEHVGDAIAPFERLIKYLI 249

Query: 197 NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAA 236
             + +    V   +         +     +  H    +  
Sbjct: 250 GKALEGTLTVSRTIA--------ENLYFQSHHHHHHWSHP 281

>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

 Score =  142 bits (361), Expect = 7e-41
 Identities = 48/273 (17%), Positives = 94/273 (34%), Gaps = 46/273 (16%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
           +++I E++H +SL+ DD+ D+A  RRG  +   + G    I   + +  RA+  ++ L  
Sbjct: 65  VSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQLVSQLTT 124

Query: 98  -----------------------------------TEVIMECYMQKTYNKTAALVSNSCK 122
                                                   E Y+    NKT  L   + +
Sbjct: 125 KEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLFRLTLR 184

Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
            +  LS       +L   +   LG+ YQ+ DD L+      S  K    D+  G ++ PI
Sbjct: 185 LMEALSPSSHHGHSLV-PFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPI 243

Query: 183 LFAME------EFPQLRAFINSSSDNPANVDV---ILEYLGKSHG-IQRTTELALKHASL 232
           + A+       +  Q    +       ++ D+   +++ L      +  T     +  ++
Sbjct: 244 VHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAYTKNFINQLVNM 303

Query: 233 AAAAIDSLPETHDVDATNARTALVHITQKIITR 265
                ++         ++  T L      II  
Sbjct: 304 IKNDNENKYLPDLASHSDTATNLHDELLYIIDH 336

>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate synthase, structural genom riken structural genomics/proteomics initiative; 1.55A {Thermus thermophilus} Length = 330

 Score =  139 bits (353), Expect = 9e-40
 Identities = 58/265 (21%), Positives = 97/265 (36%), Gaps = 47/265 (17%)

Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH----- 97
           E+     L+HDD+ D ++ RRG  +L  +    LA+ AGD + +     LA         
Sbjct: 69  ELFQNWVLVHDDIEDGSEERRGRPALHRLHPMPLALNAGDAMHAEMWGLLAEGLARGLFP 128

Query: 98  -----------------------------TEVIMECYMQKTYNKTAAL-VSNSCKAVAYL 127
                                         ++  E Y +   +K A        +  A L
Sbjct: 129 PEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGALL 188

Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME 187
           +G+    A    E G  LG A+Q++DD+L+  G  A  GK    DL  G  T  +L  +E
Sbjct: 189 AGKTPPAA--YEEGGLRLGTAFQIVDDVLNLEGGEA-YGKERAGDLYEGKRTLILLRFLE 245

Query: 188 -----EFPQLRAFINSSSDN--PANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL 240
                E  +  A +    +    A V  +LE L  S  +      A +  +   A +++ 
Sbjct: 246 EAPPEERARALALLALPREAKPEAEVGWLLERLLASRALAWAKAEAKRLQAEGLALLEAA 305

Query: 241 PETHDVDATNARTALVHITQKIITR 265
            +  D+    A   L  +   ++ R
Sbjct: 306 FQ--DLPGKEALDHLRGLLAALVER 328

>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein structure initiative, geranylge pyrophosphate synthase; 1.90A {Corynebacterium glutamicum} PDB: 3qqv_A* Length = 380

 Score =  139 bits (352), Expect = 3e-39
 Identities = 62/282 (21%), Positives = 103/282 (36%), Gaps = 63/282 (22%)

Query: 43  EMIHVASLIHDDVLDDADTRRG----------------IGSLSSVMGNKLAILAGDLLIS 86
           E I   +LIHDD++D +DTRRG                        G  ++ILAGD+ + 
Sbjct: 98  EFIQACALIHDDIIDSSDTRRGAPTVHRAVEADHRANNFEGDPEHFGVSVSILAGDMALV 157

Query: 87  RALVALASLKH----------------TEVI----------------MECYMQKTYNKTA 114
            A   L                     TEVI                +E        KTA
Sbjct: 158 WAEDMLQDSGLSAEALARTRDAWRGMRTEVIGGQLLDIYLESHANESVELADSVNRFKTA 217

Query: 115 A-LVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDL 173
           A  ++      A ++G   ++      YG ++G+A+QL DD+L   G  A  GK +  D+
Sbjct: 218 AYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDI 277

Query: 174 RNGIITAPILFAM--------EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTEL 225
           R G  T  +  A+        E    +RA +   +  P ++ VI E++  +   +   + 
Sbjct: 278 REGKRTVLLALALQRADKQSPEAATAIRAGVGKVTS-PEDIAVITEHIRATGAEEEVEQR 336

Query: 226 ALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
             +      A +D +    +      R  L  +  +   R +
Sbjct: 337 ISQLTESGLAHLDDVDIPDE-----VRAQLRALAIRSTERRE 373

>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

 Score =  128 bits (324), Expect = 3e-35
 Identities = 47/268 (17%), Positives = 79/268 (29%), Gaps = 50/268 (18%)

Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
           E+   ASL+ DD++D + TRRG        G  L  +    L+  +              
Sbjct: 107 ELFQAASLVADDIMDQSLTRRGQLCWYKKEGVGLDAINDSFLLESSVYRVLKKYCRQRPY 166

Query: 89  ---LVALASLKHTEVI---------------------MECYMQKTYNKTAAL--VSNSCK 122
              L+ L      +                        E Y      KTA          
Sbjct: 167 YVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAA 226

Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
           A+  +    +E    A      +G  +Q+ DD LD  G  A  G    TD+++   +  +
Sbjct: 227 AMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGAVG-TDIQDNKCSWLV 285

Query: 183 LFAMEEF-PQLRAFI--NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDS 239
           +  ++   P+ R  +  N     P  V  + E            +            I+ 
Sbjct: 286 VQCLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELIEK 345

Query: 240 LPETHDVDATNARTALVHITQKIITRNK 267
                       +   + + QKI  R K
Sbjct: 346 HSN------RLPKEIFLGLAQKIYKRQK 367

>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

 Score =  116 bits (291), Expect = 2e-30
 Identities = 44/268 (16%), Positives = 78/268 (29%), Gaps = 50/268 (18%)

Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKL-AILAGDLLISRALVALASLK----- 96
           E++    L+ DD++D + TRRG        G  L AI   +LL +     L         
Sbjct: 114 ELLQAFFLVADDIMDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYRLLKLYCREQPY 173

Query: 97  -----------HTEVI---------------------MECYMQKTYNKTAALVSNSCKAV 124
                        +                        + Y      K+A        A 
Sbjct: 174 YLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLPIAA 233

Query: 125 AYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
           A        E+    A +    +G  +Q+ DD LD  G  +  GK   TD+++   +  +
Sbjct: 234 AMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIG-TDIQDNKCSWLV 292

Query: 183 LFAMEEF-PQLRAFI--NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDS 239
           +  ++   P+    +  N        V  +     +        +      S   A I+ 
Sbjct: 293 VQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQ 352

Query: 240 LPETHDVDATNARTALVHITQKIITRNK 267
                           + + +KI  R K
Sbjct: 353 YAAPL------PPAVFLGLARKIYKRRK 374

>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

 Score =  110 bits (277), Expect = 1e-28
 Identities = 38/280 (13%), Positives = 76/280 (27%), Gaps = 60/280 (21%)

Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH----- 97
           E +    L+ DD++D +  RRG        G        D +I ++   + +  +     
Sbjct: 88  EFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRP 147

Query: 98  ---------------------------------------------TEVIMECYMQKTYNK 112
                                                         E     Y +    K
Sbjct: 148 FLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYK 207

Query: 113 TAAL-VSNSCKAVAYLSGQ-REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASL 170
           T             ++S         L       +G  +Q+ DD++D       LGK   
Sbjct: 208 TTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGKVG- 266

Query: 171 TDLRNGIITAPILFAMEEF-PQLRAFI--NSSSDNPANVDVILEYLGKSHGIQRTTELAL 227
           TD+ +   +   +  + +      A    N    +PA V V+     +++          
Sbjct: 267 TDIEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEA 326

Query: 228 KHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
           +      + I+ L       +     ++  + +K   R K
Sbjct: 327 EVVREVESLIEQLKV----KSPTFAESVAVVWEKTHKRKK 362

>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

 Score =  107 bits (269), Expect = 3e-27
 Identities = 41/318 (12%), Positives = 85/318 (26%), Gaps = 60/318 (18%)

Query: 5   LLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRG 64
           + +A +L   +P  +           +         + E +    L+ DD++D++ TRRG
Sbjct: 78  IDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVEDDIMDNSVTRRG 137

Query: 65  IGSLSSVMGNKLAILAGDLLISRALVALASLKH--------------------------- 97
                      +     D L+ ++   + ++                             
Sbjct: 138 KPCWYRHPDVTVQCAINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNRVDYTTAVGQLY 197

Query: 98  -----------------------TEVIMECYMQKTYNKTAAL-VSNSCKAVAYLSGQR-E 132
                                   E  +  Y +    KTA             +S     
Sbjct: 198 DVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVMGLIVSEALPT 257

Query: 133 EVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-PQ 191
               +  E    +G  +Q+ DD++D       LGK   TD+++   +   +  + +    
Sbjct: 258 VDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGKVG-TDIQDAKCSWLAVTFLAKASSA 316

Query: 192 LRAFI--NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDAT 249
             A    N  S +   V  +     ++             A      I+ L         
Sbjct: 317 QVAEFKANYGSGDSEKVATVRRLYEEADLQGDYVAYEAAVAEQVKELIEKLRLCSP---- 372

Query: 250 NARTALVHITQKIITRNK 267
               ++  +  K   R K
Sbjct: 373 GFAASVETLWGKTYKRQK 390

>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid diphosphate synthase; 2.00A {Clostridium perfringens} Length = 324

 Score =  102 bits (257), Expect = 6e-26
 Identities = 54/185 (29%), Positives = 78/185 (42%), Gaps = 41/185 (22%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
           EMIH  SLIHDD+  +D+ D RRG  +   V G  +A+LAGD L++ A  ++   SL+  
Sbjct: 104 EMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLNEAMKILVDYSLEEG 163

Query: 99  EVIMEC-----------------------------------YMQKTYNKTAALVSNSCKA 123
           +  ++                                    YM     KT  L+  S  +
Sbjct: 164 KSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHL--KKTGELIKASIMS 221

Query: 124 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPIL 183
            A L+   E        +G  LGLA+Q+ DDILD  G +  LGK    D  +       +
Sbjct: 222 GAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNYITI 281

Query: 184 FAMEE 188
           F +EE
Sbjct: 282 FGLEE 286

>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium tumefaciens, structural GEN PSI-2, protein structure initiative; 1.60A {Agrobacterium tumefaciens} Length = 335

 Score =  100 bits (252), Expect = 3e-25
 Identities = 50/185 (27%), Positives = 80/185 (43%), Gaps = 41/185 (22%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHT-- 98
           E +H  SL+HDD+  +DD D RRG  ++        AILAGD L++ A   +AS  +   
Sbjct: 115 ECLHCYSLVHDDLPAMDDDDLRRGQPTVHRKFDEATAILAGDSLLTLAFDIIASDDNPLA 174

Query: 99  -----EVIMEC------------------------------YMQKTYNKTAALVSNSCKA 123
                 +++                                 +Q    KT AL+  +C+A
Sbjct: 175 AERKAALVISLARAAGIGGMAGGQALDLAAEKKAPDEDGIITLQA--MKTGALLRFACEA 232

Query: 124 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPIL 183
            A ++G  +        +G+ +GL++QL DD+LD T  +A++GKA+  D   G  T   L
Sbjct: 233 GAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVAL 292

Query: 184 FAMEE 188
                
Sbjct: 293 RGEAW 297

>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1 Length = 301

 Score =   99 bits (250), Expect = 4e-25
 Identities = 52/184 (28%), Positives = 78/184 (42%), Gaps = 40/184 (21%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
           EMIH  SLIHDD+  +D+ D RRG  +   V G   AILAGD L+++A  L++       
Sbjct: 72  EMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDDRLTD 131

Query: 99  EVIMEC----------------------------------YMQKTYNKTAALVSNSCKAV 124
           EV ++                                    + K   KT AL++ +  + 
Sbjct: 132 EVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHK--TKTGALLTFAVMSA 189

Query: 125 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 184
           A ++   +        Y  +LG+ +Q+ DD+LD  G  A LGK   +DL N   T   L 
Sbjct: 190 ADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLL 249

Query: 185 AMEE 188
             + 
Sbjct: 250 GKDG 253

>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis} Length = 302

 Score = 98.8 bits (247), Expect = 1e-24
 Identities = 60/183 (32%), Positives = 83/183 (45%), Gaps = 39/183 (21%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
           EMIH  SLIHDD+  +DD D RRG  +   V G   AILAGD L++ A  L++L+ L  +
Sbjct: 81  EMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTGAFQLLSLSQLGLS 140

Query: 99  EVI----------------------MEC-----------YMQKTYNKTAALVSNSCKAVA 125
           E +                      +E             + +   KT AL+  +  A  
Sbjct: 141 EKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELAAVHE--KKTGALIEFALIAGG 198

Query: 126 YLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFA 185
            L+ Q EEV  L  ++  + GLA+Q+ DD+LD T T A LGK    D      T P L  
Sbjct: 199 VLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTYPALLG 258

Query: 186 MEE 188
           +  
Sbjct: 259 IAG 261

>4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP} Length = 317

 Score = 98.8 bits (247), Expect = 2e-24
 Identities = 52/186 (27%), Positives = 78/186 (41%), Gaps = 43/186 (23%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHT-- 98
           E IH  SLIHDD+  +D+ + RRG  +         AILAGD L + A   L++      
Sbjct: 75  ESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDALQTFAFELLSNPTSAQP 134

Query: 99  EVIMEC----------------------------------YMQKTYNKTAALVSNSCKAV 124
           E+ ++                                    M    +KT AL+  S +  
Sbjct: 135 ELAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHV--HKTGALIKASVRMG 192

Query: 125 AYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
           A  +GQ   E++A L   Y   +GLA+Q+ DDI+D T  + +LGK   +D      T P 
Sbjct: 193 ALSTGQVKPEQLAKLD-AYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPK 251

Query: 183 LFAMEE 188
           L  ++ 
Sbjct: 252 LLGLDG 257

>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

 Score = 97.7 bits (244), Expect = 3e-24
 Identities = 56/188 (29%), Positives = 77/188 (40%), Gaps = 45/188 (23%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           E+IH  SL+HDD+  +DD D RRG  +         AILAGD L S A  AL     ++ 
Sbjct: 74  ELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAILAGDGLQSLAFSALLDPALSDA 133

Query: 101 IMEC--------------------------------------YMQKTYNKTAALVSNSCK 122
             E                                       YM +  +KT AL+  S  
Sbjct: 134 SAEIRLRMVTTLAQAAGPAGMVGGQAIDLGSVGLKLDQQALEYMHR--HKTGALIEASVI 191

Query: 123 AVAYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
             A  SG+  + E+  L   Y + +GLA+Q+ DDILD    +A+LGK    D+     T 
Sbjct: 192 LGALASGRAEKGELKALQ-TYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTY 250

Query: 181 PILFAMEE 188
           P L  +  
Sbjct: 251 PALLGLAA 258

>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus} Length = 324

 Score = 97.7 bits (244), Expect = 5e-24
 Identities = 53/188 (28%), Positives = 67/188 (35%), Gaps = 45/188 (23%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           E IHV SLIHDD+  +DD D RRG  +         AILAGD L + A   LA      V
Sbjct: 80  EFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAILAGDGLQALAFHVLAQDPSIAV 139

Query: 101 IMEC--------------------------------------YMQKTYNKTAALVSNSCK 122
             E                                        M     KT AL+  S +
Sbjct: 140 PAENRIAMIETLAKASGPAGMVGGQAIDLASVGKKLDLPGLENMHI--RKTGALIRASVR 197

Query: 123 AVAYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
                      E+   L   Y K +GLA+Q+ DDILD    + +LGK    D  +     
Sbjct: 198 LACLARPGLPAEQFDRLD-HYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNKPNY 256

Query: 181 PILFAMEE 188
           P L  +  
Sbjct: 257 PALLGLSG 264

>3m0g_A Farnesyl diphosphate synthase; structural genomics, protein structure initiative, NYSGXRC, biosynthesis, transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB: 3lvs_A Length = 297

 Score = 96.9 bits (242), Expect = 5e-24
 Identities = 50/186 (26%), Positives = 71/186 (38%), Gaps = 45/186 (24%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
           E +H  SL+HDD+  +D+ D RRG+ ++     +  A+LAGD L + A  L     L   
Sbjct: 71  EALHAYSLVHDDMPCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFELCTDPVLGSA 130

Query: 99  EVIMEC------------------------------------YMQKTYNKTAALVSNSCK 122
           E  +                                       +Q    KT AL+S + +
Sbjct: 131 ENRVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQA--GKTGALISFAAQ 188

Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
           A A L+G      T    Y   LGLA+Q+ DDILD  G   + GK    D      T   
Sbjct: 189 AGAILAGADRGPLT---AYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVS 245

Query: 183 LFAMEE 188
           L  +  
Sbjct: 246 LLGLAG 251

>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

 Score = 96.5 bits (241), Expect = 9e-24
 Identities = 56/188 (29%), Positives = 81/188 (43%), Gaps = 45/188 (23%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           E IH  SLIHDD+  +DD D RRG+ +     G   AILAGD L + A   L+     EV
Sbjct: 74  ECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDADMPEV 133

Query: 101 IMEC--------------------------------------YMQKTYNKTAALVSNSCK 122
                                                      + +  +KT AL+  + +
Sbjct: 134 SDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHR--HKTGALIRAAVR 191

Query: 123 AVAYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
             A  +G   R  +  L  +Y +++GLA+Q+ DDILD  G +A+LGK    D + G  T 
Sbjct: 192 LGALSAGDKGRRALPVLD-KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTY 250

Query: 181 PILFAMEE 188
           P L  +E+
Sbjct: 251 PALLGLEQ 258

>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.50A {Vibrio cholerae} Length = 302

 Score = 95.4 bits (238), Expect = 2e-23
 Identities = 48/187 (25%), Positives = 71/187 (37%), Gaps = 43/187 (22%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           E IH  SLIHDD+  +DD + RRG  +         AIL GD L + A   LA    +  
Sbjct: 80  ECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGDALQTLAFTILAEGDLSAA 139

Query: 101 IMEC--------------------------------------YMQKTYNKTAALVSNSCK 122
                                                      + +  NKT AL+  + +
Sbjct: 140 GETQRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELETIHR--NKTGALMRCAIR 197

Query: 123 AVAYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP 181
             A  +G++        + Y + +GLA+Q+ DDILD    + +LGK   +D      T P
Sbjct: 198 LGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYP 257

Query: 182 ILFAMEE 188
            L  +E 
Sbjct: 258 ALLGLEG 264

>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

 Score = 95.4 bits (238), Expect = 3e-23
 Identities = 46/183 (25%), Positives = 70/183 (38%), Gaps = 39/183 (21%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
           E++H  SLIHDD+  +D+   RRG  +     G  +A LAGD L++ A   +    L  T
Sbjct: 80  ELLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGLLTLAFQWLTATDLPAT 139

Query: 99  EVI----------------------MEC-----------YMQKTYNKTAALVSNSCKAVA 125
                                    ++             + K   KT AL+  + +A  
Sbjct: 140 MQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHK--EKTGALLHYAVQAGL 197

Query: 126 YLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFA 185
            L    E       ++    GLA+Q+ DDILD   + A +GKA+  D      T P    
Sbjct: 198 ILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYPGKLG 257

Query: 186 MEE 188
           +  
Sbjct: 258 LIG 260

>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural genomics protein structure initiative; 1.50A {Campylobacter jejuni} Length = 291

 Score = 93.8 bits (234), Expect = 8e-23
 Identities = 47/168 (27%), Positives = 71/168 (42%), Gaps = 39/168 (23%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
           E IH  SLIHDD+  +D+AD RRGI +L        AIL GD L + A  +++ A LK  
Sbjct: 70  EFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLSHAHLKDE 129

Query: 99  EVI----------------------MEC-----------YMQKTYNKTAALVSNSCKAVA 125
             I                                    ++    +KTA L++ + K   
Sbjct: 130 IKIKLIKTLAFNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHT--HKTARLIAAALKMGC 187

Query: 126 YLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDL 173
            +     E +   ++ G  LGL +Q+ DDI+D T +    GK +  D+
Sbjct: 188 EICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDI 235

>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp} Length = 313

 Score = 93.8 bits (234), Expect = 9e-23
 Identities = 45/188 (23%), Positives = 65/188 (34%), Gaps = 44/188 (23%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           E+ H  SLIHDD+  +D+ D RRG  S         AIL GD + + A+  L       +
Sbjct: 80  ELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGDGMQALAIEVLLMRLSPLL 139

Query: 101 IMEC---------------------------------------YMQKTYNKTAALVSNSC 121
                                                       +     KT  L+    
Sbjct: 140 PAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHL--LKTGKLILACF 197

Query: 122 KAVAYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
           + V     +  E    A   YGK++GL +Q+ DD LD    +  LGK   +D  N   T 
Sbjct: 198 EMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQKTTF 257

Query: 181 PILFAMEE 188
             LF  ++
Sbjct: 258 ATLFNKQQ 265

>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Helicobacter pylori} PDB: 3q1o_A* Length = 311

 Score = 93.1 bits (232), Expect = 2e-22
 Identities = 45/184 (24%), Positives = 76/184 (41%), Gaps = 42/184 (22%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLK-HTE 99
           E +H  SLIHDD+  +D+A  RR   +L +      A+L GD L + +   L++    + 
Sbjct: 84  ECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNALLESH 143

Query: 100 VIMEC----------------------------------YMQKTYNKTAALVSNSCKAVA 125
           +I+E                                   ++ +  +KTA L+S S     
Sbjct: 144 IIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHE--HKTAKLISASLIMGL 201

Query: 126 YLSGQR-EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 184
             SG + EE+      +G  +GL +Q++DDI+D T      GK +  D  +   +   L 
Sbjct: 202 VASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD--SAKNSFVNLL 259

Query: 185 AMEE 188
            +E 
Sbjct: 260 GLER 263

>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus} Length = 273

 Score = 86.6 bits (215), Expect = 2e-20
 Identities = 27/172 (15%), Positives = 49/172 (28%), Gaps = 42/172 (24%)

Query: 43  EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI- 101
            ++HVA+  H++ L   D       +       + +L GD +I   L  +A         
Sbjct: 75  HLMHVAAYTHEN-LPLTDGPMSKSEIQHKFDPNIELLTGDGIIPFGLELMARSMDPTRNN 133

Query: 102 ---------------------------MEC----------YMQKTYNKTAALVSNSCKAV 124
                                      +            Y+ K   K   L +      
Sbjct: 134 PDRILRAIIELTRVMGSEGIVEGQYHELGLNQLNDLELIEYVCK--KKEGTLHACGAACG 191

Query: 125 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILD-FTGTSASLGKASLTDLRN 175
           A L G  E+       +G  +G    L+      F G    L + ++ +L +
Sbjct: 192 AILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELES 243

>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

 Score = 86.9 bits (216), Expect = 3e-20
 Identities = 48/163 (29%), Positives = 70/163 (42%), Gaps = 45/163 (27%)

Query: 43  EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
           EMIH  SLIHDD+  +D+ D RRG  +   V G  +A+LAGD L+S A   LAS   +EV
Sbjct: 82  EMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVLAGDALLSFAFEHLASATSSEV 141

Query: 101 IMEC-----------------------------------------YMQKTYNKTAALVSN 119
                                                        ++    +KTAAL+  
Sbjct: 142 SPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHL--HKTAALLEA 199

Query: 120 SCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTS 162
           S      + G  +E      ++ + +GL +Q++DDILD T +S
Sbjct: 200 SAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS 242

>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

 Score = 75.8 bits (187), Expect = 3e-16
 Identities = 32/201 (15%), Positives = 57/201 (28%), Gaps = 57/201 (28%)

Query: 43  EMIHVASLIHDDV-LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI 101
            ++H A+ +H+ + L D        ++    G  + +L GD ++      LA        
Sbjct: 70  HLVHAAAYVHEHLPLTDGSRPVSKPAIQHKYGPNVELLTGDGIVPFGFELLAGSVDPART 129

Query: 102 -----------------------------MEC-----------YMQKTYNKTAALVSNSC 121
                                         E            Y+ K   K   + +   
Sbjct: 130 DDPDRILRVIIEISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCK--KKYGEMHACGA 187

Query: 122 KAVAYLSGQREEVATLAFEYGKNLGL---------AYQLIDDILD---FTGTSASLGKA- 168
              A L G  EE       +G   G          ++QLID+ +           LG   
Sbjct: 188 ACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELGGFH 247

Query: 169 -SLTDLRNGIITAPILFAMEE 188
               +L + ++  P L+A   
Sbjct: 248 GKNAELMSSLVAEPSLYAAHH 268

>2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MLY; 1.90A {Thermotoga maritima} Length = 284

 Score = 69.8 bits (170), Expect = 3e-14
 Identities = 46/180 (25%), Positives = 69/180 (38%), Gaps = 35/180 (19%)

Query: 38  IAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL 95
           +A   E+ H ASLIHDD+  +D+AD RRG  S     G  +A+LAGD L   A   ++ +
Sbjct: 71  VAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLFFLAFSQISXI 130

Query: 96  ----------------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYL 127
                                       +  EV  E   +     T AL +    A   L
Sbjct: 131 GNSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAPFIL 190

Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME 187
            G            G+  G+A+Q+ DD+ D  G+   +GK    D     +T      ++
Sbjct: 191 XGXDHTXMX---LLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD--TEXVTLVXXVGIQ 245

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 43.7 bits (102), Expect = 5e-05
 Identities = 38/288 (13%), Positives = 81/288 (28%), Gaps = 88/288 (30%)

Query: 6   LMATALNVCTPELSPNVL-GNTLILDL-------------RRRQQCIAEITEMIHVASLI 51
           L+   L+    +L   VL  N   L +               +     ++T +I  +SL 
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE-SSL- 363

Query: 52  HDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYN 111
             +VL+ A+ R+        M ++L++      I   L++L      +  +   + K + 
Sbjct: 364 --NVLEPAEYRK--------MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK 413

Query: 112 KTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLT 171
                                   +L  +  K       +    L+           +  
Sbjct: 414 Y-----------------------SLVEKQPKE--STISIPSIYLELKVKL-----ENEY 443

Query: 172 DLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSH--GIQRTTELA--- 226
            L   I+        + +   + F +     P        ++G  H   I+    +    
Sbjct: 444 ALHRSIV--------DHYNIPKTFDSDDLIPPYLDQYFYSHIGH-HLKNIEHPERMTLFR 494

Query: 227 ------------LKHASLAAAAIDSLPET-HDVDATNARTALVHITQK 261
                       ++H S A  A  S+  T   +     +    +I   
Sbjct: 495 MVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL-----KFYKPYICDN 537

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	267
3apz_A	348	Geranyl diphosphate synthase; prenyltransferase, a	100.0
3oyr_A	345	Trans-isoprenyl diphosphate synthase; isoprenyl sy	100.0
3mzv_A	341	Decaprenyl diphosphate synthase; transferase, stru	100.0
3rmg_A	334	Octaprenyl-diphosphate synthase; structural genomi	100.0
3nf2_A	352	Putative polyprenyl synthetase; isoprenyl diphosph	100.0
3lmd_A	360	Geranylgeranyl pyrophosphate synthase; isoprenyl d	100.0
3pko_A	334	Geranylgeranyl pyrophosphate synthase; isoprenyl d	100.0
1wy0_A	342	Geranylgeranyl pyrophosphate synthetase; pyrococcu	100.0
3aqb_B	325	Component B of hexaprenyl diphosphate synthase; pr	100.0
1wmw_A	330	Geranylgeranyl diphosphate synthetase; GGPP, preny	100.0
4dhd_A	358	Polyprenyl synthetase; isoprenoid synthesis, isopr	100.0
3lk5_A	380	Geranylgeranyl pyrophosphate synthase; structural	100.0
3tc1_A	315	Octaprenyl pyrophosphate synthase; all alpha-helic	100.0
2q80_A	301	Geranylgeranyl pyrophosphate synthetase; isoprenoi	100.0
2e8v_A	340	Geranylgeranyl pyrophosphate synthetase; prenyltra	100.0
1v4e_A	299	Octoprenyl-diphosphate synthase; trans-type prenyl	100.0
1yhl_A	362	Farnesyl pyrophosphate synthase; farnesyl diphosph	100.0
2qis_A	374	Farnesyl pyrophosphate synthetase; trans-prenyltra	100.0
1uby_A	367	FPS, farnesyl diphosphate synthase; transferase, i	100.0
3mav_A	395	Farnesyl pyrophosphate synthase; PV092040, structu	100.0
2ihi_A	395	Pyrophosphate synthase; PV092040, structural genom	100.0
1rtr_A	301	Geranyltranstransferase; 2.50A {Staphylococcus aur	100.0
4f62_A	317	Geranyltranstransferase; enzyme function initiativ	100.0
2her_A	368	Fragment, farnesyl pyrophosphate synthase; farnesy	100.0
3dyh_A	390	Farnesyl pyrophosphate synthase; protein-bisphosph	100.0
3lsn_A	304	Geranyltranstransferase; structural genomics, prot	100.0
3p8r_A	302	Geranyltranstransferase; isoprenyl synthase, struc	100.0
3uca_A	324	Geranyltranstransferase; isoprenoid synthesis, iso	100.0
3p8l_A	302	Geranyltranstransferase; isoprenyl synthase, struc	100.0
3ts7_A	324	Geranyltranstransferase; isoprenoid synthesis, far	100.0
2h8o_A	335	Geranyltranstransferase; geranyltransferase,agroba	100.0
1rqj_A	299	Geranyltranstransferase; bisphosphonate, isoprenyl	100.0
3m0g_A	297	Farnesyl diphosphate synthase; structural genomics	100.0
3lom_A	313	Geranyltranstransferase; geranyltransferase, struc	100.0
3pde_A	309	Farnesyl-diphosphate synthase; isoprenyl diphospha	100.0
2ftz_A	284	Geranyltranstransferase; TM0161, structural GE joi	100.0
3ipi_A	295	Geranyltranstransferase; isoprene biosynthesis, he	100.0
2q58_A	368	Fragment, farnesyl pyrophosphate synthase; farnesy	100.0
3llw_A	311	Geranyltranstransferase (ISPA); structural genomic	100.0
3npk_A	291	Geranyltranstransferase; isoprene biosynthesis, SG	100.0
2azj_A	289	Geranylgeranyl pyrophosphate synthetase; hexpps, t	100.0
2j1p_A	293	Geranylgeranyl pyrophosphate synthetase; transfera	100.0
4fp4_A	285	Polyprenyl synthetase; isoprenoid synthesis, isopr	100.0
3kra_B	274	Geranyl diphosphate synthase small subunit; prenyl	100.0
3qkc_B	273	Geranyl diphosphate synthase small subunit; struct	100.0
4hd1_A	294	Squalene synthase HPNC; MCSG, structural genomics,	94.74
3vj8_A	343	Squalene synthase; farnesyl-diphosphate farnesyltr	90.39
3acx_A	293	Dehydrosqualene synthase; CRTM, carotenoid biosynt	89.5

>3apz_A Geranyl diphosphate synthase; prenyltransferase, all alpha-helices fold, chroloplast, TRAN isoprenoid biosynthetic process; 2.60A {Arabidopsis thaliana} PDB: 3aq0_A*

Probab=100.00  E-value=9.4e-61  Score=439.36  Aligned_cols=266  Identities=68%  Similarity=0.994  Sum_probs=214.4

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|...+.+.++.......++..+.++.+|+++|+||+||||||||||+|++|||+||+|.+||+++|||+|
T Consensus        56 ~l~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~avEliH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~AIl~G  135 (348)
T 3apz_A           56 TILLLMATALDVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAG  135 (348)
T ss_dssp             HHHHHHHTTSCC--------------CHHHHHHHHHHHHHHHHHHHHHHHHHHC----------------CCHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHHhccccCCCCCCCCCCcHHHHhCchHHHHHH
Confidence            47888999988532210000000011234456789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||+++|++.++++.+.+++                           +++|++|+++|||+||++||++|++++|.+++.
T Consensus       136 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~  215 (348)
T 3apz_A          136 DFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEV  215 (348)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHTCCHHHHTCHHHHHHHHHHHHTHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHcchHHHHHHHHHHHHHHcCcCHHH
Confidence            99999999999887765433                           578999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLG  214 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~  214 (267)
                      .+.+.+||.++|++|||+||++|++++++.+|||.|+||++||+|||+++|++..+++++++.+...++++++++++++.
T Consensus       216 ~~~l~~~g~~lG~aFQi~DD~lD~~gd~~~~GK~~g~Dl~egK~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~  295 (348)
T 3apz_A          216 AVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLG  295 (348)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTTTCTTCSCCHHHHTTCCCHHHHHHHHHCTTHHHHHHTTTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccCChhhcCCcchhhHhCCChhHHHHHHHHcCHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999988899999888877889999999999


Q ss_pred             hcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          215 KSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       215 ~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      ++|+++++++.+++|.++|++.|+.+|.++.......++.|..|++++++|++
T Consensus       296 ~~g~l~~a~~~~~~~~~~A~~~L~~l~~~~~~~~~~~~~~L~~l~~~~~~R~~  348 (348)
T 3apz_A          296 KSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK  348 (348)
T ss_dssp             HTTHHHHHHHHHHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             HcChHHHHHHHHHHHHHHHHHHHHcCCCCcccccHHHHHHHHHHHHHHHhCcC
Confidence            99999999999999999999999999987511111168899999999999985

>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus}

Probab=100.00  E-value=3.8e-61  Score=440.18  Aligned_cols=242  Identities=30%  Similarity=0.422  Sum_probs=192.7

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 ..+.++++|+++|+||++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        71 ~l~ll~~~~~g~-----------------~~~~~~~~A~aiEliH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~AIl~G  133 (345)
T 3oyr_A           71 LMTVAAARLAGA-----------------DNDHFQKLAAAVEFIHTATLLHDDVVDGSQLRRGKVAAHLIWGGAQSVLVG  133 (345)
T ss_dssp             HHHHHHHHHTTC-----------------CSSTHHHHHHHHHHHHHHHHHTTTTC---------CCCSCCTTHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHCcccCCCCCCCCCccHHHhhCHHHHHHHH
Confidence            378889999985                 225688999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||+++||+.+++..+++++                           +++|++|+.+|||+||++||++|++++|++++.
T Consensus       134 D~Ll~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~  213 (345)
T 3oyr_A          134 DFLFARAFELMVETNSMKALEILARASRVIAEGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAASEAGAVSAGVDVAK  213 (345)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHTSSCSSCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHcchHHHHHHHHHHHHHHcCCCHHH
Confidence            99999999999988775543                           688999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC-hH----HHHHhccCCCChhhHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-PQ----LRAFINSSSDNPANVDVI  209 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~-~~----~~~~l~~~~~~~~~~~~i  209 (267)
                      .+.+++||+++|++|||+||++|++++++.+|||+|+||++||+|||++++++.. ++    +++++.+...++++++++
T Consensus       214 ~~~l~~~g~~lG~aFQi~DD~lD~~~d~~~~GK~~g~Dl~egK~TlP~i~al~~~~~~~~~~l~~~l~~~~~~~~~~~~v  293 (345)
T 3oyr_A          214 SEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIARSGPREAEFWERAIGRREQTEADFRRA  293 (345)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTC-------------------CCHHHHHHHHHSCSHHHHHHHHHCC----CCSSHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCChhhcCCCccchhhcCchHHHHHHHHHhCCHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999874 33    445556555677899999


Q ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhcc
Q 024463          210 LEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRN  266 (267)
Q Consensus       210 ~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~  266 (267)
                      +++++++|+++++++.+++|.++|++.|+.+|+++      .|+.|.+|++++++|+
T Consensus       294 ~~~i~~~gale~a~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~la~~~~~R~  344 (345)
T 3oyr_A          294 RELIIGSGALDATLDLAADYADKAKAALAMFPAND------WREALEELADFAVSRR  344 (345)
T ss_dssp             HHHHHHTTHHHHHHHHHHHHHHHHHHTTTTSCSSH------HHHHHHHHHHHHHHC-
T ss_pred             HHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCCcH------HHHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999988      9999999999999996

>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus}

Probab=100.00  E-value=9.9e-61  Score=437.27  Aligned_cols=243  Identities=27%  Similarity=0.443  Sum_probs=208.5

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 ..+.+.++|+++|+||++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        59 ~l~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~asLiHDDI~D~s~~RRG~pt~h~~~G~~~AIl~G  121 (341)
T 3mzv_A           59 MLTLAAARLVGY-----------------GGPFHVHLAATVEFIHTATLLHDDVVDESRQRRGRPTANLLWDNKSSVLVG  121 (341)
T ss_dssp             HHHHHHHHHTTC-----------------CCSHHHHHHHHHHHHHHHHHHHHHC------CTTSCCHHHHSCHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHcCccCCCCCcCCCccHHHhcChHHHHHHH
Confidence            468888898875                 235789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||+++||+.+++..+++++                           +++|++|+.+|||+||++||++|++++|++++.
T Consensus       122 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~~~~t~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~  201 (341)
T 3mzv_A          122 DYLFARSFQLMTDTGNMRVMEILANASAVIAEGEVLQLTAAQNLATTEDIYLRVIRGKTAALFSAATEVGGIIGGAPEDQ  201 (341)
T ss_dssp             HHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHHHHHHHHHHTTCTTCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHcchHHHHHHHHHHHHHHcCCCHHH
Confidence            99999999999987765433                           688999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhCh-----HHHHHhccCCCChhhHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP-----QLRAFINSSSDNPANVDVI  209 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~-----~~~~~l~~~~~~~~~~~~i  209 (267)
                      .+.++.||+++|++|||+||++|++++++.+||+.|+||++||+|||++++++..+     .+++++.+...++++++++
T Consensus       202 ~~~l~~~g~~lG~aFQI~DD~ld~~~d~~~~GK~~g~Dl~egK~Tlp~i~al~~~~~~~~~~l~~~l~~~~~~~~~~~~i  281 (341)
T 3mzv_A          202 VQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKAVALADEAERAFWKRVIEKGDQQDGDLEHA  281 (341)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHC----------CCHHHHTTCCCHHHHHHHHTCCHHHHHHHHHHTTSCCCCTTHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCChhhcCCCCCcccccCchhHHHHHHHHhCCHhHHHHHHHHHcCCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999753     2456666666678899999


Q ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          210 LEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       210 ~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      +++++++|+++++++.+++|.++|++.|+.+|+++      .|+.|.+|++++++|+.
T Consensus       282 ~~~l~~~ga~~~a~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~la~~~~~r~~  333 (341)
T 3mzv_A          282 MALMTKHGTLEATRLAAIGWTDTARKALAKLPDHP------LRQMLDDLADYVVERVR  333 (341)
T ss_dssp             HHHHHHTTHHHHHHHHHHHHHHHHHHHHTTSCCCH------HHHHHHHHHHHHTGGGC
T ss_pred             HHHHHHcCHHHHHHHHHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHHhccc
Confidence            99999999999999999999999999999999988      99999999999999963

>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron}

Probab=100.00  E-value=2.3e-60  Score=433.97  Aligned_cols=242  Identities=29%  Similarity=0.446  Sum_probs=209.2

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 .++.++++|+++|+||+||||||||||+|++|||+||+|.+||+++|||+|
T Consensus        53 ~l~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~asLiHDDI~D~s~~RRG~pt~h~~~G~~~AIl~G  115 (334)
T 3rmg_A           53 ILVLLVARLYGA-----------------VTPATLHAAVSLELLHTASLVHDDVVDESTERRGQLSVNAIFNNKVSVLAG  115 (334)
T ss_dssp             HHHHHHHHHHSC-----------------CCHHHHHHHHHHHHHHHHHHHHHHHHC---------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------ChHHHHHHHHHHHHHHHHHHHHcCccCCCCCcCCCccHHHhcChHHHHHHH
Confidence            368888888875                 347899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||+++|++.+++..+++++                           +++|++|+.+|||+||++||++|++++|++++.
T Consensus       116 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~~~~t~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~  195 (334)
T 3rmg_A          116 DYLLATSLVHAEQTNNYEIIRLVSSLGQKLAEGELLQLSNVSNHSFSEEVYFDVIRKKTAALFAACAEAAALSVQVGEEE  195 (334)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHTHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHcCChHHHHHHHHHHHHHHcCCCHHH
Confidence            99999999999887665433                           688999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC-----hHHHHHhccCCCChhhHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-----PQLRAFINSSSDNPANVDVI  209 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~-----~~~~~~l~~~~~~~~~~~~i  209 (267)
                      .+.++.||.++|++|||+||++|++ +++.+|||+|+||++||+|||++++++..     +.+.+++.+...++++++++
T Consensus       196 ~~~l~~~g~~lG~aFQi~DD~ld~~-~~~~~GK~~g~Dl~egK~T~p~i~al~~~~~~~~~~L~~~l~~~~~~~~~~~~v  274 (334)
T 3rmg_A          196 VAFARLLGEYIGICFQIKDDIFDYF-DSKKIGKPTGNDMLEGKLTLPALYALNTTKDAWAEQIAFKVKEGTATPDEIVRL  274 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTS-CC------CCHHHHTTCCCHHHHHHHHHHCCHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCC-ChhhcCCCchhhhhcCchHHHHHHHHHhCChhhHHHHHHHHcCCCCCHHHHHHH
Confidence            9999999999999999999999999 57889999999999999999999999874     24667777777889999999


Q ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          210 LEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       210 ~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      +++++++|+++++++.+++|.++|++.|+.+|+++      .|+.|..|++++++|++
T Consensus       275 ~~~i~~~g~~~~a~~~~~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~~  326 (334)
T 3rmg_A          275 IEFTKDNGGIEYACRTIEQYKKKAFDLLAALPDSN------ICLALRTYLDYVVAREK  326 (334)
T ss_dssp             HHHHHHTTHHHHHHHHHHHHHHHHHHHHTTSCCCH------HHHHHHHHHHHHHHCC-
T ss_pred             HHHHHHcChHHHHHHHHHHHHHHHHHHHHhCCCcH------HHHHHHHHHHHHHhccc
Confidence            99999999999999999999999999999999888      89999999999999964

>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; 2.20A {Streptomyces coelicolor}

Probab=100.00  E-value=2.7e-60  Score=435.83  Aligned_cols=243  Identities=26%  Similarity=0.347  Sum_probs=219.9

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 .++.++++|+++|+||++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        60 ~l~ll~~~~~g~-----------------~~~~~~~~A~avEliH~asLiHDDI~D~s~~RRG~pt~h~~~G~~~AIl~G  122 (352)
T 3nf2_A           60 ALAVLSAEVTGA-----------------APEVGVPGAVAVELVHNFSLLHDDLMDGDEQRRHRDTVWKVHGPAQAILVG  122 (352)
T ss_dssp             HHHHHHHHTTTC-----------------CGGGGHHHHHHHHHHHHHHHHHHHHHHTCCEETTEECHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHcCC-----------------CHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCCCccHHHhcChHHHHHHH
Confidence            367888888875                 335689999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCh---hHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCC
Q 024463           82 DLLISRALVALASLKHT---EVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQR  131 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~---~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~  131 (267)
                      |||+++|++.+++.+++   +++                           +++|++|+++|||+||++||++|++++|++
T Consensus       123 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~l~~GQ~~dl~~~~~~~~t~~~y~~~i~~KTa~L~~~~~~~ga~lag~~  202 (352)
T 3nf2_A          123 DALFALANEVLLELGTVEAGRATRRLTKASRSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASSIGAVLGGAD  202 (352)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCCHHHHHHHHHcccHHHHHHHHHHHHHHcCCC
Confidence            99999999999998775   222                           688999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC-h---HHHHHhccC-------C
Q 024463          132 EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-P---QLRAFINSS-------S  200 (267)
Q Consensus       132 ~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~-~---~~~~~l~~~-------~  200 (267)
                      ++..+.++.||++||++|||+||++|++++++.+|||.|+||++||+|||++++++.. +   ++.+++.+.       .
T Consensus       203 ~~~~~~l~~~g~~lG~aFQi~DD~ld~~gd~~~~GK~~g~Dl~egK~Tlpvi~al~~~~~~~~~L~~~l~~~~~~~~~~~  282 (352)
T 3nf2_A          203 ERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVVAALAAGGAASERLGEILTADAKASDFAN  282 (352)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHSSCTTHHHHTTCCCHHHHHHHHHCSHHHHHHHHHHHHHHTCTTGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCChhhhCCCcCcccccCCccHHHHHHHHhCChHHHHHHHHHhccccccccCC
Confidence            9999999999999999999999999999999999999999999999999999999974 3   455666543       2


Q ss_pred             CChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhcc
Q 024463          201 DNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRN  266 (267)
Q Consensus       201 ~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~  266 (267)
                      .+++++++++++++++|+++++++++++|.++|++.|+.+|++..     .|+.|..|++++++|+
T Consensus       283 ~~~~~~~~~~~li~~~g~~~~a~~~a~~~~~~A~~~L~~lp~~~~-----~r~~L~~la~~~~~R~  343 (352)
T 3nf2_A          283 FSEEEFAARAALIEEAGGREWTADEARRQHTIAIEALDAVDMPDR-----VRDRFTALADFVVVRK  343 (352)
T ss_dssp             CCHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHTTSCCCHH-----HHHHHHHHHHHHCC--
T ss_pred             CCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCCcH-----HHHHHHHHHHHHHhcc
Confidence            467889999999999999999999999999999999999998432     8999999999999986

>3lmd_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, protein structure initiative, nysgrc; 1.90A {Corynebacterium glutamicum} PDB: 3q2q_A*

Probab=100.00  E-value=4.4e-60  Score=434.88  Aligned_cols=243  Identities=30%  Similarity=0.467  Sum_probs=204.5

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .++++.++++|.                +..+.++++|+++|+||++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        80 ~L~ll~~~~~~~----------------~~~~~~~~~A~avEliH~asLIHDDImD~s~~RRG~pt~h~~~G~~~AIlaG  143 (360)
T 3lmd_A           80 MFALLASEFGEK----------------PLSENVIKAAVVVEITHLATLYHDDVMDEASMRRGVPSANARWDNSVAILAG  143 (360)
T ss_dssp             HHHHHHHTTSSS----------------TTCHHHHHHHHHHHHHHHHHHHHHHHHC-----------CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC----------------CChHHHHHHHHHHHHHHHHHHHhCCCcCCCCCCCCCCcHHhhcChHHHHHHH
Confidence            366777777762                1346889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH--------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHH
Q 024463           82 DLLISRALVALASLKHTEVI--------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVA  135 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~--------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~  135 (267)
                      |||+++||+.++++++ +.+                          +++|++|+++|||+||++||++|++++|++++..
T Consensus       144 D~Ll~~A~~~l~~~~~-~~~~~~~~~~~~~~~GQ~ldl~~~~~~~t~~~y~~~i~~KTg~L~~~a~~lga~laga~~~~~  222 (360)
T 3lmd_A          144 DILLAHASGLMSQLGT-DTVAHFAETFGELVTGQMRETVGPRDTDPIEHYTNVIREKTGVLIASAGYLGAMHAGAAPEHI  222 (360)
T ss_dssp             HHHHHHHHHHHHHHCH-HHHHHHHHHHHHHHHHHHHHHHCCTTSCHHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHHHHHHHHHHCCH-HHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhhhHHHHHHHHHHHHHHcCCCHHHH
Confidence            9999999999887653 322                          5789999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC----hHHHHHhccCCCChhhHHHHHH
Q 024463          136 TLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF----PQLRAFINSSSDNPANVDVILE  211 (267)
Q Consensus       136 ~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~----~~~~~~l~~~~~~~~~~~~i~~  211 (267)
                      +.+++||++||++|||+||++|++++++.+||+.|+||++||+|||++++++..    +++++++.+...++++++++++
T Consensus       223 ~~l~~~g~~lG~aFQI~DDilD~~~d~~~~GK~~g~Dl~egK~Tlp~l~al~~~~~~~~~L~~~l~~~~~~~~~~~~~~~  302 (360)
T 3lmd_A          223 DALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVGAELRDILTGPLEDDETVNHVLE  302 (360)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHC--------CCHHHHHTCCCHHHHHHHHCCSHHHHHHHHHCSSCCCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHccCChhhhCCCchhHHhcCCchHHHHHHHHcCCchHHHHHHHHcCCCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999874    3577788877778899999999


Q ss_pred             HHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          212 YLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       212 ~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      +++++|+++++++.+++|.++|++.|+.+|+++      .++.|.+|++++++|+.
T Consensus       303 ll~~~gal~~a~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~La~~~~~R~~  352 (360)
T 3lmd_A          303 LLSQSGGRQAALDEVYRYMDIANAELDRLPDST------VKEALRNLATFTVKRVG  352 (360)
T ss_dssp             HHHHSSHHHHHHHHHHHHHHHHHHHHTTSCCSH------HHHHHHHHHHHHHHTTS
T ss_pred             HHHHCCHHHHHHHHHHHHHHHHHHHHHhCCCcH------HHHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999987      89999999999999963

>3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus brevis} PDB: 3n3d_A

Probab=100.00  E-value=5.2e-60  Score=431.56  Aligned_cols=231  Identities=29%  Similarity=0.499  Sum_probs=215.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHHHHHHHHHHHHHHcCCC-hhHH--------
Q 024463           31 LRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH-TEVI--------  101 (267)
Q Consensus        31 ~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~~l~~~~~-~~~~--------  101 (267)
                      .++.+.++|+++|+||++|||||||||+|++|||+||+|.+||+++|||+||||+++||+.+++..+ ++.+        
T Consensus        74 ~~~~~~~~A~aiEliH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~  153 (334)
T 3pko_A           74 TPAQLQAGAAAIEILHVGTLIHDDVIDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLKSTTDRSLIQNHIDAMH  153 (334)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEETTEECHHHHHCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhCccCCCCCCcCCCccHHHHcCchHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence            4578999999999999999999999999999999999999999999999999999999999988654 4322        


Q ss_pred             -------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCc
Q 024463          102 -------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTS  162 (267)
Q Consensus       102 -------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~  162 (267)
                                         +++|++|+.+|||+||++||++|++++|++++..+.+++||+++|++|||+||++|+++++
T Consensus       154 ~~~~Gq~~dl~~~~~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~  233 (334)
T 3pko_A          154 RILQGELHQMDLNYREDITLDAYLNEIAGKTAELFALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDP  233 (334)
T ss_dssp             HHHHHHHHHHHTTTCTTCCHHHHHHHHHHTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCT
T ss_pred             HHHHHHHHHHHhccCCCCCHHHHHHHHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCh
Confidence                               6789999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCCcccccccCcccHHHHHHhhhCh-HHHHHhc-cCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcC
Q 024463          163 ASLGKASLTDLRNGIITAPILFAMEEFP-QLRAFIN-SSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL  240 (267)
Q Consensus       163 ~~~GK~~~~Dl~~gk~Tlp~l~al~~~~-~~~~~l~-~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~l  240 (267)
                      +.+|||+|+||++||+|||++++++..+ ++++++. +...+++++++++++++++|+++++++.++++.++|++.|+.+
T Consensus       234 ~~~GK~~g~Dl~egK~Tlp~i~al~~~~~~l~~~l~~~~~~~~~~~~~i~~li~~~ga~~~a~~~~~~~~~~A~~~L~~l  313 (334)
T 3pko_A          234 KRTQKPVLEDLRSGVYSLPLLLSLSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQL  313 (334)
T ss_dssp             TSCCHHHHHHHHTTCCCHHHHHHGGGSHHHHHHHHTTGGGCCHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             hhcCCCCCCccccCchhHHHHHHHHhCcHHHHHHHhcCCCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999865 6777774 4446788999999999999999999999999999999999999


Q ss_pred             CCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          241 PETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       241 p~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      |.++      .++.|..|++++++|++
T Consensus       314 p~~~------~~~~L~~l~~~~~~R~~  334 (334)
T 3pko_A          314 PVGS------AQQSLEQLTRLLLRRDH  334 (334)
T ss_dssp             CSSH------HHHHHHHHHHHHTTCC-
T ss_pred             CCcH------HHHHHHHHHHHHHhccC
Confidence            9987      89999999999999975

>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii}

Probab=100.00  E-value=1e-59  Score=431.59  Aligned_cols=242  Identities=31%  Similarity=0.407  Sum_probs=216.3

Q ss_pred             HHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHHH
Q 024463            3 VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGD   82 (267)
Q Consensus         3 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~Gd   82 (267)
                      +++++++++|.                 .++.++++|+++|+||+||||||||||+|++|||+||+|.+||+++|||+||
T Consensus        53 l~l~~~~~~g~-----------------~~~~~~~~A~avEliH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~AIl~GD  115 (342)
T 1wy0_A           53 VVLTSTEAVGG-----------------DPLRAIYPAVAIELIHNYSLVHDDIMDMDETRRGKPTVHRIWGVNMAILAGD  115 (342)
T ss_dssp             HHHHHTTTTTS-----------------CGGGGHHHHHHHHHHHHHHHHHHHHHHTCCCSTTSCCHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHcCC-----------------CHHHHHHHHHHHHHHHHHHHHHCCcccCCCCCCCCCccccccChhHHHHHHH
Confidence            56777777764                 2356789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCC-----ChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCC
Q 024463           83 LLISRALVALASLK-----HTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ  130 (267)
Q Consensus        83 ~Ll~~a~~~l~~~~-----~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~  130 (267)
                      ||+++||+.+++..     +.+++                           +++|++|+++|||+||.+||++|++++|+
T Consensus       116 ~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~  195 (342)
T 1wy0_A          116 LLFSKAFEAVARAEIPPEKKARVLEVIVKASNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGALFEASAKVGGIIGTD  195 (342)
T ss_dssp             HHHHHHHHHHHTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHcccCcccHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCC
Confidence            99999999999873     22221                           68899999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC-hHHHHHhccCCC--------
Q 024463          131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-PQLRAFINSSSD--------  201 (267)
Q Consensus       131 ~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~-~~~~~~l~~~~~--------  201 (267)
                      +++..+.+.+||.++|++|||+||++|++++++.+|||.|+||++||+|||++++++.. +..++.+.+.+.        
T Consensus       196 ~~~~~~~l~~~g~~lG~aFQI~DD~lD~~~d~~~~GK~~g~Dl~egK~Tlp~i~al~~~~~~~~~~l~~~~~~~~~~~~~  275 (342)
T 1wy0_A          196 NEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKTLIVAHFFENADEKDKQRFLKIFGKYAGDVKG  275 (342)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHTSCSCHHHHHTCCCHHHHHHHHHCCHHHHHHHHHTSCC-------
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHhccCChhhhCCCchhHHhCCCCcHHHHHHHHhCCHhHHHHHHHHHccccccccc
Confidence            99999999999999999999999999999999999999999999999999999999875 344444443332        


Q ss_pred             -------ChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          202 -------NPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       202 -------~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                             +.++++++++++.++|+++++++.++++.++|++.|+.+|.++      .++.|..+++++++|++
T Consensus       276 ~g~~~~~~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~A~~~L~~l~~~~------~~~~L~~l~~~~~~R~~  342 (342)
T 1wy0_A          276 RGIIEEDIKSDVMEAIDLLKKYGSIDYAAEIAKDMIKKANEALRILPKSK------ARMDLELLAKFIVEREY  342 (342)
T ss_dssp             ------CHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHTTGGGSCCCH------HHHHHHHHHHHTTTCC-
T ss_pred             ccccccCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCcH------HHHHHHHHHHHHHhccC
Confidence                   3568899999999999999999999999999999999999877      89999999999999975

>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*

Probab=100.00  E-value=4.4e-59  Score=424.54  Aligned_cols=241  Identities=30%  Similarity=0.470  Sum_probs=219.2

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 .++.++++|+++|++|+||||||||||+|++|||+||+|.+||+++|||+|
T Consensus        50 ~l~l~~~~~~g~-----------------~~~~~~~~A~avEliH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~AIl~G  112 (325)
T 3aqb_B           50 MFVLLSGFLNDT-----------------QKDDLIRTAVSLELVHMASLVHDDYIDNSDMRRGNTSVHIAFDKDTAIRTG  112 (325)
T ss_dssp             HHHHHHHTTSSC-----------------CCHHHHHHHHHHHHHHHHHHHHHHHHHTCCEETTEECHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------ChHHHHHHHHHHHHHHHHHHHhCccccCCCCCCCCCCcccccChHHHHHHH
Confidence            367778888764                 235789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH---------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           82 DLLISRALVALASLKHTEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~---------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      |||+++|++.+++..+++++                           +++|++|+.+|||+||++||++|++++|++++.
T Consensus       113 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~  192 (325)
T 3aqb_B          113 HFLLARALQNIATINNSKFHQIFSKTILEVCFGEFDQMADRFNYPVSFTAYLRRINRKTAILIEASCHLGALSSQLDEQS  192 (325)
T ss_dssp             HHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCHHHHHHHHHHHTHHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHcccCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHcCCCHHH
Confidence            99999999999887665433                           688999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhCh-----HHH---HHhccCCCChhhH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP-----QLR---AFINSSSDNPANV  206 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~-----~~~---~~l~~~~~~~~~~  206 (267)
                      .+.+.+||.++|++|||+||++|++++++.+|||.|+||++||+|||++++++..+     .+.   +++.+... ++++
T Consensus       193 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~g~Dl~~gk~T~p~i~al~~~~~~~~~~l~~~~~~~~~~~~-~~~~  271 (325)
T 3aqb_B          193 TYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAIANLKEQDDDKLEAVVKHLTSTSD-DEVY  271 (325)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSSCTTHHHHTTCCCHHHHHHHHHHHHTTCCHHHHHHHTCCTTCC-HHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCChhhcCCccchHhhCCCccHHHHHHHHhCCHHHHHHHHHHHHHHcCCCC-HHHH
Confidence            99999999999999999999999999999999999999999999999999998743     244   55544332 6789


Q ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          207 DVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       207 ~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      +++++++.++ +++++++.++++.++|++.|+.+|.++      .|+.|..+++++++|++
T Consensus       272 ~~i~~~~~~~-~~~~~~~~~~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~R~~  325 (325)
T 3aqb_B          272 QYIVSQVKQY-GIEPAELLSRKYGDKAKYHLSQLQDSN------IKDYLEEIHEKMLKRVY  325 (325)
T ss_dssp             HHHHHHHHHH-THHHHHHHHHHHHHHHHHHHHTSCCCH------HHHHHHHHHHHHTTTTC
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhCCCcH------HHHHHHHHHHHHHhCcC
Confidence            9999999999 999999999999999999999999887      89999999999999975

>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate synthase, structural genom riken structural genomics/proteomics initiative; 1.55A {Thermus thermophilus}

Probab=100.00  E-value=3.9e-58  Score=419.10  Aligned_cols=240  Identities=27%  Similarity=0.303  Sum_probs=211.9

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 .++.++.+|+++|+||++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        45 ~l~l~~~~~~~~-----------------~~~~~~~~A~avEliH~asLihDDi~D~s~~RRG~pt~h~~~G~~~AIl~G  107 (330)
T 1wmw_A           45 LLTVYSALAHGA-----------------PLEAGLEAATALELFQNWVLVHDDIEDGSEERRGRPALHRLHPMPLALNAG  107 (330)
T ss_dssp             HHHHHHHHHTTC-----------------CHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEETTEECHHHHSCHHHHHHHH
T ss_pred             HHHHHHHHHcCC-----------------CHHHHHHHHHHHHHHHHHHHHHcccccCCCCCCCCCccccccCchHHHHHH
Confidence            367888888864                 346789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCC-----hhHH-----------------------------HHHHHHHHhchHHHH-HHHHHHHHHH
Q 024463           82 DLLISRALVALASLKH-----TEVI-----------------------------MECYMQKTYNKTAAL-VSNSCKAVAY  126 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~-----~~~~-----------------------------~~~y~~~~~~KTa~l-~~~~~~~ga~  126 (267)
                      |||+++|++.+++..+     .+++                             +++|++|+++|||+| |++||++|++
T Consensus       108 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~~~~~~~~~~y~~~i~~KTa~Ls~~~~~~~ga~  187 (330)
T 1wmw_A          108 DAMHAEMWGLLAEGLARGLFPPEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGAL  187 (330)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHHHHHHHHHHSSSCCCCHHHHHHHHHHHTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHHccccHHHHHHHHHHHHH
Confidence            9999999998876422     2221                             367999999999999 9999999999


Q ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhCh-H----HHHHhccCCC
Q 024463          127 LSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP-Q----LRAFINSSSD  201 (267)
Q Consensus       127 la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~-~----~~~~l~~~~~  201 (267)
                      ++|.+++..  +++||.++|++|||+||++|++++++ +||+.|+||++||+|||++++++..+ +    +.+.+.+...
T Consensus       188 lag~~~~~~--l~~~g~~lG~aFQi~DD~ld~~~d~~-~GK~~g~Dl~egK~T~p~i~al~~~~~~~~~~l~~~~~~~~~  264 (330)
T 1wmw_A          188 LAGKTPPAA--YEEGGLRLGTAFQIVDDVLNLEGGEA-YGKERAGDLYEGKRTLILLRFLEEAPPEERARALALLALPRE  264 (330)
T ss_dssp             HTTCCCCHH--HHHHHHHHHHHHHHHHHHHHHSCSCC-CSSSTTHHHHHTCCCHHHHHHHHHSCHHHHHHHHHHHTSCGG
T ss_pred             HcCCCHHHH--HHHHHHHHHHHHHHHHccCcccCCcc-cCCCcCchhhCCCCCHHHHHHHHhCCHHHHHHHHHHHcCccc
Confidence            999988766  99999999999999999999999999 99999999999999999999998753 3    3344443332


Q ss_pred             C--hhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhh----cCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          202 N--PANVDVILEYLGKSHGIQRTTELALKHASLAAAAID----SLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       202 ~--~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~----~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      +  +++++++++++.++|+++++++.+++|.++|++.|+    .+|.++      .++.|..+++++++|++
T Consensus       265 ~~~~~~~~~~~~~i~~~g~~~~a~~~~~~~~~~A~~~L~~~i~~lp~~~------~~~~L~~l~~~~~~R~~  330 (330)
T 1wmw_A          265 AKPEAEVGWLLERLLASRALAWAKAEAKRLQAEGLALLEAAFQDLPGKE------ALDHLRGLLAALVERRA  330 (330)
T ss_dssp             GSCHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHTGGGGCSCHH------HHHHHHHHHHHHHHC--
T ss_pred             CCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCcH------HHHHHHHHHHHHHhccC
Confidence            3  678999999999999999999999999999999999    999876      89999999999999975

>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; 1.65A {Pyrobaculum calidifontis} PDB: 4gp1_A* 4gp2_A*

Probab=100.00  E-value=1.3e-57  Score=419.10  Aligned_cols=240  Identities=25%  Similarity=0.337  Sum_probs=210.1

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .++++.++++|.                 .++.++.+|+++|+||++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        51 ~L~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~asLiHDDI~D~s~~RRG~pt~h~~~G~~~AIl~G  113 (358)
T 4dhd_A           51 LLTLAAAEAVSG-----------------QWRPALPAAAIVELIHNYSLIYDDIIDRGDVRRGLPTVRKAFGDNAAILVG  113 (358)
T ss_dssp             HHHHHHHHHHHS-----------------CCGGGHHHHHHHHHHHHHHHHHHHHHTTCCEETTEECHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHCccccCCCCcCCCccHHHhcCHHHHHHHH
Confidence            367888888875                 335688999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCh-hH---------------------------------------HHHHHHHHHhchHHHHHHHHH
Q 024463           82 DLLISRALVALASLKHT-EV---------------------------------------IMECYMQKTYNKTAALVSNSC  121 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~-~~---------------------------------------~~~~y~~~~~~KTa~l~~~~~  121 (267)
                      |||+++|++.+...... ++                                       .+++|++|+.+|||+||++||
T Consensus       114 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~~~~dp~~~~~~~~~~t~~~y~~~i~~KTa~L~~~~~  193 (358)
T 4dhd_A          114 IWYREAIEEAVLDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVSLKTGALIAAAA  193 (358)
T ss_dssp             HHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHHHHHHTBSSCCCCHHHHHTCCSCCCHHHHHHHHHHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccCCCCCCHHHHHHHHHcchHHHHHHHH
Confidence            99999999988654321 11                                       146799999999999999999


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcc-cHHHHHHhhhC-h----HHHHH
Q 024463          122 KAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGII-TAPILFAMEEF-P----QLRAF  195 (267)
Q Consensus       122 ~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~-Tlp~l~al~~~-~----~~~~~  195 (267)
                      ++|++++|++++..+.+++||.++|++|||+||++|++++++.+|||.|+||++||+ |||++++++.. +    .+.++
T Consensus       194 ~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DD~lD~~gd~~~~GK~~g~Dl~egK~~T~p~i~al~~~~~~~~~~L~~~  273 (358)
T 4dhd_A          194 KWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDIKEHKRGNAVVAVALSHLGEGERRRLLEI  273 (358)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------CTTHHHHTTBSCSHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhhcCCCchhhHhcCChhhHHHHHHHHhCChhhHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999 99999999974 3    36677


Q ss_pred             hccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          196 INSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       196 l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      +.+...+.+++++++++++++|+++++++.++++.++|++.|+.+|++       .  .|.+|++++++|++
T Consensus       274 l~~~~~~~~~~~~i~~li~~~gai~~a~~~a~~~~~~A~~~L~~lp~~-------~--~L~~la~~~~~R~~  336 (358)
T 4dhd_A          274 LAREVVEEADVREAVALLDSVGAREEALRLAARYREEAERHLAKIPNN-------G--TLKELLDFIVAREY  336 (358)
T ss_dssp             HHCSSCCHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHTTSSSC-------H--HHHHHHHHHTTTTT
T ss_pred             HcCCCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHcCCCC-------H--HHHHHHHHHHhccc
Confidence            777777889999999999999999999999999999999999999943       2  89999999999974

>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein structure initiative, geranylge pyrophosphate synthase; 1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*

Probab=100.00  E-value=3.5e-57  Score=418.84  Aligned_cols=248  Identities=25%  Similarity=0.321  Sum_probs=204.9

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhc----------
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSV----------   71 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~----------   71 (267)
                      .++++.++++|...+           .+...+.++++|+++|+||++|||||||||+|++|||+||+|++          
T Consensus        68 ~l~l~~~~~~g~~~~-----------~~~~~~~~~~~AaaiEliH~asLIHDDImD~s~~RRG~pt~h~~f~~~~~~~~~  136 (380)
T 3lk5_A           68 LYAWAGFLAAQGHKN-----------SSEKLESVLDAAASLEFIQACALIHDDIIDSSDTRRGAPTVHRAVEADHRANNF  136 (380)
T ss_dssp             HHHHHHHHHHHTTSC-----------CSSCHHHHHHHHHHHHHHHHHHHHHHHHHTC-----------------------
T ss_pred             HHHHHHHHHcCCCcc-----------ccCCHHHHHHHHHHHHHHHHHHHHHCCCcCCCCCCCCCcchhHHHHHhhhhccc
Confidence            467888888875211           12356889999999999999999999999999999999999997          


Q ss_pred             ------cchhHHHHHHHHHHHHHHHHHHcCCCh-h----HH---------------------------HHHHHHHHhchH
Q 024463           72 ------MGNKLAILAGDLLISRALVALASLKHT-E----VI---------------------------MECYMQKTYNKT  113 (267)
Q Consensus        72 ------~G~~~Ai~~Gd~Ll~~a~~~l~~~~~~-~----~~---------------------------~~~y~~~~~~KT  113 (267)
                            ||+++|||+||||+++|++.+++...+ +    ++                           +++|++|+++||
T Consensus       137 ~~~~~~~G~~~AIL~GD~Ll~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~~s~~~y~~ii~~KT  216 (380)
T 3lk5_A          137 EGDPEHFGVSVSILAGDMALVWAEDMLQDSGLSAEALARTRDAWRGMRTEVIGGQLLDIYLESHANESVELADSVNRFKT  216 (380)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHT
T ss_pred             ccchhhcCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhhc
Confidence                  699999999999999999999886532 1    10                           578999999999


Q ss_pred             HHH-HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC---
Q 024463          114 AAL-VSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF---  189 (267)
Q Consensus       114 a~l-~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~---  189 (267)
                      |+| |++||++|++++|++++..+.++.||++||++|||+||++|++++++.+|||.|+||++||+|||++++++..   
T Consensus       217 a~L~~~~~~~~Ga~laga~~~~~~~l~~~G~~lG~AFQI~DDiLd~~gd~~~~GK~~g~Dl~egK~T~p~i~al~~~~~~  296 (380)
T 3lk5_A          217 AAYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALALQRADKQ  296 (380)
T ss_dssp             HHHHTHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSSCTTHHHHTTCCCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCChhhhCCCchhhHhcCCchHHHHHHHHhCccC
Confidence            999 8999999999999999999999999999999999999999999999999999999999999999999999863   


Q ss_pred             -hH----HHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHh
Q 024463          190 -PQ----LRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIIT  264 (267)
Q Consensus       190 -~~----~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~  264 (267)
                       |+    +++++.+ ..+++++++++++++++|+++++++++++|.++|++.|+.+|.++.     .|+.|.+|++++..
T Consensus       297 ~~~~~~~L~~~l~~-~~~~~~~~~v~~li~~~Ga~~~~~~~~~~~~~~A~~~L~~lp~~~~-----~r~~L~~La~~~~~  370 (380)
T 3lk5_A          297 SPEAATAIRAGVGK-VTSPEDIAVITEHIRATGAEEEVEQRISQLTESGLAHLDDVDIPDE-----VRAQLRALAIRSTE  370 (380)
T ss_dssp             CHHHHHHHHHHTTT-CCSHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHGGGSCCCHH-----HHHHHHHHHHHHHC
T ss_pred             ChHHHHHHHHHHCC-CCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHhCCCChH-----HHHHHHHHHHHHHH
Confidence             33    3444432 3467889999999999999999999999999999999999996532     89999999999998


Q ss_pred             cc
Q 024463          265 RN  266 (267)
Q Consensus       265 R~  266 (267)
                      |.
T Consensus       371 ~~  372 (380)
T 3lk5_A          371 RR  372 (380)
T ss_dssp             --
T ss_pred             hh
Confidence            74

>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori}

Probab=100.00  E-value=2.2e-57  Score=410.91  Aligned_cols=219  Identities=27%  Similarity=0.423  Sum_probs=185.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHHHHHHHHHHHHHHcCCChhHH-----------
Q 024463           33 RRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI-----------  101 (267)
Q Consensus        33 ~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~Gd~Ll~~a~~~l~~~~~~~~~-----------  101 (267)
                      +++.++|+++|+||++|||||||||+|++|||+||+|.+||+++|||+||||+++||+.+++.+ ++++           
T Consensus        57 ~~~~~~A~aiEliH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~~l~~~~-~~~~~~~~~~~~~~~  135 (315)
T 3tc1_A           57 DKALNLCTIVEMIQTASLLHDDVIDKATMRRKLPSINALFGNFNAVMLGDVFYSKAFFELSKMG-ELIAQALSNAVLRLS  135 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTC----------------CCSHHHHHHHHHHHHHHHHHTTSC-HHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHcCCCCCCCCcCCCccHHHHhCchHHHHHHHHHHHHHHHHHHHCc-HHHHHHHHHHHHHHH
Confidence            7788999999999999999999999999999999999999999999999999999999998876 4332           


Q ss_pred             ----------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCcccc
Q 024463          102 ----------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASL  165 (267)
Q Consensus       102 ----------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~  165 (267)
                                      +++|++|+++|||+||++||++|++++|.+   .+.++.||.++|++|||+||++|++++++.+
T Consensus       136 ~GQ~~dl~~~~~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~---~~~l~~~g~~lG~aFQI~DD~ld~~~d~~~~  212 (315)
T 3tc1_A          136 RGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLNKD---AKIYADFGLNFGMAFQIIDDLLDITQDAKTL  212 (315)
T ss_dssp             HHHHHHHHHTTSCCCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTSC---HHHHHHHHHHHHHHHHHHHHHHTTSCCTTCC
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHhcchHHHHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHHHHHHhcccCCHHHh
Confidence                            678999999999999999999999999998   5789999999999999999999999999999


Q ss_pred             CCCcccccccCcccHHHHHHhhhC-hHHH----HHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcC
Q 024463          166 GKASLTDLRNGIITAPILFAMEEF-PQLR----AFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL  240 (267)
Q Consensus       166 GK~~~~Dl~~gk~Tlp~l~al~~~-~~~~----~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~l  240 (267)
                      |||+|+||++||+|||++++++.. ++.+    +++.+.  ++++++++++++.++|+++++++.+++|.++|++.|+.+
T Consensus       213 GK~~g~Dl~egK~T~p~i~al~~~~~~~~~~L~~~l~~~--~~~~~~~i~~li~~~ga~~~~~~~~~~~~~~A~~~L~~l  290 (315)
T 3tc1_A          213 GKPNFSDFKEGKTTLPYLLLYEKLNQHDQGLLISYFKQD--SHEIIEWTKEKFKQYGIIEETLKTAQVYSKKALEAIKGE  290 (315)
T ss_dssp             CCCCCCTGGGTCCCHHHHHHHTTSCHHHHHHHHHTTTCC--CHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHTTTT
T ss_pred             CCChhhHHHcCChhHHHHHHHHhCCHHHHHHHHHHHcCC--CHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999999999974 4444    444444  678899999999999999999999999999999999999


Q ss_pred             CCCCCccchHHHHHHHHHHHHHH
Q 024463          241 PETHDVDATNARTALVHITQKII  263 (267)
Q Consensus       241 p~~~~~~~~~~~~~L~~l~~~~~  263 (267)
                      |+++      .|+.|..+++++.
T Consensus       291 p~s~------~r~~L~~l~~~~~  307 (315)
T 3tc1_A          291 NNLI------LEKLAQDVISRTF  307 (315)
T ss_dssp             CCHH------HHHHHHHHHCC--
T ss_pred             CCcH------HHHHHHHHHHHHH
Confidence            9988      9999999998765

>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

Probab=100.00  E-value=3.3e-57  Score=407.82  Aligned_cols=235  Identities=24%  Similarity=0.284  Sum_probs=203.3

Q ss_pred             HHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHHH
Q 024463            3 VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGD   82 (267)
Q Consensus         3 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~Gd   82 (267)
                      +++++++++|.                 .++.+.++|+++|+||+||||||||||+|++|||+||+|.+||+++|||+||
T Consensus        32 l~l~~~~~~~~-----------------~~~~~~~~A~avEliH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~AIl~GD   94 (301)
T 2q80_A           32 LSQAFNHWLKV-----------------PEDKLQIIIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSAN   94 (301)
T ss_dssp             HHHHHHHHHCC-----------------CHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEETTEECHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHccccCCCCCCCCCcchhhccCcHHHHHHHH
Confidence            67778888874                 2356899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCChhHH----------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           83 LLISRALVALASLKHTEVI----------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        83 ~Ll~~a~~~l~~~~~~~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      ||+++|++.+++.++++.+                            +++|++|+++|||+||.++|++|+++++.++  
T Consensus        95 ~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~~a~~~~--  172 (301)
T 2q80_A           95 YVYFLGLEKVLTLDHPDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKE--  172 (301)
T ss_dssp             HHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCS--
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHcccHHHHHHHHHHHHHHCCChH--
Confidence            9999999999987654322                            5789999999999999999999999999873  


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhCh---HHHHHhccCCCChhhHHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP---QLRAFINSSSDNPANVDVILE  211 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~---~~~~~l~~~~~~~~~~~~i~~  211 (267)
                        .+.+||.++|++|||+||++|++++++.+||+.|+||++||+|||++++++..|   .+.+++.+...+.+..+.+++
T Consensus       173 --~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~egK~T~p~i~al~~~~~~~~l~~~l~~~~~~~~~~~~~~~  250 (301)
T 2q80_A          173 --DLKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQRTENIDIKKYCVH  250 (301)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHHHHCC------CTTHHHHHTCCCHHHHHHHHHSTTCCHHHHHHHHTCCCHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHHHhhhcCChhhhCCCccchhhcCCcHHHHHHHHHcCccchHHHHHHhcCCCCHHHHHHHHH
Confidence              489999999999999999999999999999999999999999999999998754   366677665544444556999


Q ss_pred             HHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          212 YLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       212 ~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      +++++|+++++++.+++|.++|++.|+.+|.++         .|..+++++..|.+
T Consensus       251 ~l~~~g~~~~a~~~~~~~~~~A~~~L~~l~~~~---------~L~~l~~~l~~~~~  297 (301)
T 2q80_A          251 YLEDVGSFEYTRNTLKELEAKAYKQIDARGGNP---------ELVALVKHLSKMFK  297 (301)
T ss_dssp             HHHHHTHHHHHHHHHHHHHHHHHHHHHHTTCCH---------HHHHHHHHHHTTCC
T ss_pred             HHHHcChHHHHHHHHHHHHHHHHHHHHcCCCCH---------HHHHHHHHHHHHhc
Confidence            999999999999999999999999999999765         39999999988754

>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* ...

Probab=100.00  E-value=3.3e-57  Score=414.25  Aligned_cols=243  Identities=21%  Similarity=0.318  Sum_probs=184.2

Q ss_pred             HHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHHH
Q 024463            3 VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGD   82 (267)
Q Consensus         3 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~Gd   82 (267)
                      +++++++++|.                 ..+.+.++|+++|+||+||||||||||+|++|||+||+|.+||+++|||+||
T Consensus        47 l~l~~~~~~~~-----------------~~~~~~~~A~avEliH~asLiHDDI~D~s~~RRG~pt~h~~~G~~~AIl~GD  109 (340)
T 2e8v_A           47 LIVQINRVMNL-----------------PKDQLAIVSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPSTINTAN  109 (340)
T ss_dssp             HHHHHHHHHCC-----------------CHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEETTEECHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHhCccccCCCCCCCCcchhhccCchHHHHHHH
Confidence            56777888864                 2356899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCChh-----HH------------------------------HHHHHHHHhchHHHHHHHHHHHHHHH
Q 024463           83 LLISRALVALASLKHTE-----VI------------------------------MECYMQKTYNKTAALVSNSCKAVAYL  127 (267)
Q Consensus        83 ~Ll~~a~~~l~~~~~~~-----~~------------------------------~~~y~~~~~~KTa~l~~~~~~~ga~l  127 (267)
                      ||+++|++.+++..+++     ++                              +++|++|+++|||+||+++|++|+++
T Consensus       110 ~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~~~~~~~t~~~y~~~i~~KTa~L~~~~~~~ga~l  189 (340)
T 2e8v_A          110 YMYFRAMQLVSQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLFRLTLRLMEAL  189 (340)
T ss_dssp             HHHHHHHHHGGGGCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTSCCCCHHHHHHHHHHHTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCCHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            99999999998876644     22                              46799999999999999999999999


Q ss_pred             hCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChH---------HHHHhcc
Q 024463          128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQ---------LRAFINS  198 (267)
Q Consensus       128 a~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~---------~~~~l~~  198 (267)
                      +|.++ ..+.+.+||+++|++|||+||++|++++++.+|||+|+||++||+|||++++++..+.         +.+++.+
T Consensus       190 ag~~~-~~~~l~~~g~~lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~egK~Tlp~i~al~~~~~~~~~~~~~~l~~~l~~  268 (340)
T 2e8v_A          190 SPSSH-HGHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPIVHALNFTKTKGQTEQHNEILRILLL  268 (340)
T ss_dssp             CCC-------CHHHHHHHHHHHHHHHHHHHHHC-----CCCTTHHHHTTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCcH-HHHHHHHHHHHHHHHHHHHHHHHhccCChhhhCCCchhhHhcCCchHHHHHHHHhCcccccchhHHHHHHHHhC
Confidence            99887 4788999999999999999999999999999999999999999999999999986432         5566666


Q ss_pred             CCCChhhHHHHHHHHH-hcchHHHHHHHHHHHHHHHHHH-----hhcCCCCCCccchHHHHHHHHHHHHHHh
Q 024463          199 SSDNPANVDVILEYLG-KSHGIQRTTELALKHASLAAAA-----IDSLPETHDVDATNARTALVHITQKIIT  264 (267)
Q Consensus       199 ~~~~~~~~~~i~~~i~-~~g~i~~a~~~~~~~~~~a~~~-----L~~lp~~~~~~~~~~~~~L~~l~~~~~~  264 (267)
                      ...+.+..++++++++ ++|+++++++++++|.++|++.     |+.+|+++.. ....|+.|..|++++.+
T Consensus       269 ~~~~~~~~~~~~~~l~~~~ga~~~~~~~~~~~~~~A~~~~~~~~L~~lp~~~~~-~~~~~~~L~~l~~~l~~  339 (340)
T 2e8v_A          269 RTSDKDIKLKLIQILEFDTNSLAYTKNFINQLVNMIKNDNENKYLPDLASHSDT-ATNLHDELLYIIDHLSE  339 (340)
T ss_dssp             TCCCHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhccCcccHhhCCCCccc-cHHHHHHHHHHHHHHHh
Confidence            5555555568999999 9999999999999999999999     9999977510 01168899999998864

>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

Probab=100.00  E-value=1.9e-56  Score=402.47  Aligned_cols=218  Identities=26%  Similarity=0.431  Sum_probs=199.2

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|..                .++.+.++|+++|++|++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        46 ~l~l~~~~~~g~~----------------~~~~~~~~A~avEliH~asLiHDDi~D~s~~RRG~pt~h~~~G~~~AIl~G  109 (299)
T 1v4e_A           46 RLSILSFKNRGVE----------------IGEDAISSLAALELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAG  109 (299)
T ss_dssp             HHHHHHHHHHTCC----------------CCHHHHHHHHHHHHHHHHHHHHHHHHHTCSEETTEECHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHcCCC----------------ChhHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCCCCchhhhcCHHHHHHHH
Confidence            3688888888741                125688999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH--------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHH
Q 024463           82 DLLISRALVALASLKHTEVI--------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVA  135 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~--------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~  135 (267)
                      |||+++||+.+++..+++++                          +++|++|+.+|||+||++||++|++++|.++   
T Consensus       110 D~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~---  186 (299)
T 1v4e_A          110 DLVLVSAFHTVEEIGNNKLRRAFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEGELG---  186 (299)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCC---
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHHHHhhhHHHHHHccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCCCH---
Confidence            99999999999887665433                          5789999999999999999999999999877   


Q ss_pred             HHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHh
Q 024463          136 TLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK  215 (267)
Q Consensus       136 ~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~  215 (267)
                      +.+++||.++|++|||+||++|++++ +.+|||.|+||++||+|||++++++..+.+++++.+     ++++++++++++
T Consensus       187 ~~l~~~g~~lG~aFQi~DD~lD~~~d-~~~GK~~g~Dl~egK~T~p~l~al~~~~~l~~~l~~-----~~~~~~~~~l~~  260 (299)
T 1v4e_A          187 EDLYNLGVTIGTIYQMFDDIMDFAGM-EKIGKDGFLDLKNGVASFPLVTAMEKFPEARQMFEN-----RDWSGLMSFMRE  260 (299)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTC-CSCCTTSSCCCTTTTCCHHHHHHHHHCHHHHHHHHT-----TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHccCc-cccCCCcchHhhCCCchHHHHHHHHhChHHHHHHhH-----HHHHHHHHHHHH
Confidence            78999999999999999999999999 999999999999999999999999987667777755     578899999999


Q ss_pred             cchHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 024463          216 SHGIQRTTELALKHASLAAAAIDSLPETH  244 (267)
Q Consensus       216 ~g~i~~a~~~~~~~~~~a~~~L~~lp~~~  244 (267)
                      +|+++++++.+++|.++|.+.|+.+|...
T Consensus       261 ~g~~~~~~~~~~~~~~~A~~~L~~l~~~~  289 (299)
T 1v4e_A          261 KGILKECEETLKVLVKNVIIENSWLRDFV  289 (299)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHCGGGCCC-
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            99999999999999999999999999876

>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*

Probab=100.00  E-value=9.6e-56  Score=408.04  Aligned_cols=253  Identities=16%  Similarity=0.137  Sum_probs=213.6

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccch--hHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGN--KLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~--~~Ai~   79 (267)
                      .+++++++++|...+.      ..+...+..+.+..+|+++|+||++|||||||||+|++|||+||+|.+||+  ++|||
T Consensus        53 ~l~l~~~~~~~~~~~~------~~~~~~~~~~~a~~~a~avEliH~asLiHDDI~D~s~~RRG~pt~h~~~g~~~~~Ail  126 (362)
T 1yhl_A           53 MTVVNVAEGFLAVTQH------DEATKERILHDACVGGWMIEFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGVTTQCAIN  126 (362)
T ss_dssp             HHHHHHHHHHHTTSCC------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEETTEECGGGSTTTHHHHHHH
T ss_pred             HHHHHHHHHhCCCcCC------ChhhhHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccHHhccCccHhHHHH
Confidence            3678888998752110      000001112333348899999999999999999999999999999999999  58999


Q ss_pred             HHHHHHHHHHHHHHcCC-----ChhH-------------------------------------------HHHHHHHHHhc
Q 024463           80 AGDLLISRALVALASLK-----HTEV-------------------------------------------IMECYMQKTYN  111 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~-----~~~~-------------------------------------------~~~~y~~~~~~  111 (267)
                      +||||++.+++.+++..     +.++                                           .+++|++|+++
T Consensus       127 ~Gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~  206 (362)
T 1yhl_A          127 DGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKY  206 (362)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHHHHHHHTTTBCGGGCCTTSCCCBCSSCTTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccCCHHHHHHHHHh
Confidence            99999999998887641     1111                                           13679999999


Q ss_pred             hHHHH-HHHHHHHHHHHhC-CCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC
Q 024463          112 KTAAL-VSNSCKAVAYLSG-QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF  189 (267)
Q Consensus       112 KTa~l-~~~~~~~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~  189 (267)
                      |||+| |++||++|++++| .+++..+.+++||.++|++|||+||++|++++++.+|| .|+||++||+|||++++++..
T Consensus       207 KTa~Ls~~~~~~~ga~lag~~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~~d~~~~GK-~g~Dl~egK~T~p~l~al~~~  285 (362)
T 1yhl_A          207 KTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGK-VGTDIEDAKCSWLAVTFLGKA  285 (362)
T ss_dssp             HTHHHHTHHHHHHHHHHTTCGGGSCHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSS-CCCTTTTTCCCHHHHHHHTTC
T ss_pred             cCcHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHhCC-ChhhHhcCCchHHHHHHHHhC
Confidence            99999 9999999999999 78888889999999999999999999999999999999 999999999999999999975


Q ss_pred             -hHHHHHhccCC--CChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHH--HHHHHHHHHHHh
Q 024463          190 -PQLRAFINSSS--DNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNAR--TALVHITQKIIT  264 (267)
Q Consensus       190 -~~~~~~l~~~~--~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~--~~L~~l~~~~~~  264 (267)
                       ++.++.+.+.+  .+++++++++++++++|++++++++++++.++|++.|+.+|.++      .+  +.|..+++++++
T Consensus       286 ~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~~~~~~~~~~~~A~~~L~~lp~~~------~~~~~~L~~l~~~i~~  359 (362)
T 1yhl_A          286 NAAQVAEFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEAEVVREVESLIEQLKVKS------PTFAESVAVVWEKTHK  359 (362)
T ss_dssp             CHHHHHHHHHHTTCCCHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHTTTC------HHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHhCCCCc------hhHHHHHHHHHHHHHh
Confidence             44444443322  24678899999999999999999999999999999999999988      78  999999999999


Q ss_pred             ccC
Q 024463          265 RNK  267 (267)
Q Consensus       265 R~~  267 (267)
                      |+|
T Consensus       360 R~~  362 (362)
T 1yhl_A          360 RKK  362 (362)
T ss_dssp             CCC
T ss_pred             ccC
Confidence            986

>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* ...

Probab=100.00  E-value=1.9e-55  Score=406.96  Aligned_cols=249  Identities=19%  Similarity=0.167  Sum_probs=213.8

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchh-HHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNK-LAILA   80 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~-~Ai~~   80 (267)
                      .+|+++++++|...+          ......+.+..+|+++|+||++|||||||||+|++|||+||+|++||++ +||+.
T Consensus        83 ~l~l~~~~~~~~~~~----------~~~~~~~~a~~~A~avEliH~asLIHDDImD~s~~RRG~pt~h~~~G~~~~Ai~~  152 (374)
T 2qis_A           83 LTVVVAFRELVEPRK----------QDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGVGLDAIND  152 (374)
T ss_dssp             HHHHHHHHHHSCGGG----------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEETTEECGGGSTTTGGGHHHH
T ss_pred             HHHHHHHHHhCCCCc----------cchHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCCCCCccHHHhcCchHHHHHH
Confidence            367888899875210          0012234688999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHHHHHHHHcC----CC-hhHH--------------------------------HHHHHHHHhchHHHH-HHHHHH
Q 024463           81 GDLLISRALVALASL----KH-TEVI--------------------------------MECYMQKTYNKTAAL-VSNSCK  122 (267)
Q Consensus        81 Gd~Ll~~a~~~l~~~----~~-~~~~--------------------------------~~~y~~~~~~KTa~l-~~~~~~  122 (267)
                      ||++++.+|+.+++.    .. .+++                                +++|++|+.+|||+| |++||+
T Consensus       153 g~~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~~d~~~~t~~~y~~i~~~KTa~Lsf~~~~~  232 (374)
T 2qis_A          153 ANLLEACIYRLLKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLPIA  232 (374)
T ss_dssp             HHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHSCTTCCCGGGCCHHHHHHHHHHHTHHHHTHHHHH
T ss_pred             HHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccCCHHHHHHHHHcCccHHHHHHHHH
Confidence            999999999888753    11 1111                                468999999999999 999999


Q ss_pred             HHHHHhC-CCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC-hHHHHHhccCC
Q 024463          123 AVAYLSG-QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-PQLRAFINSSS  200 (267)
Q Consensus       123 ~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~-~~~~~~l~~~~  200 (267)
                      +|++++| ++++..+.+.+||.++|++|||+||++|++++++.+|| .|+||++||+|||++++++.. ++.++.+.+.+
T Consensus       233 ~ga~lag~a~~~~~~~l~~~g~~lG~aFQI~DDiLD~~gd~~~~GK-~g~Dl~~gK~T~p~l~al~~a~~~~~~~l~~~~  311 (374)
T 2qis_A          233 AAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGK-IGTDIQDNKCSWLVVQCLQRATPEQYQILKENY  311 (374)
T ss_dssp             HHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHCS-CCCTTTTTCCCHHHHHHHHHCCHHHHHHHHHHT
T ss_pred             HHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHccCChhhcCC-chhHHHcCCccHHHHHHHHhCCHHHHHHHHHHh
Confidence            9999999 99999999999999999999999999999999999999 999999999999999999975 45555554433


Q ss_pred             C--ChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          201 D--NPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       201 ~--~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      .  ++++++++++++.++|+.++++..++++.++|++.|+.+|.++      .++.|..+++++++|+|
T Consensus       312 ~~~~~~~~~~v~~li~~~g~~~~~~~~~~~~~~~a~~~L~~lp~~~------~k~~L~~l~~~i~~R~k  374 (374)
T 2qis_A          312 GQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQYAAPL------PPAVFLGLARKIYKRRK  374 (374)
T ss_dssp             TCCCHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHCTTS------CHHHHHHHHHHHC----
T ss_pred             cCCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCCch------HHHHHHHHHHHHHcCcC
Confidence            2  3678899999999999999999999999999999999999888      78999999999999986

>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

Probab=100.00  E-value=4.9e-55  Score=403.36  Aligned_cols=249  Identities=21%  Similarity=0.186  Sum_probs=216.8

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchh-HHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNK-LAILA   80 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~-~Ai~~   80 (267)
                      .+|+++++++|...+          ...+..+.+..+|+++|+||++|||||||||+|++|||+||+|++||++ ++|+.
T Consensus        76 ~l~l~~~~~~~~~~~----------~~~~~~~~~~~~A~aiEliH~asLiHDDImD~s~~RRG~pt~h~~~g~~~~ai~d  145 (367)
T 1uby_A           76 LTVVAAYRELSGPGQ----------KDAESLRCALAVGWCIELFQAASLVADDIMDQSLTRRGQLCWYKKEGVGLDAIND  145 (367)
T ss_dssp             HHHHHHHHHHCCGGG----------CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEETTEECGGGSTTTTTHHHHH
T ss_pred             HHHHHHHHHhCCCcc----------CChhhHHHHHHHHHHHHHHHHHHHHhCcccCCCCCCCCCCChhhccCcHHHHHHH
Confidence            367888888874110          0112335689999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHHHHHHHHcC-----CChhHH--------------------------------HHHHHHHHhchHHHH-HHHHHH
Q 024463           81 GDLLISRALVALASL-----KHTEVI--------------------------------MECYMQKTYNKTAAL-VSNSCK  122 (267)
Q Consensus        81 Gd~Ll~~a~~~l~~~-----~~~~~~--------------------------------~~~y~~~~~~KTa~l-~~~~~~  122 (267)
                      |+++++.+|+.+++.     ...+++                                +++|++|+.+|||+| |++||+
T Consensus       146 g~~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~~d~~~~t~~~y~~ii~~KTa~Lsf~~~~~  225 (367)
T 1uby_A          146 SFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVA  225 (367)
T ss_dssp             HHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHSCTTSCCCTTCCHHHHHHHHHHHTHHHHTHHHHH
T ss_pred             HHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccCCHHHHHHHHHhCchHHHHHHHHH
Confidence            999999999888764     111111                                468999999999999 999999


Q ss_pred             HHHHHhC-CCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhh-ChHHHHHhccCC
Q 024463          123 AVAYLSG-QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE-FPQLRAFINSSS  200 (267)
Q Consensus       123 ~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~-~~~~~~~l~~~~  200 (267)
                      +|++++| ++++..+.+.+||.++|++|||+||++|++++++.+|| .|+||++||+|||++++++. .++.++.+.+.+
T Consensus       226 ~ga~lag~~~~~~~~~l~~~g~~lG~aFQI~DD~LD~~gd~~~~GK-~g~Dl~egK~T~p~l~al~~~~~~~~~~l~~~~  304 (367)
T 1uby_A          226 AAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGA-VGTDIQDNKCSWLVVQCLQRVTPEQRQLLEDNY  304 (367)
T ss_dssp             HHHHHHTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCTTCSSC-CCCCSSSCCCCHHHHHHHHHCCHHHHHHHHHHT
T ss_pred             HHHHHcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhhcCC-chhhHHcCCchHHHHHHHHhCCHHHHHHHHHHh
Confidence            9999999 89999999999999999999999999999999999999 99999999999999999997 455555555433


Q ss_pred             C--ChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          201 D--NPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       201 ~--~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                      .  +++++++++++++++|+.++++..++++.++|++.|+.+|.++      .++.|..+++++++|+|
T Consensus       305 ~~~~~~~~~~v~~li~~~g~~~~~~~~~~~~~~~A~~~L~~lp~~~------~k~~L~~l~~~i~~R~~  367 (367)
T 1uby_A          305 GRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELIEKHSNRL------PKEIFLGLAQKIYKRQK  367 (367)
T ss_dssp             TCCCHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHCSSS------CTHHHHHHHHHHCCCCC
T ss_pred             cCCCHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHhCCCcH------HHHHHHHHHHHHHhCcC
Confidence            2  3678899999999999888898999999999999999999887      78999999999999986

>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*

Probab=100.00  E-value=2.4e-54  Score=402.70  Aligned_cols=246  Identities=19%  Similarity=0.184  Sum_probs=198.0

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+|++.++++|+..           ..+...+.++.+|++||+||+||||||||||+|++|||+||+|++||+++||++|
T Consensus        85 ~l~l~~~~~~~~~~-----------~~~~~~~~~~~~A~aiEliH~asLiHDDImD~s~~RRG~pt~h~~~g~~~Ail~G  153 (395)
T 3mav_A           85 ILVILIYEYVKNRD-----------INSSEWEKAACLAWCIEILQAAFLVADDIMDKGEMRRNKYCWYLLKDVETKNAVN  153 (395)
T ss_dssp             HHHHHHHHHHHC-C-----------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEETTEECGGGSTTTHHHHHHH
T ss_pred             HHHHHHHHHhCCCC-----------CCcccHHHHHHHHHHHHHHHHHHHHHhHHhcCCCCCCCchhhhhccchHHHHHhh
Confidence            36888999998632           2456778899999999999999999999999999999999999999999999999


Q ss_pred             HHHHH--HHHHHHHcCC--C---hhH---------------------------------------------------HHH
Q 024463           82 DLLIS--RALVALASLK--H---TEV---------------------------------------------------IME  103 (267)
Q Consensus        82 d~Ll~--~a~~~l~~~~--~---~~~---------------------------------------------------~~~  103 (267)
                      |+|+.  .++..+....  .   .++                                                   .++
T Consensus       154 D~ll~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~t~~  233 (395)
T 3mav_A          154 DVLLLYNSIYKLIEIYLRNESCYVDVIATFRDATLKTIIGQHLDTNIFSDKYSDAHREIDVNNINVPEQPVIDINMINFG  233 (395)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHCC-CCCCSSCSSSCCCCCCCGGGCSHH
T ss_pred             hHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhHHHHhhhcccccchhcccccccCCHH
Confidence            98774  4455544210  0   010                                                   046


Q ss_pred             HHHHHHhchHHHH-HHHHHHHHHHHhCCC--HHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccH
Q 024463          104 CYMQKTYNKTAAL-VSNSCKAVAYLSGQR--EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA  180 (267)
Q Consensus       104 ~y~~~~~~KTa~l-~~~~~~~ga~la~~~--~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tl  180 (267)
                      +|++|+++|||+| |.+||.+|++++|.+  +...+.+++||.+||+||||+||++|++++++.+|| +|+||++||+||
T Consensus       234 ~Y~~ii~~KTa~L~~~~~~~~ga~~ag~~~d~~~~~~l~~~g~~lG~aFQI~DDiLD~~gd~~~~GK-~g~Dl~egK~T~  312 (395)
T 3mav_A          234 VYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDDYLDIFGDSTKTGK-VGSDIQNNKLTW  312 (395)
T ss_dssp             HHHHHHHHHTHHHHTHHHHHHHHHHTTCCTTCTHHHHHHHHHHHHHHHHHHHHHHHHHC---------CCCTTTTTCCCH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHhhhcc-cccHHhcCCchH
Confidence            7999999999999 899999999999875  346789999999999999999999999999999999 699999999999


Q ss_pred             HHHHHhhhC-hHHHHHhccCC--CChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHH
Q 024463          181 PILFAMEEF-PQLRAFINSSS--DNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVH  257 (267)
Q Consensus       181 p~l~al~~~-~~~~~~l~~~~--~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~  257 (267)
                      |+++|++.. ++.++.+.+..  .+.+.++.+.++++++|+.+++++.++++.++|.+.|+.+|...      .+..|..
T Consensus       313 p~i~al~~~~~~~r~~L~~~~~~~d~~~~~~v~~l~~~~g~~~~~~~~~~~~~~~a~~~l~~l~~~~------l~~ll~~  386 (395)
T 3mav_A          313 PLIKTFELCSEPDKIKIVKNYGKNNLACVKVIDSLYEQYKIRKHYESYEKAQKAKILSAINELHHEG------IEYVLKY  386 (395)
T ss_dssp             HHHHHHHHSCHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHTSCCHH------HHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHhCCcHH------HHHHHHH
Confidence            999999974 44454444322  35677889999999999999999999999999999999999776      7788888


Q ss_pred             HHHHHHhc
Q 024463          258 ITQKIITR  265 (267)
Q Consensus       258 l~~~~~~R  265 (267)
                      +++.+.++
T Consensus       387 lle~i~~~  394 (395)
T 3mav_A          387 LLEILFTG  394 (395)
T ss_dssp             HHHHC---
T ss_pred             HHHHHhcC
Confidence            88877664

>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1

Probab=100.00  E-value=1.8e-54  Score=389.94  Aligned_cols=210  Identities=30%  Similarity=0.372  Sum_probs=177.4

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.++++|+++|+||++|||||||  ||+|++|||+||+|.+||+++||+
T Consensus        48 ~L~l~~~~~~g~-----------------~~~~~~~~A~avEliH~asLiHDDiP~~D~s~~RRG~pt~h~~~G~~~AIl  110 (301)
T 1rtr_A           48 VLLLLTLDSLNT-----------------EYELGMKSAIALEMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAIL  110 (301)
T ss_dssp             HHHHHHHHHTTS-----------------CGGGGHHHHHHHHHHHHHHHHHHHSTTTTCCSEETTEECHHHHHCHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHhCCchhccCCCccCCCccHHhhcCHHHHHH
Confidence            367888888874                 1245788999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcC-C-C----hhHH----------------------------HHHHHHHHhchHHHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASL-K-H----TEVI----------------------------MECYMQKTYNKTAALVSNSCKAVA  125 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~-~-~----~~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~ga  125 (267)
                      +||||+++||+.+++. . .    .+++                            +++|++|+++|||+||++||++|+
T Consensus       111 aGD~Ll~~A~~~l~~~~~~~~~~~~~~~~~ls~~~g~~~~~~GQ~~Dl~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~ga  190 (301)
T 1rtr_A          111 AGDALLTKAFELISSDDRLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTFAVMSAA  190 (301)
T ss_dssp             HHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHhHhHHHHHHHHHHHccCCCCCHHHHHHHHHhchHHHHHHHHHHHH
Confidence            9999999999999886 1 1    1111                            578999999999999999999999


Q ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhh
Q 024463          126 YLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPAN  205 (267)
Q Consensus       126 ~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~  205 (267)
                      +++|++++..+.+++||.++|++|||+||++|++++++.+||++|+|+++||+|||++++                    
T Consensus       191 ~lag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~d~~~~GK~~g~Dl~~gK~T~p~l~a--------------------  250 (301)
T 1rtr_A          191 DIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLLG--------------------  250 (301)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-------------CCHHHHHH--------------------
T ss_pred             HHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHhCCCcchHHHcCCCcHHHHHH--------------------
Confidence            999999999999999999999999999999999999999999999999999999999995                    


Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          206 VDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       206 ~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                   ++++++.++++.++|++.|+.+|+++      .++.|.++++++++|++
T Consensus       251 -------------l~~a~~~a~~~~~~A~~~L~~l~~~~------~~~~L~~l~~~i~~R~~  293 (301)
T 1rtr_A          251 -------------KDGAEDKLTYHRDAAVDELTQIDEQF------NTKHLLEIVDLFYSRDH  293 (301)
T ss_dssp             -------------HHHHHHHHHHHHHHHHHHHHTSCTTS------CCHHHHHHHHHHHCC--
T ss_pred             -------------HHHHHHHHHHHHHHHHHHHHhCCCch------HHHHHHHHHHHHHHhhc
Confidence                         56789999999999999999999776      67899999999999964

>4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP}

Probab=100.00  E-value=8.9e-54  Score=386.68  Aligned_cols=208  Identities=29%  Similarity=0.404  Sum_probs=165.7

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.+.++|+++|+||++|||||||  ||+|++|||+||+|.+||+++|||
T Consensus        51 ~Lvl~~~~~~g~-----------------~~~~~~~~A~avEliH~aSLIHDDip~mD~s~~RRG~pt~h~~~G~~~AIl  113 (317)
T 4f62_A           51 MLTYASAQLVGD-----------------ISSLTDASAAALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAIL  113 (317)
T ss_dssp             HHHHHHHHHHSC-----------------CCHHHHHHHHHHHHHHHHHHHHHHSTTSCC-------CCHHHHSCHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHCCcccccCCCCcCCCccHHhhcCHHHHHH
Confidence            367888888875                 3467999999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCC--h----hHH----------------------------HHHHHHHHhchHHHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLKH--T----EVI----------------------------MECYMQKTYNKTAALVSNSCKAVA  125 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~~--~----~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~ga  125 (267)
                      +||+|+++||+.+++..+  +    +++                            +++|++|+.+|||+||++||++|+
T Consensus       114 aGD~Ll~~Af~~l~~~~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~a~~~Ga  193 (317)
T 4f62_A          114 AGDALQTFAFELLSNPTSAQPELAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHVHKTGALIKASVRMGA  193 (317)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTSSSCCCHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhhhHHHhHHHHHhccCCCCCHHHHHHHHHhchHHHHHHHHHHHH
Confidence            999999999999988632  1    111                            578999999999999999999999


Q ss_pred             HHhC-CCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChh
Q 024463          126 YLSG-QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA  204 (267)
Q Consensus       126 ~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~  204 (267)
                      +++| ++++..+.+++||+++|++|||+||++|++++++.+||++|+|+++||+|||+++                    
T Consensus       194 ~lag~a~~~~~~~l~~~g~~lGlAFQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~p~l~--------------------  253 (317)
T 4f62_A          194 LSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPKLL--------------------  253 (317)
T ss_dssp             HTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTC----------------CCCCHHHHH--------------------
T ss_pred             HHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHhhCCCcchHHhcCCCcHHHHH--------------------
Confidence            9999 8999899999999999999999999999999999999999999999999999999                    


Q ss_pred             hHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          205 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       205 ~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                   +++++++.++++.++|++.|+.+|..        ++.|.+|++++++|++
T Consensus       254 -------------gle~a~~~a~~~~~~A~~~L~~l~~~--------~~~L~~l~~~~~~R~~  295 (317)
T 4f62_A          254 -------------GLDGAKALVVRLHEQAIAQISEFGDK--------SQPLTDLANYIIDRNH  295 (317)
T ss_dssp             -------------HHHHHHHHHHHHHHHHHHHHGGGGGG--------GHHHHHHHHHHHC---
T ss_pred             -------------HHHHHHHHHHHHHHHHHHHHHhCchh--------HHHHHHHHHHHHHhcc
Confidence                         56889999999999999999999853        4799999999999964

>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*

Probab=100.00  E-value=7.1e-54  Score=398.09  Aligned_cols=257  Identities=17%  Similarity=0.139  Sum_probs=212.2

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHH----HHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAE----ITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLA   77 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~Aa----avEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~A   77 (267)
                      .+|+++++++|...+..+    +.......++.++++|+    +||+||++|||||||||+|++|||+||+|+.||+++|
T Consensus        75 ~l~l~~~~~l~~~~~~~~----~~~~~~~~~~~~~~~A~~~g~avEliH~asLIHDDImD~s~~RRG~Pt~h~~~G~~~a  150 (390)
T 3dyh_A           75 LTVIDVAESLLSLSPNNN----GEEDDGARRKRVLHDACVCGWMIEFLQAHYLVEDDIMDNSVTRRGKPCWYRHPDVTVQ  150 (390)
T ss_dssp             HHHHHHHHHTSCC-------------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEETTEECGGGSTTCCHH
T ss_pred             HHHHHHHHHhCCcccccc----ccccccCCHHHHHHHHHhhhhHHHHHHHHHHHHcCCcCCCCCcCCCccccccCChHHH
Confidence            367888888874110000    00000113456666666    7999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH--HHHHHcC-CC-h---hHH-------------------------------------------HHHHHH
Q 024463           78 ILAGDLLISRA--LVALASL-KH-T---EVI-------------------------------------------MECYMQ  107 (267)
Q Consensus        78 i~~Gd~Ll~~a--~~~l~~~-~~-~---~~~-------------------------------------------~~~y~~  107 (267)
                      |++||+++..+  ++.+++. .+ +   +++                                           +++|++
T Consensus       151 il~gD~ll~~a~a~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~e~~~~d~~~~~~~~~~~~~~t~~~y~~  230 (390)
T 3dyh_A          151 CAINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNRVDYTTAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKR  230 (390)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHHHHHHHTTTSCGGGCCTTSCCCCCSSCTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccccccccccCCCCHHHHHH
Confidence            99999999754  5666542 11 1   111                                           357999


Q ss_pred             HHhchHHHH-HHHHHHHHHHHhCCCHHH-HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHH
Q 024463          108 KTYNKTAAL-VSNSCKAVAYLSGQREEV-ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFA  185 (267)
Q Consensus       108 ~~~~KTa~l-~~~~~~~ga~la~~~~~~-~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~a  185 (267)
                      |+++|||+| |.+||++|++++|++++. .+.+.+||.+||++|||+||++|++++++.+|| .|+||++||+|||+++|
T Consensus       231 i~~~KTa~L~~~~~~~~ga~laga~~~~~~~~l~~~g~~lGlaFQI~DDiLD~~gd~~~~GK-~g~Dl~egK~T~pvi~a  309 (390)
T 3dyh_A          231 IVKYKTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-VGTDIQDAKCSWLAVTF  309 (390)
T ss_dssp             HHHHHTHHHHTHHHHHHHHHHTTCGGGSCHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSS-CCCTTTTTCCCHHHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChHHhCC-CcchhhcCCccHHHHHH
Confidence            999999999 999999999999998774 788999999999999999999999999999999 99999999999999999


Q ss_pred             hhh-ChHHHHHhccCC--CChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHH
Q 024463          186 MEE-FPQLRAFINSSS--DNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKI  262 (267)
Q Consensus       186 l~~-~~~~~~~l~~~~--~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~  262 (267)
                      ++. .|+.++.+.+.+  .+++++++++++++++|+++++++.++++.++|++.|+.||.++.    ..++.|..|++++
T Consensus       310 l~~~~~~~r~~L~~~~~~~~~~~v~~v~~l~~~~g~~~~~~~~~~~~~~~a~~~i~~l~~~~~----~~~~~l~~l~~~i  385 (390)
T 3dyh_A          310 LAKASSAQVAEFKANYGSGDSEKVATVRRLYEEADLQGDYVAYEAAVAEQVKELIEKLRLCSP----GFAASVETLWGKT  385 (390)
T ss_dssp             HHHCCHHHHHHHHTTTTCCCHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHCH----HHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHcCCCCch----HHHHHHHHHHHHH
Confidence            998 466666665544  367789999999999999999999999999999999999998871    0288999999999


Q ss_pred             HhccC
Q 024463          263 ITRNK  267 (267)
Q Consensus       263 ~~R~~  267 (267)
                      ++|+|
T Consensus       386 ~~R~k  390 (390)
T 3dyh_A          386 YKRQK  390 (390)
T ss_dssp             TTCCC
T ss_pred             HcCCC
Confidence            99987

>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*

Probab=100.00  E-value=9.1e-54  Score=385.26  Aligned_cols=208  Identities=31%  Similarity=0.388  Sum_probs=176.3

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.+.++|+++|+||++|||||||  ||+|++|||+||+|++||+++|||
T Consensus        50 ~L~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~asLIHDDip~mD~s~~RRG~pt~h~~~G~~~AIl  112 (304)
T 3lsn_A           50 LLAYAACEALGG-----------------KPEQANGAACAVELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAIL  112 (304)
T ss_dssp             HHHHHHHHHTTC-----------------CGGGGHHHHHHHHHHHHHHHHHHTSTTTTCCSEETTEECHHHHSCHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHCCcccccCCCccCCCCchHhhcCHHHHHH
Confidence            367888888875                 3356899999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCC----Chh----HH----------------------------HHHHHHHHhchHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLK----HTE----VI----------------------------MECYMQKTYNKTAALVSNSCKA  123 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~----~~~----~~----------------------------~~~y~~~~~~KTa~l~~~~~~~  123 (267)
                      +||+|+++||+.+++..    +++    .+                            +++|++|+.+|||+||++||++
T Consensus       113 aGD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~GQ~lDl~~~~~~~s~~~y~~i~~~KTg~L~~~~~~~  192 (304)
T 3lsn_A          113 AGDGLQSLAFSALLDPALSDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLGSVGLKLDQQALEYMHRHKTGALIEASVIL  192 (304)
T ss_dssp             HHHHHHHHHHHHHHCTTSCCCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTCCCCHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCChHHHHHHHHHHHHHHchhhHhHhHHHHHHccCCCCCHHHHHHHHHhhhHHHHHHHHHH
Confidence            99999999999999864    221    11                            5789999999999999999999


Q ss_pred             HHHHhCC-CHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCC
Q 024463          124 VAYLSGQ-REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDN  202 (267)
Q Consensus       124 ga~la~~-~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~  202 (267)
                      |++++|+ +++..+.+++||++||++|||+||++|++++++.+||+.|+|+++||+|||+++                  
T Consensus       193 ga~lag~~~~~~~~~l~~~g~~lGlaFQI~DDilD~~~~~~~~GK~~g~Dl~egK~T~p~l~------------------  254 (304)
T 3lsn_A          193 GALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALL------------------  254 (304)
T ss_dssp             HHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC------------CCHHHHH------------------
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHhCCCcccHHhcCCccHHHHH------------------
Confidence            9999999 888899999999999999999999999999999999999999999999999999                  


Q ss_pred             hhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          203 PANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       203 ~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                     +++++++.++++.++|++.|+.||..        ++.|.+|++++++|++
T Consensus       255 ---------------~l~~a~~~a~~~~~~A~~~L~~l~~~--------~~~L~~l~~~~~~R~~  296 (304)
T 3lsn_A          255 ---------------GLAAAKEYALELRDQALHALRPFDAA--------AEPLRELARYIVERRS  296 (304)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHHTTTSCGG--------GHHHHHHHHHHHC---
T ss_pred             ---------------HHHHHHHHHHHHHHHHHHHHHhCchh--------HHHHHHHHHHHHHhcc
Confidence                           57889999999999999999999853        4799999999999963

>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.50A {Vibrio cholerae} SCOP: a.128.1.1

Probab=100.00  E-value=6.8e-54  Score=385.96  Aligned_cols=208  Identities=27%  Similarity=0.364  Sum_probs=161.0

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.+.++|+++|+||++|||||||  ||+|++|||+||+|.+||+++|||
T Consensus        56 ~L~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~asLIHDDIp~mD~s~~RRG~pt~h~~~G~~~AIl  118 (302)
T 3p8r_A           56 YLVYITGQMLGC-----------------ELSDLDTPASAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAIL  118 (302)
T ss_dssp             HHHHHHHHTTTC-----------------CGGGTHHHHHHHHHHHHHHHHHHTCHHHHCCC--------------HHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHCCcccccCCCcCCCCcchhhhcCHHHHHH
Confidence            367788888875                 3456899999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCC--C--h----hHH----------------------------HHHHHHHHhchHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLK--H--T----EVI----------------------------MECYMQKTYNKTAALVSNSCKA  123 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~--~--~----~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~  123 (267)
                      +||||+++||+.+++..  +  +    +++                            +++|++|+++|||+||++||++
T Consensus       119 aGD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~a~g~~~~~~GQ~lDl~~~~~~~s~~~y~~i~~~KTa~L~~~~~~~  198 (302)
T 3p8r_A          119 TGDALQTLAFTILAEGDLSAAGETQRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELETIHRNKTGALMRCAIRL  198 (302)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHTTHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccccCCCHHHHHHHHHHHHHHHhHhHHHHhHHHHHHccCCCCCHHHHHHHhccCcHHHHHHHHHH
Confidence            99999999999998864  1  1    011                            5789999999999999999999


Q ss_pred             HHHHhC-CCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCC
Q 024463          124 VAYLSG-QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDN  202 (267)
Q Consensus       124 ga~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~  202 (267)
                      |++++| ++++..+.+++||+++|++|||+||++|++++++.+||+.|+|+++||+|||+++                  
T Consensus       199 ga~lag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~g~Dl~egK~T~p~l~------------------  260 (302)
T 3p8r_A          199 GALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYPALL------------------  260 (302)
T ss_dssp             HHHTTTHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHTTC---------------CCCHHHHH------------------
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCCcchHHhcCCchHHHHH------------------
Confidence            999999 7888888999999999999999999999999999999999999999999999999                  


Q ss_pred             hhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          203 PANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       203 ~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                     +++++++.++++.++|++.|+.+|.+.        +.|.+|++++++|++
T Consensus       261 ---------------~l~~a~~~a~~~~~~A~~~L~~l~~~~--------~~L~~l~~~~~~R~~  302 (302)
T 3p8r_A          261 ---------------GLEGAQQKAHTLLQEALLALEAIPYNT--------EHLEEFARYVVERKN  302 (302)
T ss_dssp             ---------------HHHHHHHHHHHHHHHHHHHHTTCSSCT--------HHHHHHHHHHHHCCC
T ss_pred             ---------------HHHHHHHHHHHHHHHHHHHHHhCCccH--------HHHHHHHHHHHhccC
Confidence                           567899999999999999999999764        689999999999975

>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid diphosphate synthase; 2.00A {Clostridium perfringens}

Probab=100.00  E-value=9.5e-54  Score=387.56  Aligned_cols=208  Identities=28%  Similarity=0.370  Sum_probs=172.6

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.+.++|+++|+||++|||||||  ||+|++|||+||+|++||+++|||
T Consensus        80 ~L~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~aSLIHDDIP~mD~s~~RRG~pt~h~~~G~~~AIl  142 (324)
T 3uca_A           80 ILMLLSYYIYKS-----------------DYKKILTPAMAIEMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVL  142 (324)
T ss_dssp             HHHHHHHHTTCS-----------------CGGGGHHHHHHHHHHHHHHHHHHTSTTTTCCSEETTEECHHHHHCHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHCCchhccCCCCCCCCccHHHhcChHHHHH
Confidence            367888888875                 3357889999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCC--C----hhHH-----------------------------HHHHHHHHhchHHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLK--H----TEVI-----------------------------MECYMQKTYNKTAALVSNSCKAV  124 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~--~----~~~~-----------------------------~~~y~~~~~~KTa~l~~~~~~~g  124 (267)
                      +||+|+++||+.+++..  +    .+++                             +++|++|+++|||+||++||++|
T Consensus       143 aGD~Ll~~A~~~l~~~~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~~t~~~y~~i~~~KTa~L~~~a~~~G  222 (324)
T 3uca_A          143 AGDALLNEAMKILVDYSLEEGKSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHLKKTGELIKASIMSG  222 (324)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSTTTHHHHHHHHHHTSSCSSCCHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHHHHhHhHHHHhHHHHHHcCCCCCCCHHHHHHHHhcchHHHHHHHHHHH
Confidence            99999999998887632  1    1111                             57899999999999999999999


Q ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChh
Q 024463          125 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA  204 (267)
Q Consensus       125 a~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~  204 (267)
                      ++++|++++..+.+++||+++|++|||+||++|++++++.+||++|+|+++||+|||+++                    
T Consensus       223 a~laga~~~~~~~l~~~g~~lGlAFQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~p~l~--------------------  282 (324)
T 3uca_A          223 AVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNYITIF--------------------  282 (324)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-----------------CHHHHH--------------------
T ss_pred             HHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCCcchHhhcCCccHHHHH--------------------
Confidence            999999999999999999999999999999999999999999999999999999999999                    


Q ss_pred             hHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          205 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       205 ~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                   +++++++.++++.++|++.|+.||.+.        +.|.++++++++|++
T Consensus       283 -------------al~~a~~~a~~~~~~A~~~L~~l~~~~--------~~L~~la~~i~~R~~  324 (324)
T 3uca_A          283 -------------GLEECKKKCVNITEECIEILSSIKGNT--------EPLKVLTMKLLERKF  324 (324)
T ss_dssp             -------------CHHHHHHHHHHHHHHHHHHHHTSSSCC--------HHHHHHHHHHHHCCC
T ss_pred             -------------HHHHHHHHHHHHHHHHHHHHHhCCCcH--------HHHHHHHHHHHhccC
Confidence                         567899999999999999999999754        789999999999975

>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis}

Probab=100.00  E-value=5.8e-54  Score=386.01  Aligned_cols=209  Identities=31%  Similarity=0.402  Sum_probs=173.3

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|..                ..+.++++|+++|+||++|||||||  ||+|++|||+||+|++||+++|||
T Consensus        56 ~L~l~~~~~~g~~----------------~~~~~~~~A~avEliH~asLIHDDIP~mD~s~~RRG~pt~h~~~G~~~AIl  119 (302)
T 3p8l_A           56 LLVLTTVAAFQKE----------------METQDYQVAASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAIL  119 (302)
T ss_dssp             HHHHHHHHHTTCC----------------CCHHHHHHHHHHHHHHHHHHHHHHSTTTTCCSEETTEECHHHHHCHHHHHH
T ss_pred             HHHHHHHHHhCCC----------------ccHHHHHHHHHHHHHHHHHHHHCCchhccCCCccCCCcchhhhcChHHHHH
Confidence            4678888998752                1137899999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCh-----hHH----------------------------HHHHHHHHhchHHHHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLKHT-----EVI----------------------------MECYMQKTYNKTAALVSNSCKAVAY  126 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~~~-----~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~ga~  126 (267)
                      +||+|+++||+.+++...+     +++                            +++|++|+++|||+||++||++|++
T Consensus       120 aGD~Ll~~A~~~l~~~~~~~~~~~~~~~~l~~a~g~~~~~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~~~~~ga~  199 (302)
T 3p8l_A          120 AGDGLLTGAFQLLSLSQLGLSEKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELAAVHEKKTGALIEFALIAGGV  199 (302)
T ss_dssp             HHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhhhhHHHHHHHHHHHccCCCCCHHHHHHHHHcCcHHHHHHHHHHHHH
Confidence            9999999999999875321     110                            5789999999999999999999999


Q ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhH
Q 024463          127 LSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANV  206 (267)
Q Consensus       127 la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~  206 (267)
                      ++|++++..+.+++||+++|++|||+||++|++++++.+||+.|+|+++||+|||+++                      
T Consensus       200 laga~~~~~~~l~~~g~~lGlaFQI~DDilD~~~d~~~~GK~~g~Dl~egK~T~p~l~----------------------  257 (302)
T 3p8l_A          200 LANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTYPALL----------------------  257 (302)
T ss_dssp             HTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-----------------CCHHHHH----------------------
T ss_pred             HcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCChhhHHhcCCCcHHHHH----------------------
Confidence            9999999999999999999999999999999999999999999999999999999999                      


Q ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCC---CCCccchHHHHHHHHHHHHHHhc
Q 024463          207 DVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPE---THDVDATNARTALVHITQKIITR  265 (267)
Q Consensus       207 ~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~---~~~~~~~~~~~~L~~l~~~~~~R  265 (267)
                                 +++.+++.++++.++|++.|+.||.   ++      .++.|.+|++++++|
T Consensus       258 -----------~l~~a~~~~~~~~~~A~~~L~~~~~~~~~~------~~~~L~~l~~~~~~R  302 (302)
T 3p8l_A          258 -----------GIAGAKDALTHQLAEGSAVLEKIKANVPNF------SEEHLANLLTQLQLR  302 (302)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHHHHHHHHHCSSC------CHHHHHHHHHHTSCC
T ss_pred             -----------HHHHHHHHHHHHHHHHHHHHHhcccccCCh------hHHHHHHHHHHHhhC
Confidence                       5678999999999999999999975   55      578999999999887

>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus}

Probab=100.00  E-value=8.5e-54  Score=387.88  Aligned_cols=208  Identities=29%  Similarity=0.333  Sum_probs=175.9

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 ..+.+.++|+++|+||++|||||||  ||+|++|||+||+|.+||+++|||
T Consensus        56 ~L~l~~~~~~g~-----------------~~~~~~~~A~avEliH~aSLIHDDip~mD~~~~RRG~pt~h~~~G~~~AIl  118 (324)
T 3ts7_A           56 LLTYATGQTIGV-----------------AADLLDGPACAVEFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAIL  118 (324)
T ss_dssp             HHHHHHHHHHTC-----------------CGGGTHHHHHHHHHHHHHHHHHHTSTTTTCCSEETTEECHHHHSCHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHhhcCcccccCCCccCCCCchhhhcChHHHHH
Confidence            367888888875                 3356899999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCC--C--hh----HH----------------------------HHHHHHHHhchHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLK--H--TE----VI----------------------------MECYMQKTYNKTAALVSNSCKA  123 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~--~--~~----~~----------------------------~~~y~~~~~~KTa~l~~~~~~~  123 (267)
                      +||+|+++||+.+++..  +  ++    ++                            +++|++|+++|||+||++||++
T Consensus       119 aGD~L~~~Af~~l~~~~~~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~a~~~  198 (324)
T 3ts7_A          119 AGDGLQALAFHVLAQDPSIAVPAENRIAMIETLAKASGPAGMVGGQAIDLASVGKKLDLPGLENMHIRKTGALIRASVRL  198 (324)
T ss_dssp             HHHHHHHHHHHHHHHCTTSCCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTCCCCHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccccCCCHHHHHHHHHHHHHHHhhhHHHHhHHHHHHccCCCCCHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999999999998864  2  11    11                            5789999999999999999999


Q ss_pred             HHHHhC-CCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCC
Q 024463          124 VAYLSG-QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDN  202 (267)
Q Consensus       124 ga~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~  202 (267)
                      |++++| ++++..+.+++||++||++|||+||++|++++++.+||+.|+|+++||+|||+++                  
T Consensus       199 Ga~lag~a~~~~~~~l~~~g~~lGlAFQI~DDiLD~~~d~~~~GK~~g~Dl~egK~T~p~l~------------------  260 (324)
T 3ts7_A          199 ACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNKPNYPALL------------------  260 (324)
T ss_dssp             HHTTSTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTCC---------------CCCHHHHH------------------
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCCccchhhcCCccHHHHH------------------
Confidence            999999 8999999999999999999999999999999999999999999999999999999                  


Q ss_pred             hhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          203 PANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       203 ~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                     +++++++.++++.++|++.|+.+|.+.        +.|.+|++++++|++
T Consensus       261 ---------------gle~a~~~a~~~~~~A~~~L~~l~~~~--------~~L~~la~~~~~R~~  302 (324)
T 3ts7_A          261 ---------------GLSGAKEKAEEMHEAALESLAGFGPEA--------DLLRELARFIIQRQS  302 (324)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHTTTTCCGGG--------HHHHHHHHHHHHTSS
T ss_pred             ---------------HHHHHHHHHHHHHHHHHHHHHhCCccH--------HHHHHHHHHHHhccC
Confidence                           578899999999999999999998653        789999999999974

>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium tumefaciens, structural GEN PSI-2, protein structure initiative; 1.60A {Agrobacterium tumefaciens}

Probab=100.00  E-value=3.2e-53  Score=386.16  Aligned_cols=208  Identities=27%  Similarity=0.358  Sum_probs=170.7

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.++++|+++|+||++|||||||  ||+|++|||+||+|.+||+++|||
T Consensus        91 ~L~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~asLIHDDiPamD~s~~RRG~pt~h~~~G~~~AIl  153 (335)
T 2h8o_A           91 FLVIESVALLGG-----------------DAEAGLHVGAALECLHCYSLVHDDLPAMDDDDLRRGQPTVHRKFDEATAIL  153 (335)
T ss_dssp             HHHHHHHHHTTC-----------------CHHHHHHHHHHHHHHHHHHHHHHTSTTTTCCSEETTEECHHHHSCHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHCCchhccCCCcCCCCCcHhhhcChHHHHH
Confidence            367888888874                 3466899999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcC--C-Ch----hHH----------------------------HHHHHHHHhchHHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASL--K-HT----EVI----------------------------MECYMQKTYNKTAALVSNSCKAV  124 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~--~-~~----~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~g  124 (267)
                      +||||+++||+.+++.  . .+    +++                            +++|++|+++|||+||++||++|
T Consensus       154 aGD~Ll~~A~~~l~~~~~~~~~~~~~~~~~~ls~a~g~~~~~~GQ~lDl~~~~~~~~~~~y~~i~~~KTa~L~~~a~~~G  233 (335)
T 2h8o_A          154 AGDSLLTLAFDIIASDDNPLAAERKAALVISLARAAGIGGMAGGQALDLAAEKKAPDEDGIITLQAMKTGALLRFACEAG  233 (335)
T ss_dssp             HHHHHHHHHHHHHHSTTSCSCHHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHSCCCHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCchHHHHHHHHHHHHhhhhHHHHHHHHHHHccCCCCCHHHHHHHHHhchHHHHHHHHHHH
Confidence            9999999999999886  1 11    111                            46899999999999999999999


Q ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChh
Q 024463          125 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA  204 (267)
Q Consensus       125 a~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~  204 (267)
                      ++++|++++..+.+.+||+++|++|||+||++|++++++.+||++|+|+++||+|||+++                    
T Consensus       234 a~laga~~~~~~~l~~~g~~lGlAFQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~p~l~--------------------  293 (335)
T 2h8o_A          234 AIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVALR--------------------  293 (335)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----------------CCCHHHHH--------------------
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHhCCCcchHHhcCCccHHHHH--------------------
Confidence            999999999999999999999999999999999999999999999999999999999999                    


Q ss_pred             hHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          205 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       205 ~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                   +++++++.++++.++|++.|+.+|.        .++.|.+|++++++|++
T Consensus       294 -------------~le~a~~~a~~~~~~A~~~L~~l~~--------~~~~L~~l~~~i~~R~~  335 (335)
T 2h8o_A          294 -------------GEAWAREKLQEQVAEASELLAPYGE--------KAAILIAAARFIAERKS  335 (335)
T ss_dssp             -------------CHHHHHHHHHHHHHHHHHHTGGGGG--------GGHHHHHHHHHHHC---
T ss_pred             -------------HHHHHHHHHHHHHHHHHHHHHhCch--------hHHHHHHHHHHHHhccC
Confidence                         4678999999999999999999984        34789999999999974

>1rqj_A Geranyltranstransferase; bisphosphonate, isoprenyl synthase; HET: IPR RIS; 1.95A {Escherichia coli} SCOP: a.128.1.1 PDB: 1rqi_A* 2for_A*

Probab=100.00  E-value=8.2e-54  Score=385.50  Aligned_cols=211  Identities=30%  Similarity=0.413  Sum_probs=190.0

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.++++|+++|+||++|||||||  ||+|++|||+||+|.+||+++|||
T Consensus        50 ~l~l~~~~~~g~-----------------~~~~~~~~A~avEliH~asLiHDDiP~~D~s~~RRG~pt~h~~~G~~~Ail  112 (299)
T 1rqj_A           50 FLVYATGHMFGV-----------------STNTLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAIL  112 (299)
T ss_dssp             HHHHHHHHHTTC-----------------CHHHHHHHHHHHHHHHHHHHHHHTSTTTTCCCEETTEECHHHHHCHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHhHHHhCCChhhcCCCCCCCCCChhhhcChHHHHH
Confidence            367788888864                 3467899999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCC----Ch----hHH----------------------------HHHHHHHHhchHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLK----HT----EVI----------------------------MECYMQKTYNKTAALVSNSCKA  123 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~----~~----~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~  123 (267)
                      +||+|+++||+.+++..    .+    +++                            +++|++|+++|||+||++||++
T Consensus       113 ~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~GQ~~dl~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~  192 (299)
T 1rqj_A          113 AGDALQTLAFSILSDADMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRAAVRL  192 (299)
T ss_dssp             HHHHHHHHHHHHHHHSCCTTCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTTCCCHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcccCChHHHHHHHHHHHHHhhhhHHHHhHHHHHhccCCCCCHHHHHHHHHhhhHHHHHHHHHH
Confidence            99999999999998751    11    111                            5789999999999999999999


Q ss_pred             HHHH-hCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCC
Q 024463          124 VAYL-SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDN  202 (267)
Q Consensus       124 ga~l-a~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~  202 (267)
                      |+++ +|.+++..+.+++||.++|++|||+||++|++++++.+||+.|+|+++||+|||++++                 
T Consensus       193 ga~l~ag~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~~~~~~~GK~~g~Dl~~gK~T~p~l~~-----------------  255 (299)
T 1rqj_A          193 GALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLG-----------------  255 (299)
T ss_dssp             HHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSSCTTHHHHHTCCCHHHHHC-----------------
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCChhhHHHcCCCcHHHHHH-----------------
Confidence            9999 9988888999999999999999999999999999999999999999999999999995                 


Q ss_pred             hhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          203 PANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       203 ~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                      +++++..++++.++|++.|+.+|.+..     .++.|.+|++++++|++
T Consensus       256 ----------------l~~a~~~~~~~~~~A~~~L~~l~~~~~-----~~~~L~~l~~~~~~R~~  299 (299)
T 1rqj_A          256 ----------------LEQARKKARDLIDDARQSLKQLAEQSL-----DTSALEALADYIIQRNK  299 (299)
T ss_dssp             ----------------HHHHHHHHHHHHHHHHHHHHHHHTTTC-----CCHHHHHHHHHHHHCCC
T ss_pred             ----------------HHHHHHHHHHHHHHHHHHHHhCCCCcH-----HHHHHHHHHHHHHhccC
Confidence                            457889999999999999999987331     56899999999999975

>3m0g_A Farnesyl diphosphate synthase; structural genomics, protein structure initiative, NYSGXRC, biosynthesis, transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB: 3lvs_A

Probab=100.00  E-value=4.4e-53  Score=379.69  Aligned_cols=205  Identities=27%  Similarity=0.338  Sum_probs=163.5

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.+.++|+++|+||++|||||||  ||+|++|||+||+|++||+++|||
T Consensus        47 ~L~l~~~~~~g~-----------------~~~~~~~~A~avEliH~asLIHDDip~mD~s~~RRG~pt~h~~~G~~~AIl  109 (297)
T 3m0g_A           47 FLAIESAAIHGI-----------------SMAQAMPAALAVEALHAYSLVHDDMPCMDNDDLRRGLPTVHKKWDDATAVL  109 (297)
T ss_dssp             HHHHHHHHHTTC-----------------CHHHHHHHHHHHHHHHHHHHHHHTSTTTTCCSEETTEECHHHHSCHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHhcCccccCCCCccCCCCCchhhcChHHHHH
Confidence            367888888875                 4578999999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCC--h----hHH------------------------------HHHHHHHHhchHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLKH--T----EVI------------------------------MECYMQKTYNKTAALVSNSCKA  123 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~~--~----~~~------------------------------~~~y~~~~~~KTa~l~~~~~~~  123 (267)
                      +||||+++||+.+++...  +    +++                              +++|++|+.+|||+||++||++
T Consensus       110 aGD~Ll~~a~~~l~~~~~~~~~~~~~~~~~l~~~~g~~~~~~GQ~lDl~~~~~~~~~~~~~y~~i~~~KTg~L~~~~~~~  189 (297)
T 3m0g_A          110 AGDALQTLAFELCTDPVLGSAENRVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQAGKTGALISFAAQA  189 (297)
T ss_dssp             HHHHHHHHHHHHTTCGGGCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHHTTSSSCCCHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHhHhHHHHhHHHHHHhhhcCCCCCHHHHHHHHccchHHHHHHHHHH
Confidence            999999999999887531  1    111                              4789999999999999999999


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCCh
Q 024463          124 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNP  203 (267)
Q Consensus       124 ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~  203 (267)
                      |++++|.+++   .+++||.+||++|||+||++|++++++.+||++|+|+++||+|||++++                  
T Consensus       190 ga~lag~~~~---~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~g~Dl~~gK~T~p~l~~------------------  248 (297)
T 3m0g_A          190 GAILAGADRG---PLTAYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLLG------------------  248 (297)
T ss_dssp             HHHHHTCCCH---HHHHHHHHHHHHHHHHTTCC---------------------CCHHHHHC------------------
T ss_pred             HHHHcCCCHH---HHHHHHHHHHHHHHHHHHHHhccCCHHHhCCCccchhhcCCccHHHHHH------------------
Confidence            9999998876   7999999999999999999999999999999999999999999999994                  


Q ss_pred             hhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          204 ANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       204 ~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                     ++++++.++++.++|++.|+.+|.+.        +.|.+|++++++|++
T Consensus       249 ---------------l~~a~~~~~~~~~~A~~~L~~~~~~~--------~~L~~l~~~~~~R~~  289 (297)
T 3m0g_A          249 ---------------LAGAKSRAADLVAEAEAALAPYGEAA--------STLRACARYVIERDK  289 (297)
T ss_dssp             ---------------SSHHHHHHHHHHHHHHHHTGGGGGGG--------HHHHHHHHHHTC---
T ss_pred             ---------------HHHHHHHHHHHHHHHHHHHHhCCCCH--------HHHHHHHHHHHHhcc
Confidence                           56788999999999999999998754        789999999999964

>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp}

Probab=100.00  E-value=1e-52  Score=379.55  Aligned_cols=206  Identities=27%  Similarity=0.355  Sum_probs=173.1

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.+.++|+++|+||++|||||||  ||+|++|||+||+|++||+++|||
T Consensus        56 ~L~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~aSLIHDDip~mD~~~~RRG~pt~h~~~G~~~AIl  118 (313)
T 3lom_A           56 ILVYLAGDLIDV-----------------DQGVLDIIAAALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAIL  118 (313)
T ss_dssp             HHHHHHHHHTTC-----------------CHHHHHHHHHHHHHHHHHHHHHHHSTTTTCCSEETTEECHHHHSCHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHhCCcccccCCCccCCCCCchhhcChHHHHH
Confidence            367788888874                 4578999999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCC-C--h-h----HH-----------------------------HHHHHHHHhchHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLK-H--T-E----VI-----------------------------MECYMQKTYNKTAALVSNSCK  122 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~-~--~-~----~~-----------------------------~~~y~~~~~~KTa~l~~~~~~  122 (267)
                      +||+|+++||+.+++.. +  + +    .+                             +++|++|+++|||+||+++|+
T Consensus       119 aGD~Ll~~a~~~l~~~~~~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~~t~~~y~~i~~~KTg~L~~~a~~  198 (313)
T 3lom_A          119 VGDGMQALAIEVLLMRLSPLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHLLKTGKLILACFE  198 (313)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSSCCCHHHHHHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHhHhHHHHhHHHHHHccCCCCCCHHHHHHHHHcCcHHHHHHHHH
Confidence            99999999999887651 1  1 1    11                             578999999999999999999


Q ss_pred             HHHHHhC--CCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCC
Q 024463          123 AVAYLSG--QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSS  200 (267)
Q Consensus       123 ~ga~la~--~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~  200 (267)
                      + ++++|  ++++..+.+++||.+||++|||+||++|++++++.+||+.|+|+++||+|||+++                
T Consensus       199 ~-a~lag~~a~~~~~~~l~~~g~~lGlaFQI~DDilD~~gd~~~~GK~~g~Dl~~gK~T~p~l~----------------  261 (313)
T 3lom_A          199 M-VLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQKTTFATLF----------------  261 (313)
T ss_dssp             H-HHTTCSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---------------CCCHHHHS----------------
T ss_pred             H-HHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHhhCCCCcchhhcCCccHHHHH----------------
Confidence            9 99999  8999999999999999999999999999999999999999999999999999999                


Q ss_pred             CChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhcc
Q 024463          201 DNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRN  266 (267)
Q Consensus       201 ~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~  266 (267)
                                       +++++++.++++.++|++.|+.||.+.        +.|.+|++++++|+
T Consensus       262 -----------------~l~~a~~~a~~~~~~A~~~L~~l~~~~--------~~L~~la~~~~~R~  302 (313)
T 3lom_A          262 -----------------NKQQLEEEIAVHYQIAMDSLRLFGSKA--------AALIELTKQLQNRS  302 (313)
T ss_dssp             -----------------CHHHHHHHHHHHHHHHHHTTTTTGGGG--------HHHHHHHHHHHHHH
T ss_pred             -----------------HHHHHHHHHHHHHHHHHHHHHhCCccH--------HHHHHHHHHHHhcc
Confidence                             568899999999999999999998643        78999999999996

>3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative; HET: IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A*

Probab=100.00  E-value=1.1e-52  Score=378.24  Aligned_cols=209  Identities=25%  Similarity=0.317  Sum_probs=176.0

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHH--HHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQ--QCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLA   77 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~A   77 (267)
                      .+++++++++|..                 .+.+  .++|+++|+||++|||||||  ||+|++|||+||+|++||+++|
T Consensus        54 ~L~l~~~~~~g~~-----------------~~~~~~~~~A~aiEliH~aSLIHDDiP~mD~s~~RRG~pt~h~~~G~~~A  116 (309)
T 3pde_A           54 LLTVATMQSLGVT-----------------FVPERHWRPVMALELLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMA  116 (309)
T ss_dssp             HHHHHHHHHTTCC-----------------CCHHHHHHHHHHHHHHHHHHHHHHHSTTTTCCSEETTEECHHHHHCHHHH
T ss_pred             HHHHHHHHHhCCC-----------------HHHHhHhHHHHHHHHHHHHHHHHCCchhccCCCCCCCCcchhhhcChHHH
Confidence            3678888888751                 1345  89999999999999999999  9999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHcCCCh-----hHH----------------------------HHHHHHHHhchHHHHHHHHHHHH
Q 024463           78 ILAGDLLISRALVALASLKHT-----EVI----------------------------MECYMQKTYNKTAALVSNSCKAV  124 (267)
Q Consensus        78 i~~Gd~Ll~~a~~~l~~~~~~-----~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~g  124 (267)
                      ||+||+|++.||+.+++...+     +++                            +++|++|+++|||+||++||++|
T Consensus       117 IlaGD~Ll~~Af~~l~~~~~~~~~~~~~~~~l~~a~g~~~m~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~a~~~g  196 (309)
T 3pde_A          117 TLAGDGLLTLAFQWLTATDLPATMQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHKEKTGALLHYAVQAG  196 (309)
T ss_dssp             HHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTCCCCHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhhHhHHHHhHHHHHHccCCCCCHHHHHHHHHhccHHHHHHHHHHH
Confidence            999999999999999876432     111                            57899999999999999999999


Q ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChh
Q 024463          125 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPA  204 (267)
Q Consensus       125 a~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~  204 (267)
                      ++++|++++..+.+++||.++|++|||+||++|++++++.+||++|+|+++||+|||+++                    
T Consensus       197 a~laga~~~~~~~l~~~g~~lGlaFQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~p~l~--------------------  256 (309)
T 3pde_A          197 LILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYPGKL--------------------  256 (309)
T ss_dssp             HHHTTCCGGGHHHHHHHHHHHHHHHHHHHHHHHHHCC-----------CTTTSSSHHHHH--------------------
T ss_pred             HHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCCccchhhcCCccHHHHH--------------------
Confidence            999999998889999999999999999999999999999999999999999999999999                    


Q ss_pred             hHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhcc
Q 024463          205 NVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRN  266 (267)
Q Consensus       205 ~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~  266 (267)
                                   +++.+...++++.++|.+.|+.+|.+-.     .+. |.++++++++|+
T Consensus       257 -------------al~~a~~~~~~~~~~a~~~l~~~~~~~~-----~~~-L~~l~~~~~~r~  299 (309)
T 3pde_A          257 -------------GLIGANQALIDTIHSGQAALQGLPTSTQ-----RDD-LAAFFSYFDTER  299 (309)
T ss_dssp             -------------CHHHHHHHHHHHHHHHHHHHHTSCCCHH-----HHH-HHGGGGGSCTTT
T ss_pred             -------------HHHHhHHHHHHHHHHHHHHHHHhhhccC-----HHH-HHHHHHHHHHhh
Confidence                         4567888899999999999999876531     233 999999999986

>2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MLY; 1.90A {Thermotoga maritima}

Probab=100.00  E-value=4e-52  Score=371.30  Aligned_cols=202  Identities=28%  Similarity=0.334  Sum_probs=174.7

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.++.+|+++|+||++|||||||  ||+|++|||+||+|.+||+++|||
T Consensus        52 ~L~l~~~~~~g~-----------------~~~~~~~~A~avEliH~asLIHDDIP~~D~s~~RRG~pt~h~~~G~~~AIl  114 (284)
T 2ftz_A           52 LLVLTLGEDLGV-----------------EEEXLLDVAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALL  114 (284)
T ss_dssp             HHHHHHHHHHTC-----------------CHHHHHHHHHHHHHHHHHHHHHHHSTTTTCCSEETTEECHHHHHCHHHHHH
T ss_pred             HHHHHHHHHhCc-----------------CHHHHHHHHHHHHHHHHHHHHhCCchhcCCCCCCCCCccHHhhcCHHHHHH
Confidence            367888888874                 2466899999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCChhHH----------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCC
Q 024463           80 AGDLLISRALVALASLKHTEVI----------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQR  131 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~~~~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~  131 (267)
                      +||||+++||+.+++.++.+++                            +++|++|+++|||+||++||++|++++|.+
T Consensus       115 ~GD~Ll~~a~~~l~~~~~~~~~~~l~~~~~~~~~GQ~ldl~~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~ga~lag~~  194 (284)
T 2ftz_A          115 AGDGLFFLAFSQISXIGNSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAPFILXGXD  194 (284)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHSCCCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHhhhhHHHHHhccCcCCCCHHHHHHHHHhhhHHHHHHHHHHHHHHhCCC
Confidence            9999999999999987553322                            467999999999999999999999999988


Q ss_pred             HHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHH
Q 024463          132 EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILE  211 (267)
Q Consensus       132 ~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~  211 (267)
                      ++   .+.+||.++|++|||+||++|++++++.+||+.|+|++  |+|||++++                          
T Consensus       195 ~~---~l~~~g~~lG~aFQI~DD~lD~~~d~~~~GK~~g~Dl~--K~T~p~l~~--------------------------  243 (284)
T 2ftz_A          195 HT---XMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKDTE--XVTLVXXVG--------------------------  243 (284)
T ss_dssp             CH---HHHHHHHHHHHHHHHHHHHHHHHHHCCCC-------------CHHHHHC--------------------------
T ss_pred             hh---HHHHHHHHHHHHHHHHHhhhhhcCCHHhhCCCcchhcc--ccchHHHHH--------------------------
Confidence            77   89999999999999999999999999999999999999  999999994                          


Q ss_pred             HHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHH-HHHHHHHHHhc
Q 024463          212 YLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTA-LVHITQKIITR  265 (267)
Q Consensus       212 ~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~-L~~l~~~~~~R  265 (267)
                             ++++++.+++|.++|++.|+.+|. +      .++. |.+|++++++|
T Consensus       244 -------l~~a~~~a~~~~~~A~~~L~~l~~-~------~~~~~L~~l~~~~~~R  284 (284)
T 2ftz_A          244 -------IQXAREMADXYYEEVLXGIESEGL-F------RTLFLLXELXQMVEER  284 (284)
T ss_dssp             -------HHHHHHHHHHHHHHHHHHHHHTTC-H------HHHHHHHHHHHHHHTC
T ss_pred             -------HHHHHHHHHHHHHHHHHHHHhCCc-h------hHHHHHHHHHHHHHcC
Confidence                   567899999999999999999987 5      7788 99999999987

>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle, protein structure initiative II (PSI II), structural genomics, nysgxrc; 1.90A {Methanosarcina mazei}

Probab=100.00  E-value=4.5e-52  Score=372.77  Aligned_cols=210  Identities=31%  Similarity=0.447  Sum_probs=182.5

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 .++.+.++|+++|+||++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        48 ~L~l~~~~~~g~-----------------~~~~~~~~A~avEliH~asLIHDDi~D~s~~RRG~pt~h~~~G~~~AIlaG  110 (295)
T 3ipi_A           48 IILLLVSEICSG-----------------SYSRSLNAALAVEMMHSASLIHDDLLDQGLVRRNLPSAPEKFGPSGALLCG  110 (295)
T ss_dssp             HHHHHHHHHHHS-----------------CCGGGHHHHHHHHHHHHHHHHHHHHHHHHTSCTTSCCCCCSSCHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHCcCcCCCCCCCCCccHHHhcCccHHHHHH
Confidence            367888888875                 235688999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH--------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHH
Q 024463           82 DLLISRALVALASLKHTEVI--------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVA  135 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~--------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~  135 (267)
                      |||+++||+.+++... +++                          +++|++|+++|||+||++||++|++++|++++..
T Consensus       111 D~Ll~~a~~ll~~~~~-~~~~~~~~~~~~~~~GQ~~dl~~~~~~~t~~~y~~~i~~KTg~L~~~a~~~ga~lag~~~~~~  189 (295)
T 3ipi_A          111 DYLIAKSIAFISPYGE-KVIQDFGKAGMDMAEGEVLDLKLEDESFGENDYFKCIYKKTASLFAISASIGAYTGGAEEELA  189 (295)
T ss_dssp             HHHHHHHHHHHGGGCH-HHHHHHHHHHHHHHHHHHHHHC-------CHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHHHHHHHHHHchH-HHHHHHHHHHHHHHccchHHHHccCCCCCHHHHHHHHHhhhHHHHHHHHHHHHHHcCCCHHHH
Confidence            9999999998887642 221                          4789999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHh
Q 024463          136 TLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK  215 (267)
Q Consensus       136 ~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~  215 (267)
                      +.+++||+++|++|||+||++|++++++  ||    |+.+||+|||++|+++..+                         
T Consensus       190 ~~l~~~g~~lGlaFQI~DDilD~~~~~~--gk----d~~~gk~Tlp~l~al~~~~-------------------------  238 (295)
T 3ipi_A          190 ERFSHFGNALGTAYQIVDDILEFLEVVE--GK----ESKFTSETLPHIYMKSTSK-------------------------  238 (295)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--C-----------CCHHHHHTTTSCH-------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCcc--CC----CcccCcccHHHHHHHhcCc-------------------------
Confidence            9999999999999999999999998763  54    6789999999999986432                         


Q ss_pred             cchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhcc
Q 024463          216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRN  266 (267)
Q Consensus       216 ~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~  266 (267)
                      .++++++++.+++|.++|++.|+.||+++      .++.|.+|+++++.|.
T Consensus       239 ~~~le~a~~~a~~~~~~A~~~L~~lp~~~------~~~~L~~l~~~~~~~~  283 (295)
T 3ipi_A          239 EEALKKSIDCVKLHVAAAKETLETFRECP------ARDKLFQITDYITVDM  283 (295)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTSCCSH------HHHHHHHHHHHTTGGG
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHhCCCch------HHHHHHHHHHHHHHhC
Confidence            24699999999999999999999999888      8999999999999873

>2q58_A Fragment, farnesyl pyrophosphate synthase; farnesyl diphosphate synthase, structural genomics, structur genomics consortium, SGC; HET: ZOL; 2.37A {Cryptosporidium parvum} PDB: 2o1o_A*

Probab=100.00  E-value=1.6e-51  Score=380.23  Aligned_cols=238  Identities=17%  Similarity=0.154  Sum_probs=191.3

Q ss_pred             HHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHHH
Q 024463            3 VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGD   82 (267)
Q Consensus         3 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~Gd   82 (267)
                      ++++.++++|...             ....+.++.+||+||+||+||||||||||+|++|||+||+|++||+++|||+||
T Consensus        78 l~~~~~~~~~~~~-------------~~~~e~~~~la~aiEliH~asLiHDDimD~s~~RRG~pt~h~~~G~~~AIl~Gd  144 (368)
T 2q58_A           78 ILVLISSLSSAYS-------------NIKRDSIYLLGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIF  144 (368)
T ss_dssp             -CHHHHTTTTCCC-------------SSSHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEETTEECHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCc-------------cCCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCccccCcchhhHHHHHH
Confidence            5667777776422             124578899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCh-------hHH-----------------------------HHHHHHHHhchHHHH-HHHHHHHHH
Q 024463           83 LLISRALVALASLKHT-------EVI-----------------------------MECYMQKTYNKTAAL-VSNSCKAVA  125 (267)
Q Consensus        83 ~Ll~~a~~~l~~~~~~-------~~~-----------------------------~~~y~~~~~~KTa~l-~~~~~~~ga  125 (267)
                      +|++.|++.+.++.+.       +++                             +++|++|+.+|||+| |.+|+.+|+
T Consensus       145 ~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~~~~~~e~y~~ii~~KTa~l~~~~~~~~g~  224 (368)
T 2q58_A          145 FLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGL  224 (368)
T ss_dssp             HHHHHHHHHHTTTHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCSCCCSSCSSHHHHHHHHHHHHTHHHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccChHHHHHHHHHHHHHHHHhhhhHHHHHHhhhcccCCchHHHHHHHHHHHhccccchHHHHHHH
Confidence            9999999988665321       111                             578999999999999 799999999


Q ss_pred             HHhC--CCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC-hHHHHHhccCCCC
Q 024463          126 YLSG--QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-PQLRAFINSSSDN  202 (267)
Q Consensus       126 ~la~--~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~-~~~~~~l~~~~~~  202 (267)
                      +++|  ++++..+.+..||.+||+||||+||++|+++     ||+.|+||++||+|||+++|++.. ++.++.+.+.+..
T Consensus       225 ~~ag~~~~~~~~~~l~~~g~~lG~aFQI~DDiLD~~~-----gK~~g~Dl~egK~T~p~i~al~~~~~~~r~~L~~~~~~  299 (368)
T 2q58_A          225 TLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGK  299 (368)
T ss_dssp             HHSCCCCCCSSTTTHHHHHHHHHHHHHHHHHHHHHHS-----CCCSSCTTTSCCCCHHHHSSTTTCCHHHHHHHHHHTTT
T ss_pred             HHhCcccchHHHHHHHHHHHHHHHHHHHHHHHhhccc-----CCCCCchHhcCCcHHHHHHHHHhCCHHHHHHHHHHhCC
Confidence            9998  4566678899999999999999999999975     899999999999999999999974 5667766654432


Q ss_pred             hhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHH----HHHHHhcc
Q 024463          203 PANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHI----TQKIITRN  266 (267)
Q Consensus       203 ~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l----~~~~~~R~  266 (267)
                      .  ...+.+++...+..+.+.+.++++.+++.+.++.+|...      .++.|..+    .++++.|+
T Consensus       300 ~--~~~vk~l~~~l~~~~~~~ey~~~~~~~~~~~i~~l~~~~------~k~~l~~ll~kI~~~~~~rk  359 (368)
T 2q58_A          300 N--SSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKDITDDS------LQKVFIHLIHQISELITNSR  359 (368)
T ss_dssp             C--HHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHTTCSCHH------HHHHHHHHHHHHHHHHCC--
T ss_pred             C--HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhccchh------HHHHHHHHHHHHHHHHHHhh
Confidence            2  233445555556666777888889999999999999876      56655554    45555554

>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Helicobacter pylori} PDB: 3q1o_A*

Probab=100.00  E-value=1.8e-50  Score=364.71  Aligned_cols=214  Identities=25%  Similarity=0.300  Sum_probs=173.3

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|...           ...+..+.+.++|++||+||++|||||||  ||+|++|||+||+|++||+.+|||
T Consensus        54 ~Lvl~~~~~~g~~~-----------~~~~~~~~~~~~A~aiEliH~aSLIHDDIp~mD~s~~RRG~pt~h~~~G~~~AIl  122 (311)
T 3llw_A           54 KLFLAVLCALVGQK-----------DYSNQQTEYFKIALSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVL  122 (311)
T ss_dssp             HHHHHHHHHHSCHH-----------HHHHSHHHHHHHHHHHHHHHHHHHHHHTSTTTTCCSEETTEECHHHHTCHHHHHH
T ss_pred             HHHHHHHHHhCCCc-----------ccccchHHHHHHHHHHHHHHHHHHHHCCccccCCCcccCCCCchhhhcCHHHHHH
Confidence            36788888887510           11234478999999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHc--CCChh---HH----------------------------HHHHHHHHhchHHHHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALAS--LKHTE---VI----------------------------MECYMQKTYNKTAALVSNSCKAVAY  126 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~--~~~~~---~~----------------------------~~~y~~~~~~KTa~l~~~~~~~ga~  126 (267)
                      +||+|++.||+.+++  +++..   ++                            +++|++|+.+|||+||++||++|++
T Consensus       123 aGD~Ll~~Af~~l~~~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~a~~lga~  202 (311)
T 3llw_A          123 IGDALNTYSFELLSNALLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHEHKTAKLISASLIMGLV  202 (311)
T ss_dssp             HHHHHHHHHHHHHHHSCSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHhHHHHHHhcCCCCCHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            999999999999987  32211   11                            5789999999999999999999999


Q ss_pred             HhCCCHHHH-HHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhh
Q 024463          127 LSGQREEVA-TLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPAN  205 (267)
Q Consensus       127 la~~~~~~~-~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~  205 (267)
                      ++|++++.. +.+++||++||++|||+||++|++++++.+||+.++  ++||+|||+++                     
T Consensus       203 laga~~~~~~~~l~~~g~~lGlaFQI~DDiLD~~gd~~~~GK~~g~--~~gK~T~p~l~---------------------  259 (311)
T 3llw_A          203 ASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHL--DSAKNSFVNLL---------------------  259 (311)
T ss_dssp             HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---------------CCSCHHHHH---------------------
T ss_pred             HcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHHCccccc--ccCcchHHHHH---------------------
Confidence            999998888 899999999999999999999999999999999876  99999999999                     


Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHH-HHHHHHHHHHHHhcc
Q 024463          206 VDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNA-RTALVHITQKIITRN  266 (267)
Q Consensus       206 ~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~-~~~L~~l~~~~~~R~  266 (267)
                                  +++.++..++++.++|.+.|..++.-..     . .+.|.++++++++|.
T Consensus       260 ------------~l~~a~~~~~~~~~~a~~~l~~~~~~~~-----~~~~~l~~l~~~~~~r~  304 (311)
T 3llw_A          260 ------------GLERANNYAQTLKTEVLNDLDALKPAYP-----LLQENLNALLNTLFKGE  304 (311)
T ss_dssp             ------------CHHHHHHHHHHHHHHHHHHHTTSTTTCH-----HHHHHHHHHHHHHHC--
T ss_pred             ------------HHHHHHHHHHHHHHHHHHHhhhccccCc-----cHHHHHHHHHHHHHhcc
Confidence                        4567888999999999999999663110     2 578999999999996

>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural genomics protein structure initiative; 1.50A {Campylobacter jejuni}

Probab=100.00  E-value=1.2e-49  Score=356.31  Aligned_cols=205  Identities=26%  Similarity=0.347  Sum_probs=165.9

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                ...+.+.++|+++|+||++|||||||  ||+|++|||+||+|++||+++|||
T Consensus        45 ~L~l~~~~~~~~----------------~~~~~~~~~A~aiEliH~aSLIHDDIp~mD~s~~RRG~pt~h~~~G~~~AIl  108 (291)
T 3npk_A           45 QLLLSVVQSNKP----------------ELLNQALDVALALEFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAIL  108 (291)
T ss_dssp             HHHHHHHHHHCG----------------GGHHHHHHHHHHHHHHHHHHHHHHTSTTTTCCSEETTEECHHHHTCHHHHHH
T ss_pred             HHHHHHHHHhCC----------------CcHHHHHHHHHHHHHHHHHHHHHCCcccccCCCCCCCCCchhhhcCHHHHHH
Confidence            356777788764                13578999999999999999999999  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCC-hh----HH----------------------------HHHHHHHHhchHHHHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLKH-TE----VI----------------------------MECYMQKTYNKTAALVSNSCKAVAY  126 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~~-~~----~~----------------------------~~~y~~~~~~KTa~l~~~~~~~ga~  126 (267)
                      +||+|++.||+.+++... ++    ++                            +++|++|+++|||+||++||++|++
T Consensus       109 aGD~Ll~~A~~~l~~~~~~~~~~~~~~~~l~~~~g~~~~~~GQ~lDl~~~~~~~~~~~y~~i~~~KTg~L~~~a~~~ga~  188 (291)
T 3npk_A          109 VGDALNTEAFLVLSHAHLKDEIKIKLIKTLAFNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHTHKTARLIAAALKMGCE  188 (291)
T ss_dssp             HHHHHHHHHHHHHHTSSSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHhHHHHHHHHHHHHhccCCCCCHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            999999999999987532 11    00                            5789999999999999999999999


Q ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhH
Q 024463          127 LSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANV  206 (267)
Q Consensus       127 la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~  206 (267)
                      ++|++++..+.+++||++||++|||+||++|++++++.+||+.+.|  +||+|||++++                     
T Consensus       189 laga~~~~~~~l~~~g~~lGlaFQI~DDiLD~~gd~~~~GK~~~~d--~gK~T~p~l~~---------------------  245 (291)
T 3npk_A          189 ICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNND--IHKNSFVNLLG---------------------  245 (291)
T ss_dssp             HTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHC------------------CCHHHHHC---------------------
T ss_pred             HcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHHCCccchh--cCcchHHHHHH---------------------
Confidence            9999999889999999999999999999999999999999998776  99999999994                     


Q ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHh
Q 024463          207 DVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIIT  264 (267)
Q Consensus       207 ~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~  264 (267)
                                  ++.+....+++.++|.+.|..++.+       ..+.|++++++.++
T Consensus       246 ------------l~~a~~~~~~~~~~a~~~l~~~~~~-------~~~~l~~la~~~~~  284 (291)
T 3npk_A          246 ------------LEQAIKTKENLLNECEQDLEKLNEK-------LAQMIQNLIIQYLE  284 (291)
T ss_dssp             ------------HHHHHHHHHHHHHHHHHHHHTSCHH-------HHHHHHHHHHHHC-
T ss_pred             ------------HHHhHHHHHHHHHHHHHHHHHhchh-------HHHHHHHHHHHHHh
Confidence                        5667788999999999999999743       25789999988654

>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps, trans-prenyltransferase; 2.40A {Sulfolobus solfataricus} PDB: 2azk_A

Probab=100.00  E-value=2.7e-49  Score=353.95  Aligned_cols=203  Identities=22%  Similarity=0.259  Sum_probs=177.1

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 .++.+.++|+++|+||++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        55 ~L~l~~~~~~g~-----------------~~~~~~~~A~avEliH~asLIHDDi~D~s~~RRG~pt~h~~~G~~~AIlaG  117 (289)
T 2azj_A           55 TLNMFFTVALGG-----------------DIKDSYGGALAIEILHSASLALCDIVDLDATRRGDKAAWVVYGNRKVIFIT  117 (289)
T ss_dssp             HHHHHHHHHTTC-----------------CGGGGHHHHHHHHHHHHHHHHHHHHHTTCCBSSSSBCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCccHHHhcChHHHHHHH
Confidence            468888888874                 124578999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH-HcCCChhHH--------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Q 024463           82 DLLISRALVAL-ASLKHTEVI--------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFE  140 (267)
Q Consensus        82 d~Ll~~a~~~l-~~~~~~~~~--------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~  140 (267)
                      |||+++||+.+ ++.++ +++                    +++|++++++|||+||++||++|++++ ++++..+.+++
T Consensus       118 D~Ll~~a~~~l~~~~~~-~~~~~~~~~~~~~~~GQ~~dl~~~~~y~~~i~~KTa~L~~~a~~~ga~la-~~~~~~~~l~~  195 (289)
T 2azj_A          118 NYLIPTALRIIQTSYGD-DALNTSIELWKDTSVGALRDMYDNSDYIRTIELKTGSLFKLSTVLSAYAS-KHYNTKQQMLD  195 (289)
T ss_dssp             HHHHHHHHHHHHHHHCH-HHHHHHHHHHHHHHHHHHHTTTTTSCHHHHHHHHTHHHHHHHHHHHHHHT-TCGGGHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcH-HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHcchHHHHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            99999999999 77642 322                    357999999999999999999999999 88888899999


Q ss_pred             HHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHH
Q 024463          141 YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQ  220 (267)
Q Consensus       141 ~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~  220 (267)
                      ||.++|++|||+||++|++++    ||   .|+++||+|||+++ . ...                            .+
T Consensus       196 ~g~~lG~aFQi~DDilD~~~~----~K---~dl~~gk~Tlp~l~-~-~~g----------------------------~~  238 (289)
T 2azj_A          196 VGKYLGIIYQVIDDFVDYKTK----KV---EEIDGSAKQLFKYY-R-EGK----------------------------LE  238 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTS----CT---TTCCTTGGGGHHHH-T-TTC----------------------------HH
T ss_pred             HHHHHHHHHHHHHhhhhhcCC----CC---hhhhcCcccHHHHH-H-cCC----------------------------HH
Confidence            999999999999999999986    46   48999999999999 2 211                            11


Q ss_pred             HH-HHHHHHHHHHHHHHhhcCCC-CCCccchHHHHHHHHHHHHHHhcc
Q 024463          221 RT-TELALKHASLAAAAIDSLPE-THDVDATNARTALVHITQKIITRN  266 (267)
Q Consensus       221 ~a-~~~~~~~~~~a~~~L~~lp~-~~~~~~~~~~~~L~~l~~~~~~R~  266 (267)
                      .+ +..+++|.++|++.|+.+|. ++      .++.|.++++++++|.
T Consensus       239 ~a~~~~a~~~~~~A~~~L~~lp~~~~------~~~~L~~l~~~~~~R~  280 (289)
T 2azj_A          239 EYVRSVYLEYKQKYDELISNIPFQSK------YLSEIRSLPEFLANGL  280 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSCCCGG------GHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCcH------HHHHHHHHHHHHHhcc
Confidence            11 45899999999999999998 55      7899999999999984

>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*

Probab=100.00  E-value=4.3e-47  Score=340.75  Aligned_cols=194  Identities=30%  Similarity=0.415  Sum_probs=171.9

Q ss_pred             HHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCCCcCcchhccchhHHHHH
Q 024463            3 VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILA   80 (267)
Q Consensus         3 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI--~D~s~~RRg~pt~~~~~G~~~Ai~~   80 (267)
                      ++++.++++|.                 .++.++++|+++|+||++|||||||  ||+|++|||+||+|.+||+++||++
T Consensus        59 L~l~~~~~~g~-----------------~~~~~~~~A~avEliH~asLiHDDip~mD~s~~RRG~pt~h~~~G~~~AIla  121 (293)
T 2j1p_A           59 LCIAACELVGG-----------------EESLAMPAACAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVLA  121 (293)
T ss_dssp             HHHHHHHHTTC-----------------CHHHHHHHHHHHHHHHHHHHHHHTSTTTTCCSEETTEECHHHHHCHHHHHHH
T ss_pred             HHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHCCchhccCCCCCCCCCchhhhcCHHHHHHH
Confidence            56777777763                 3467899999999999999999998  9999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCC----h-h----------------HH------------------HHHHHHHHhchHHHHHHHHH
Q 024463           81 GDLLISRALVALASLKH----T-E----------------VI------------------MECYMQKTYNKTAALVSNSC  121 (267)
Q Consensus        81 Gd~Ll~~a~~~l~~~~~----~-~----------------~~------------------~~~y~~~~~~KTa~l~~~~~  121 (267)
                      ||+|+++||+.+++...    + .                .+                  +++|+.|+++|||+||++||
T Consensus       122 GD~Ll~~A~~~l~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~GQ~~Dl~~~~~~~~~~~~~~y~~i~~~KTa~L~~~a~  201 (293)
T 2j1p_A          122 GDALLSFAFEHLASATSSEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHLHKTAALLEASA  201 (293)
T ss_dssp             HHHHHHHHHHHHHHHSCTTSCHHHHHHHHHHHHHHHSTTTHHHHHHHTTC---CCHHHHHHHHHHHHHHHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHhHhHHHHHHHHHHHHccCCCCCCCHHHHHHHHHcccHHHHHHHH
Confidence            99999999998876421    1 0                00                  46799999999999999999


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCC
Q 024463          122 KAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSD  201 (267)
Q Consensus       122 ~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~  201 (267)
                      ++|++++|++++..+.+++||.++|++|||+||++|+++++              |.|+|+++                 
T Consensus       202 ~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DDiLD~~~~~--------------K~T~p~l~-----------------  250 (293)
T 2j1p_A          202 VLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS--------------KLTYPKLM-----------------  250 (293)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC----------------CCCHHHHH-----------------
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCc--------------cccHHHHH-----------------
Confidence            99999999999999999999999999999999999999764              89999999                 


Q ss_pred             ChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          202 NPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       202 ~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                      +++++++.++++.++|++.|+.+| ++      .++.|.++++++++|++
T Consensus       251 ----------------gle~a~~~a~~~~~~A~~~L~~l~-~~------~~~~L~~l~~~~~~R~~  293 (293)
T 2j1p_A          251 ----------------GLEKSREFAEKLNTEARDQLLGFD-SD------KVAPLLALANYIANRQN  293 (293)
T ss_dssp             ----------------HHHHHHHHHHHHHHHHHHHTTTSC-TT------TTHHHHHHHHHHHHCCC
T ss_pred             ----------------HHHHHHHHHHHHHHHHHHHHHhCC-cH------HHHHHHHHHHHHHhhcC
Confidence                            578999999999999999999998 33      46899999999999975

>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum calidifontis}

Probab=100.00  E-value=4.8e-42  Score=305.26  Aligned_cols=158  Identities=28%  Similarity=0.372  Sum_probs=130.3

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|..              ....+.+..+|+++|+||++|||||||||+|++|||+||+|.+||+++|||+|
T Consensus        51 ~Lvll~~~~~g~~--------------~~~~~~~~~~A~aiEliH~aSLIHDDImD~s~~RRG~Pt~h~~~G~~~AIlaG  116 (285)
T 4fp4_A           51 LLLLTFTYSIDRR--------------SIMDPRILEAAAIVELLHVVSLLQDDVMDQHDQRRGIKTPRAMYGDGRAIVAS  116 (285)
T ss_dssp             HHHHHHHHHHCGG--------------GGGCHHHHHHHHHHHHHHHHHHHHHHHHTTCSBSSSSBCHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHhCCC--------------CCChHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCcHHHhcChHHHHHHH
Confidence            4678888888741              11457889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH-----------HHHHHH-------HHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 024463           82 DLLISRALVALASLKHTEVI-----------MECYMQ-------KTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGK  143 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~-----------~~~y~~-------~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~  143 (267)
                      |||+++|++.+++.++ +++           .-++++       |+++|||+||++||++|++++|++ +..+.+++||+
T Consensus       117 D~Ll~~A~~~l~~~~~-~~~~~ls~~~~~~~~GQ~lDl~~~~~~~i~~KTg~Lf~~a~~lGa~lag~~-~~~~~l~~~G~  194 (285)
T 4fp4_A          117 DWLIAESIKMAVNLGA-DVVTYLADVAQRLSVGQALDLEGERDKAAEFKTAPLIEAALVMPLVILGRR-ELIETAKKLGT  194 (285)
T ss_dssp             HHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHTHHHHHHHHHHHHHHHTCG-GGHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhH-HHHHHHHHHHHHHHHhHHHHHhccccchhhcCcHHHHHHHHHHHHHHcCCh-HHHHHHHHHHH
Confidence            9999999999998754 333           112222       899999999999999999999999 88889999999


Q ss_pred             HHHHHhcchhhhhccccCccccCCCcccccccC
Q 024463          144 NLGLAYQLIDDILDFTGTSASLGKASLTDLRNG  176 (267)
Q Consensus       144 ~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~g  176 (267)
                      ++|++|||+||++|++++++ .||+.|+||+++
T Consensus       195 ~lGlAFQI~DDiLD~~~d~~-~~k~~g~DI~e~  226 (285)
T 4fp4_A          195 KLGILYQYSDDYSDENVERP-ETKSIANEIGRY  226 (285)
T ss_dssp             HHHHHTTCC---------CH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCcc-ccCccHHHHHHH
Confidence            99999999999999999876 578899999998

>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*

Probab=100.00  E-value=1.7e-38  Score=282.18  Aligned_cols=137  Identities=15%  Similarity=0.207  Sum_probs=122.8

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhc-CCCCCCCCcCcchhccchhHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVL-DDADTRRGIGSLSSVMGNKLAILA   80 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~-D~s~~RRg~pt~~~~~G~~~Ai~~   80 (267)
                      .+++++++++|.                 .++.+.++|+++|+||++|||||||+ |+++.|||+||+|.+||+++|||+
T Consensus        46 ~L~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~aSLIHDDI~~dD~d~RRG~pt~h~~~G~~~AIla  108 (274)
T 3kra_B           46 TLCLAACELVGG-----------------DRSQAMAAAAAIHLVHAAAYVHEHLPLTDGSRPVSKPAIQHKYGPNVELLT  108 (274)
T ss_dssp             HHHHHHHHHTTC-----------------CGGGGHHHHHHHHHHHHHHHHHHTCCCSSSSSCCCSSCCCCSSCHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHcCCcccCCccCCCCCCchhhcChHHHHHH
Confidence            467888888875                 34568999999999999999999998 666689999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCh-------hHH-------------------------------HHHHHHHHhchHHHHHHHHHH
Q 024463           81 GDLLISRALVALASLKHT-------EVI-------------------------------MECYMQKTYNKTAALVSNSCK  122 (267)
Q Consensus        81 Gd~Ll~~a~~~l~~~~~~-------~~~-------------------------------~~~y~~~~~~KTa~l~~~~~~  122 (267)
                      ||+|+++||+.+++..++       ..+                               +++|++|+++|||+||++||+
T Consensus       109 GD~Ll~~Af~~l~~~~~~~~~~~~~~~~~~~~~l~~a~G~~~~~~GQ~lDl~~~~~~~t~~~y~~~i~~KTa~L~~~a~~  188 (274)
T 3kra_B          109 GDGIVPFGFELLAGSVDPARTDDPDRILRVIIEISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCKKKYGEMHACGAA  188 (274)
T ss_dssp             HHHHHHHHHHHHHHTCCTTCTTHHHHHHHHHHHHHHHTSTTTHHHHHHHHTTCCTTSSCHHHHHHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCccccccHHHHHHHHHHHHHHHhHHHHHHhHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999876542       110                               478999999999999999999


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhh
Q 024463          123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI  155 (267)
Q Consensus       123 ~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~  155 (267)
                      +|++++|++++.++.+++||++||++|||+||.
T Consensus       189 lGailaga~~~~~~~l~~~G~~lG~aFQI~DD~  221 (274)
T 3kra_B          189 CGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMK  221 (274)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999997

>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus}

Probab=100.00  E-value=8.5e-38  Score=277.63  Aligned_cols=137  Identities=15%  Similarity=0.173  Sum_probs=121.1

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|.                 .++.++++|+++|+||++|||||||+|+|+ |||+||+|++||+++|||+|
T Consensus        51 ~L~l~~~~~~g~-----------------~~~~~~~~A~aiEliH~aSLIHDDI~D~d~-RRG~pt~h~~~G~~~AIlaG  112 (273)
T 3qkc_B           51 ALCVAACELVGG-----------------DRSDAMAAAAAVHLMHVAAYTHENLPLTDG-PMSKSEIQHKFDPNIELLTG  112 (273)
T ss_dssp             HHHHHHHHHTTC-----------------CGGGTHHHHHHHHHHHHHHHHHHSCCBTTB-CSSSSCCCCSSCHHHHHHHH
T ss_pred             HHHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHHcCcccCcc-CCCCCCchhhcCHHHHHHHH
Confidence            367888888875                 345689999999999999999999999999 99999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCh------hH----------------H-------------HHHHHHH-HhchHHHHHHHHHHHHH
Q 024463           82 DLLISRALVALASLKHT------EV----------------I-------------MECYMQK-TYNKTAALVSNSCKAVA  125 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~------~~----------------~-------------~~~y~~~-~~~KTa~l~~~~~~~ga  125 (267)
                      |+|+++||+.+++..++      ..                +             .++|+++ +++|||+||++||++|+
T Consensus       113 D~Ll~~Af~~l~~~~~~~~~~~~~~~~~~~~l~~a~g~~~~~~GQ~lDl~~~~~~~~eyl~~I~~~KTa~L~~~a~~lGa  192 (273)
T 3qkc_B          113 DGIIPFGLELMARSMDPTRNNPDRILRAIIELTRVMGSEGIVEGQYHELGLNQLNDLELIEYVCKKKEGTLHACGAACGA  192 (273)
T ss_dssp             HHHHHHHHHHHHHHSCSSCCCHHHHHHHHHHHHHHHTTTTHHHHHHHHTTCCSSCCHHHHHHHHHHTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcccccHHHHHHHHHHHHHHhchhHHHHHHHHHHhcCCCCCHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999999875431      11                1             2467765 59999999999999999


Q ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcchhhhh
Q 024463          126 YLSGQREEVATLAFEYGKNLGLAYQLIDDIL  156 (267)
Q Consensus       126 ~la~~~~~~~~~l~~~g~~lG~afQi~DD~l  156 (267)
                      +++|++++..+.+++||.++|++|||+||+.
T Consensus       193 ilaga~~~~~~~l~~~G~~lGlaFQI~DD~~  223 (273)
T 3qkc_B          193 ILGGCDEDKIEKLRRFGLYVGTVQGLLGKNR  223 (273)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHcCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999996

>4hd1_A Squalene synthase HPNC; MCSG, structural genomics, PSI-biology, midwest center for S genomics, transferase; 2.40A {Alicyclobacillus acidocaldarius subsp}

Probab=94.74  E-value=1  Score=39.37  Aligned_cols=84  Identities=15%  Similarity=0.018  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcc
Q 024463          138 AFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSH  217 (267)
Q Consensus       138 l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g  217 (267)
                      ...++.++|+|||+.|=+.|+           +.|+..|++-+|.-..-+..-....+.. ...++ .+..         
T Consensus       154 ~~~~A~~lG~AlQltNilRDv-----------~eD~~~gR~YlP~~~l~~~gv~~~dl~~-~~~~~-~~~~---------  211 (294)
T 4hd1_A          154 RARLSDATCTALQVANHMQDI-----------DRDLALGRIYVPRADLEQFGATLDDIRA-RRATD-GVRR---------  211 (294)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTH-----------HHHHHTTCBCSCHHHHHTTTCCHHHHHT-TCCCH-HHHH---------
T ss_pred             HHHHHHHHHHHHHHHHHHHhc-----------hhhhccCceeCCHHHHHHcCCCHHHHhc-CCCCH-HHHH---------
Confidence            346789999999999988887           4678889998887654332211122222 22221 2222         


Q ss_pred             hHHHHHHHHHHHHHHHHHHhhcCCCC
Q 024463          218 GIQRTTELALKHASLAAAAIDSLPET  243 (267)
Q Consensus       218 ~i~~a~~~~~~~~~~a~~~L~~lp~~  243 (267)
                      .+..-...++.++++|...+..+|..
T Consensus       212 ~~~~~~~~A~~~~~~a~~~~~~lp~~  237 (294)
T 4hd1_A          212 CIALEVDRAQALFDEGRRLESLVPPR  237 (294)
T ss_dssp             HHHHHHHHHHHHHHHHGGGGGSSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCHH
Confidence            12333455677777777777777643

>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*

Probab=90.39  E-value=0.78  Score=41.17  Aligned_cols=119  Identities=16%  Similarity=0.119  Sum_probs=69.7

Q ss_pred             HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHH
Q 024463          102 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP  181 (267)
Q Consensus       102 ~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp  181 (267)
                      ++++..-+++-.|....+.+.+...-...++. .......+.++|.|||+.|=+.|+           +.|+..|++-||
T Consensus       138 ~~~L~~Yc~~vAg~VG~l~~~l~~~~~~~~~~-~~~~~~~A~~lG~AlQltNilRDv-----------~eD~~~gR~YlP  205 (343)
T 3vj8_A          138 EQEWDKYCHYVAGLVGIGLSRLFSASEFEDPL-VGEDTERANSMGLFLQKTNIIRDY-----------LEDQQGGREFWP  205 (343)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHHHHTSSCHH-HHHCHHHHHHHHHHHHHHHHHHTH-----------HHHHHTTCCCSC
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHhCCCCCccch-hhhHHHHHHHHHHHHHHHHHHHHh-----------HHHHhCCCeeCC
Confidence            45555555665566666666554443222232 334567899999999999988887           477888999888


Q ss_pred             HHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCC
Q 024463          182 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPET  243 (267)
Q Consensus       182 ~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~  243 (267)
                      .=..-+..-....++     .+..-..+..      .+..-...++.|+.+|...+..+|..
T Consensus       206 ~e~l~~~g~~~~dl~-----~~~~~~~~~~------~l~~l~~~A~~~~~~a~~~~~~L~~~  256 (343)
T 3vj8_A          206 QEVWSRYVKKLGDFA-----KPENIDLAVQ------CLNELITNALHHIPDVITYLSRLRNQ  256 (343)
T ss_dssp             HHHHTTTCSSGGGGG-----SGGGHHHHHH------HHHHHHHHHHTTHHHHHHHHHTCCCH
T ss_pred             HHHHHHcCCCHHHHh-----cccCCHHHHH------HHHHHHHHHHHHHHHHHHHHHhCCcc
Confidence            754322111111111     1111122222      23455566778888888888888764

>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* ...

Probab=89.50  E-value=1.9  Score=37.47  Aligned_cols=115  Identities=13%  Similarity=0.030  Sum_probs=67.3

Q ss_pred             HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHH
Q 024463          102 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP  181 (267)
Q Consensus       102 ~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp  181 (267)
                      ++++..-+++=.|+...+++.+-   +..+.+   .....+.++|.|+|+.|=+.|+           +.|...|++-||
T Consensus       129 ~~dL~~Yc~~vAg~VG~l~~~l~---g~~~~~---~~~~~A~~lG~AlQltNilRDv-----------~eD~~~gR~YLP  191 (293)
T 3acx_A          129 DAELFGYCYGVAGTVGEVLTPIL---SDHETH---QTYDVARRLGESLQLINILRDV-----------GEDFENERIYFS  191 (293)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHH---CSSCCH---HHHHHHHHHHHHHHHHHHHHCH-----------HHHHHTTCCCSC
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHh---CCCCcH---HHHHHHHHHHHHHHHHHHHHHH-----------HHHHhCCcEEeC
Confidence            44454445554455444444432   222312   3567899999999999977777           467888999999


Q ss_pred             HHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 024463          182 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH  244 (267)
Q Consensus       182 ~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~  244 (267)
                      .=..-+..-....+.... .++ .+..         .+..-...++.++.+|...+..+|...
T Consensus       192 ~d~l~~~gv~~e~l~~~~-~~~-~~~~---------~~~~l~~~A~~~~~~a~~~~~~lp~~~  243 (293)
T 3acx_A          192 KQRLKQYEVDIAEVYQNG-VNN-HYID---------LWEYYAAIAEKDFRDVMDQIKVFSIEA  243 (293)
T ss_dssp             HHHHHHHTCCHHHHHHHC-CCH-HHHH---------HHHHHHHHHHHHHHHHHHTGGGSCTTH
T ss_pred             HHHHHHcCCCHHHhcccC-CCH-HHHH---------HHHHHHHHHHHHHHHHHHhHHhCCHHH
Confidence            854433221111222211 121 1222         234455667888888888888888753

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	267
d2q80a1	291	a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate s	3e-18
d1v4ea_	280	a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Th	3e-14
d1fpsa_	348	a.128.1.1 (A:) Farnesyl diphosphate synthase (gera	2e-13
d1rqja_	299	a.128.1.1 (A:) Farnesyl diphosphate synthase (gera	8e-09
d1rtra_	290	a.128.1.1 (A:) Farnesyl diphosphate synthase (gera	6e-05

>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]} Length = 291

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 = 80.1 bits (196), Expect = 3e-18
 Identities = 54/262 (20%), Positives = 88/262 (33%), Gaps = 41/262 (15%)

Query: 32  RRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNK---------------- 75
             + Q I E+TEM+H ASL+ DD+ D++  RRG     S+ G                  
Sbjct: 38  EDKLQIIIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEK 97

Query: 76  ------------LAILAGDLLISRALVALASLKHTEVIMECYMQKTYNKTAALVSNSCKA 123
                             +L   + L       +T    E Y      KT  L   +   
Sbjct: 98  VLTLDHPDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGL 157

Query: 124 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPIL 183
           +   S  +E++          LGL +Q+ DD  +      S  K+   DL  G  + P +
Sbjct: 158 MQLFSDYKEDL----KPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTI 213

Query: 184 FAME---EFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL 240
            A+    E  Q++  +   ++N       + YL      + T     +  + A   ID+ 
Sbjct: 214 HAIWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDAR 273

Query: 241 PETHDVDATNARTALVHITQKI 262
                        ALV    K+
Sbjct: 274 GG------NPELVALVKHLSKM 289

>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]} Length = 280

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Octoprenyl-diphosphate synthase
species: Thermotoga maritima [TaxId: 2336]

 Score = 68.9 bits (167), Expect = 3e-14
 Identities = 32/147 (21%), Positives = 62/147 (42%), Gaps = 9/147 (6%)

Query: 96  KHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
           ++  +  E Y++    K+ AL   + +  A L G+  E     +  G  +G  YQ+ DDI
Sbjct: 142 RYKPITKEEYLRIVEGKSGALFGLALQLPALLEGELGEDL---YNLGVTIGTIYQMFDDI 198

Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
           +DF G           DL+NG+ + P++ AME+FP+ R    +      +   ++ ++ +
Sbjct: 199 MDFAGMEKIGKDGF-LDLKNGVASFPLVTAMEKFPEARQMFENR-----DWSGLMSFMRE 252

Query: 216 SHGIQRTTELALKHASLAAAAIDSLPE 242
              ++   E               L +
Sbjct: 253 KGILKECEETLKVLVKNVIIENSWLRD 279

>d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Chicken (Gallus gallus) [TaxId: 9031]} Length = 348

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Farnesyl diphosphate synthase (geranyltranstransferase)
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 67.0 bits (162), Expect = 2e-13
 Identities = 40/273 (14%), Positives = 81/273 (29%), Gaps = 50/273 (18%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--------- 88
           +    E+     L+ DD++D + TRRG        G  L  +    L+  +         
Sbjct: 83  VGWCIELFQAFFLVADDIMDQSLTRRGQLCWYKKEGVGLDAINDSFLLESSVYRVLKKYC 142

Query: 89  ------------------------LVALASLKHTEVIMECYMQKTYNKTAALVSNSCKAV 124
                                   ++ L +   ++V +  + ++ Y       +      
Sbjct: 143 RQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFY 202

Query: 125 AYLSGQ-------REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGI 177
             ++          +E    A      +G  +Q+ DD LD  G  A  GK   TD+++  
Sbjct: 203 LPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGKVG-TDIQDNK 261

Query: 178 ITAPILFAMEEF-PQLRAFINS--SSDNPANVDVILEYLGKSHGIQRTTELALKHASLAA 234
            +  ++  ++   P+ R  +        P  V  + E            +          
Sbjct: 262 CSWLVVQCLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQ 321

Query: 235 AAIDSLPETHDVDATNARTALVHITQKIITRNK 267
             I+             +   + + QKI  R K
Sbjct: 322 ELIEKHSN------RLPKEIFLGLAQKIYKRQK 348

>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]} Length = 299

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 = 53.1 bits (126), Expect = 8e-09
 Identities = 63/269 (23%), Positives = 94/269 (34%), Gaps = 77/269 (28%)

Query: 38  IAEITEMIHVASLIHDDVLDDADTRR--GIGSLSSVMGNKLAILAGDLLISRALVALASL 95
            A   E IH  SLIHDD+    D     G+ +     G   AILAGD L + A   L+  
Sbjct: 69  PAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDA 128

Query: 96  KHTEV------------------------------------IMECYMQKTYNKTAALVSN 119
              EV                                     ++   +   +KT AL+  
Sbjct: 129 DMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRA 188

Query: 120 SCKAVAYLSGQREEVATLAF-EYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGII 178
           + +  A  +G +   A     +Y +++GLA+Q+ DDILD  G +A+LGK    D + G  
Sbjct: 189 AVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKS 248

Query: 179 TAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAID 238
           T P L  +E+                                   + A      A  ++ 
Sbjct: 249 TYPALLGLEQ---------------------------------ARKKARDLIDDARQSLK 275

Query: 239 SLPETHDVDATNARTALVHITQKIITRNK 267
            L E      +   +AL  +   II RNK
Sbjct: 276 QLAEQ-----SLDTSALEALADYIIQRNK 299

>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]} Length = 290

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Farnesyl diphosphate synthase (geranyltranstransferase)
species: Staphylococcus aureus [TaxId: 1280]

 Score = 41.2 bits (95), Expect = 6e-05
 Identities = 46/190 (24%), Positives = 69/190 (36%), Gaps = 36/190 (18%)

Query: 35  QQCIAEITEMIHVASLIHDDVLDDADTRRG--IGSLSSVMGNKLAILAGDLLISRALVAL 92
               A   EMIH  SLIHDD+    +        +   V G   AILAGD L+++A   +
Sbjct: 63  GMKSAIALEMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELI 122

Query: 93  ASLKHTEVI----------------------------------MECYMQKTYNKTAALVS 118
           +S                                         +E        KT AL++
Sbjct: 123 SSDDRLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLT 182

Query: 119 NSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGII 178
            +  + A ++   +        Y  +LG+ +Q+ DD+LD  G  A LGK   +DL N   
Sbjct: 183 FAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKS 242

Query: 179 TAPILFAMEE 188
           T   L   + 
Sbjct: 243 TYVSLLGKDG 252

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	267
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
d1rqja_	299	Farnesyl diphosphate synthase (geranyltranstransfe	100.0
d1rtra_	290	Farnesyl diphosphate synthase (geranyltranstransfe	100.0
d1ezfa_	333	Squalene synthase {Human (Homo sapiens) [TaxId: 96	96.3

>d2q80a1 a.128.1.1 (A:6-296) Geranylgeranyl pyrophosphate synthetase {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=100.00  E-value=2.2e-57  Score=405.56  Aligned_cols=231  Identities=24%  Similarity=0.290  Sum_probs=204.0

Q ss_pred             HHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHHH
Q 024463            3 VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGD   82 (267)
Q Consensus         3 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~Gd   82 (267)
                      +++++++++|.                 .++.+..+|+++|+||+||||||||+|+|++|||+||+|.+||+++|||+||
T Consensus        26 l~~~~~~~~~~-----------------~~~~~~~~a~aiEllH~asLihDDi~D~~~~RRg~pt~~~~~G~~~Ail~gd   88 (291)
T d2q80a1          26 LSQAFNHWLKV-----------------PEDKLQIIIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSAN   88 (291)
T ss_dssp             HHHHHHHHHCC-----------------CHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEETTEECHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHhCC-----------------CHHHHHHHHHHHHHHHHHHHHhcccccCcccccCCCccccccchhhhhhHHH
Confidence            67778888864                 4578999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCChhHH----------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHH
Q 024463           83 LLISRALVALASLKHTEVI----------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEV  134 (267)
Q Consensus        83 ~Ll~~a~~~l~~~~~~~~~----------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~  134 (267)
                      ||++.+++.+.+..+++..                            +++|++|+.+|||+||++||.+|+++++.+++ 
T Consensus        89 ~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~gq~~d~~~~~~~~~~s~~~y~~ii~~KT~~Lf~~~~~~ga~~~~~~~~-  167 (291)
T d2q80a1          89 YVYFLGLEKVLTLDHPDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKED-  167 (291)
T ss_dssp             HHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCSC-
T ss_pred             HHHHHHHHhhhhhhhhHHHHHHHHHHHHhHhccccccccccccccCCHHHHHHHHHhccchhhHhhhhhhhhhcccchh-
Confidence            9999999999988765432                            67899999999999999999999999998753 


Q ss_pred             HHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhCh---HHHHHhccCCCChhhHHHHHH
Q 024463          135 ATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFP---QLRAFINSSSDNPANVDVILE  211 (267)
Q Consensus       135 ~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~---~~~~~l~~~~~~~~~~~~i~~  211 (267)
                         +.+||+++|++|||+||++|++++++.+|||.|+||++||+|||++++++..+   ++.+++.+...+.+.++.+++
T Consensus       168 ---l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~g~Dl~~gK~Tlpvi~al~~~~~~~~l~~il~~~~~~~~~~~~i~~  244 (291)
T d2q80a1         168 ---LKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQRTENIDIKKYCVH  244 (291)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHCC------CTTHHHHHTCCCHHHHHHHHHSTTCCHHHHHHHHTCCCHHHHHHHHH
T ss_pred             ---hHHHHHHHHHHHHHHHHhhhhccchhhccccccchhccCCCcHHHHHHHHhcccHHHHHHHHhcccCCHHHHHHHHH
Confidence               78999999999999999999999999999999999999999999999998754   577888888888899999999


Q ss_pred             HHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHH
Q 024463          212 YLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQ  260 (267)
Q Consensus       212 ~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~  260 (267)
                      +++++|++++|++.+++|.++|++.|+.+|.++      .+..|.+.+.
T Consensus       245 ~l~~~ga~~~a~~~~~~~~~~A~~~L~~l~~~~------~~~~L~~~L~  287 (291)
T d2q80a1         245 YLEDVGSFEYTRNTLKELEAKAYKQIDARGGNP------ELVALVKHLS  287 (291)
T ss_dssp             HHHHHTHHHHHHHHHHHHHHHHHHHHHHTTCCH------HHHHHHHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHHHHHHcCCCCH------HHHHHHHHHH
Confidence            999999999999999999999999999999887      5555544433

>d1fpsa_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Chicken (Gallus gallus) [TaxId: 9031]}

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Farnesyl diphosphate synthase (geranyltranstransferase)
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=100.00  E-value=3e-54  Score=394.14  Aligned_cols=249  Identities=18%  Similarity=0.183  Sum_probs=211.8

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .+++++++++|....          ...+..+.++++|+++|+||+||||||||||+|++|||+||+|++||++.||+.|
T Consensus        57 ~l~l~~~~~~~~~~~----------~~~~~~~~~~~~A~avEliH~asLihDDi~D~~~~RRG~pt~~~~~g~~~ail~g  126 (348)
T d1fpsa_          57 LTVVAAYRELSGPGQ----------KDAESLRCALAVGWCIELFQAFFLVADDIMDQSLTRRGQLCWYKKEGVGLDAIND  126 (348)
T ss_dssp             HHHHHHHHHHCCTTS----------CSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCEETTEECTTTSTTTTTTHHHH
T ss_pred             HHHHHHHHHhCCCcc----------cchHHHHHHHHHHHHHHHHHHHHHHhCccccCCccccccchhhhhccccHHHHHH
Confidence            368899999986432          1234567789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH-HcC--CCh---hHH--------------------------------HHHHHHHHhchHHHH--HHHHH
Q 024463           82 DLLISRALVAL-ASL--KHT---EVI--------------------------------MECYMQKTYNKTAAL--VSNSC  121 (267)
Q Consensus        82 d~Ll~~a~~~l-~~~--~~~---~~~--------------------------------~~~y~~~~~~KTa~l--~~~~~  121 (267)
                      |||++.++..+ ...  ...   +++                                +++|++|+.+|||+|  |..++
T Consensus       127 d~ll~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~~~~~~~~~t~~~Y~~~i~~KTa~l~~~~~~~  206 (348)
T d1fpsa_         127 SFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVA  206 (348)
T ss_dssp             HHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHSCTTTCCSSSCCHHHHHHHHHHHTHHHHTHHHHH
T ss_pred             HHHHHHHHHHHHHhhccchHHHHHHHHhhhhhhhHHHHHHHHHHhhhccccccccccCHHHHHHHHHHHhhhhhHHHHHH
Confidence            99998775433 221  110   111                                578999999999998  45555


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhC-hHHHHHhccCC
Q 024463          122 KAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-PQLRAFINSSS  200 (267)
Q Consensus       122 ~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~-~~~~~~l~~~~  200 (267)
                      ..|+++++.+++..+.+.+||.++|+||||+||++|++++++.+|| .|+||++||+|||++++++.. ++.++.+.+..
T Consensus       207 ~~~~~~~~~~~~~~~~l~~~g~~lGiaFQI~DDilD~~gd~~~~GK-~g~Dl~egK~Tlpii~al~~~~~~~r~~l~~~~  285 (348)
T d1fpsa_         207 AAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGK-VGTDIQDNKCSWLVVQCLQRVTPEQRQLLEDNY  285 (348)
T ss_dssp             HHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCSSCCSS-CSCCCSSCCCCHHHHHHHHTCCHHHHHHHHHHS
T ss_pred             HHHHhhhhccccchhhccccccccchHHHHHHHHhhhhcchhccCc-ccccccCCccHHHHHHHHHhCCHHHHHHHHHHh
Confidence            6666777788888999999999999999999999999999999999 799999999999999999974 55555554332


Q ss_pred             --CChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          201 --DNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       201 --~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                        .+++++++++++++++|+++++++.++.+.+++.+.++.+|++.      .++.|..+++++++|+|
T Consensus       286 ~~~~~e~i~~v~~~i~~~g~~~~~~~~~~~~~~~a~~~l~~~~~~~------~~~~L~~l~~~i~~R~k  348 (348)
T d1fpsa_         286 GRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELIEKHSNRL------PKEIFLGLAQKIYKRQK  348 (348)
T ss_dssp             SSSCHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHTTTCSSS------CTHHHHHHHHHHSCCCC
T ss_pred             CCCCHHHHHHHHHHHHHCChHHHHHHHHHHHHHHHHHHHHcCCCcH------HHHHHHHHHHHHHhCCC
Confidence              35678899999999999999999999999999999999999888      78999999999999987

>d1v4ea_ a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Octoprenyl-diphosphate synthase
species: Thermotoga maritima [TaxId: 2336]

Probab=100.00  E-value=4.1e-52  Score=369.39  Aligned_cols=216  Identities=27%  Similarity=0.447  Sum_probs=193.7

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCcCcchhccchhHHHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG   81 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~D~s~~RRg~pt~~~~~G~~~Ai~~G   81 (267)
                      .++++.++++|..                .++.++++|+++|++|+||||||||||+|++|||+||+|.+||++.||++|
T Consensus        38 ~l~~~~~~~~g~~----------------~~~~~~~~AaaiEliH~asLIhDDi~D~s~~RRG~pt~h~~~g~~~ail~g  101 (280)
T d1v4ea_          38 RLSILSFKNRGVE----------------IGEDAISSLAALELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAG  101 (280)
T ss_dssp             HHHHHHHHHHTCC----------------CCHHHHHHHHHHHHHHHHHHHHHHHHHTCSEETTEECHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHcCCC----------------ccHHHHHHHHHHHHHHHHHHHhhhHhhhcccccccchhhhccchhhhhhhH
Confidence            3677888888742                346889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCChhHH--------------------------HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHH
Q 024463           82 DLLISRALVALASLKHTEVI--------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVA  135 (267)
Q Consensus        82 d~Ll~~a~~~l~~~~~~~~~--------------------------~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~  135 (267)
                      |+|++.+++.++...+++..                          +++|++|+.+|||+||.+||.+|++++|...+  
T Consensus       102 d~l~~~a~~~l~~~~~~~~~~~l~~~~~~~~~Gq~~d~~~~~~~~t~~~y~~~i~~KT~~lf~~~~~~ga~l~g~~~~--  179 (280)
T d1v4ea_         102 DLVLVSAFHTVEEIGNNKLRRAFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEGELGE--  179 (280)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCCH--
T ss_pred             HHHHHhhhhcccccccccccccchhhcccchhHHHHHHHhccCCCCHHHHHHHHHhccccHHHHHHHHHHHHccccHH--
Confidence            99999999999887765432                          67899999999999999999999999997654  


Q ss_pred             HHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhhHHHHHHHHHh
Q 024463          136 TLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK  215 (267)
Q Consensus       136 ~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~  215 (267)
                       .+++||.++|++|||+||++|+++++ .+||+.++||++||+|||++++++..++.++.+..     ++++.+++++++
T Consensus       180 -~l~~~g~~lG~afQi~DD~ld~~~~~-~~GK~~g~Dl~~gK~T~p~i~al~~~~~~~~~~~~-----~~~~~~~~~~~~  252 (280)
T d1v4ea_         180 -DLYNLGVTIGTIYQMFDDIMDFAGME-KIGKDGFLDLKNGVASFPLVTAMEKFPEARQMFEN-----RDWSGLMSFMRE  252 (280)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHTTCC-SCCTTSSCCCTTTTCCHHHHHHHHHCHHHHHHHHT-----TCHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHHHhhccccchh-hhcccchhhHhCCCccHHHHHHHHhCHHHHHHHHH-----HHHHHHHHHHHH
Confidence             58899999999999999999999886 57999999999999999999999998877766643     467889999999


Q ss_pred             cchHHHHHHHHHHHHHHHHHHhhcCCC
Q 024463          216 SHGIQRTTELALKHASLAAAAIDSLPE  242 (267)
Q Consensus       216 ~g~i~~a~~~~~~~~~~a~~~L~~lp~  242 (267)
                      +|+++++++.++.+.+++...+..+|+
T Consensus       253 ~~~~~~~~~~~~~l~~~a~~~~~~l~d  279 (280)
T d1v4ea_         253 KGILKECEETLKVLVKNVIIENSWLRD  279 (280)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHCGGGCC
T ss_pred             cCHHHHHHHHHHHHHHHHHHHhhcCCC
Confidence            999999999999999999988877764

>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]}

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=2.5e-50  Score=361.05  Aligned_cols=210  Identities=31%  Similarity=0.421  Sum_probs=182.5

Q ss_pred             HHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhc--CCCCCCCCcCcchhccchhHHHHH
Q 024463            3 VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVL--DDADTRRGIGSLSSVMGNKLAILA   80 (267)
Q Consensus         3 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~--D~s~~RRg~pt~~~~~G~~~Ai~~   80 (267)
                      +++++++++|.                 ..+.+.++|+++|++|+||||||||+  |+++.|||+||+|.+||+++||++
T Consensus        51 l~~~~~~~~g~-----------------~~~~~~~~A~aiEllH~asLiHDDI~d~d~~~~RRG~pt~h~~~G~~~AIl~  113 (299)
T d1rqja_          51 LVYATGHMFGV-----------------STNTLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILA  113 (299)
T ss_dssp             HHHHHHHHTTC-----------------CHHHHHHHHHHHHHHHHHHHHHHTSTTTTCCCEETTEECHHHHHCHHHHHHH
T ss_pred             HHHHHHHHcCC-----------------cchhHHHHHHHHHHHHHHHHHHccchhhhhhhcccccccceeeeCcchhhhh
Confidence            56777777764                 56789999999999999999999998  555899999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCChhH---------------------H---------------HHHHHHHHhchHHHHHHHHHHHH
Q 024463           81 GDLLISRALVALASLKHTEV---------------------I---------------MECYMQKTYNKTAALVSNSCKAV  124 (267)
Q Consensus        81 Gd~Ll~~a~~~l~~~~~~~~---------------------~---------------~~~y~~~~~~KTa~l~~~~~~~g  124 (267)
                      ||+|++.+++.++...++..                     +               +++|+.++.+|||++|.+++.+|
T Consensus       114 Gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~GQ~ldl~~~~~~~~~~~~~~i~~~KT~~l~~~~~~~~  193 (299)
T d1rqja_         114 GDALQTLAFSILSDADMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRAAVRLG  193 (299)
T ss_dssp             HHHHHHHHHHHHHHSCCTTCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTTCCCHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHhCCCccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhccCcccHHHHHHHHHHHHhhHHHHHHHhh
Confidence            99999999999987754210                     0               57899999999999999999998


Q ss_pred             HHHhC-CCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCCh
Q 024463          125 AYLSG-QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNP  203 (267)
Q Consensus       125 a~la~-~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~  203 (267)
                      +.+++ .+.+..+.+.+||.++|++|||+||++|++++++.+||+.++||++||+|||+++++                 
T Consensus       194 a~~~~~~~~~~~~~l~~~g~~lGiaFQi~DD~lD~~~~~~~~GK~~g~Dl~egK~Tlp~i~~l-----------------  256 (299)
T d1rqja_         194 ALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGL-----------------  256 (299)
T ss_dssp             HHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSSCTTHHHHHTCCCHHHHHCH-----------------
T ss_pred             hhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhcCCchhhHHHCCChhHHHHHHH-----------------
Confidence            87654 555667889999999999999999999999999999999999999999999999955                 


Q ss_pred             hhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhccC
Q 024463          204 ANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK  267 (267)
Q Consensus       204 ~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R~~  267 (267)
                                      +++....+++.+++++.|+.++....     .++.|..+++++++|+|
T Consensus       257 ----------------e~a~~~~~~~~~~~~~~l~~l~~~~~-----~~~~L~~l~~~i~~R~K  299 (299)
T d1rqja_         257 ----------------EQARKKARDLIDDARQSLKQLAEQSL-----DTSALEALADYIIQRNK  299 (299)
T ss_dssp             ----------------HHHHHHHHHHHHHHHHHHHHHHTTTC-----CCHHHHHHHHHHHHCCC
T ss_pred             ----------------HHHHHHHHHHHHHHHHHHHhhhcccc-----cHHHHHHHHHHHHhCCC
Confidence                            45666677888888898988876442     45889999999999987

>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Isoprenyl diphosphate synthases
domain: Farnesyl diphosphate synthase (geranyltranstransferase)
species: Staphylococcus aureus [TaxId: 1280]

Probab=100.00  E-value=1.1e-49  Score=355.27  Aligned_cols=208  Identities=29%  Similarity=0.349  Sum_probs=173.0

Q ss_pred             hHHHHHHHhhccCCCCCCCCccccchhhhhHHHHHHHHHHHHHHHHHHHHHhhhc--CCCCCCCCcCcchhccchhHHHH
Q 024463            2 QVILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVL--DDADTRRGIGSLSSVMGNKLAIL   79 (267)
Q Consensus         2 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~AaavEllH~asLIhDDI~--D~s~~RRg~pt~~~~~G~~~Ai~   79 (267)
                      .+++++++++|.                 .++.++++|+++|++|+||||||||+  |+++.|||+||+|.+||++.||+
T Consensus        47 ~l~~~~~~~~~~-----------------~~~~~~~~A~avEllH~asLIHDDI~d~D~~~~RRg~pt~~~~~g~~~Ail  109 (290)
T d1rtra_          47 VLLLLTLDSLNT-----------------EYELGMKSAIALEMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAIL  109 (290)
T ss_dssp             HHHHHHHHHTTS-----------------CGGGGHHHHHHHHHHHHHHHHHHHSTTTTCCSEETTEECHHHHHCHHHHHH
T ss_pred             HHHHHHHHHcCC-----------------CchhhHHHHHHHHHHHHHHHHhcchhhhhhhhhhhcchhhHHHhhhhHHHH
Confidence            367777888864                 34567899999999999999999995  99999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCChhH-------------------H---------------HHHHHHHHhchHHHHHHHHHHHHH
Q 024463           80 AGDLLISRALVALASLKHTEV-------------------I---------------MECYMQKTYNKTAALVSNSCKAVA  125 (267)
Q Consensus        80 ~Gd~Ll~~a~~~l~~~~~~~~-------------------~---------------~~~y~~~~~~KTa~l~~~~~~~ga  125 (267)
                      +||++++.|++.++...+...                   +               ++.|..++++|||++|.+++.+|+
T Consensus       110 ~Gd~l~~~a~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~GQ~~Dl~~~~~~~~~~~~~~i~~~KT~~l~~~~~~~~a  189 (290)
T d1rtra_         110 AGDALLTKAFELISSDDRLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTFAVMSAA  189 (290)
T ss_dssp             HHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred             cCcchhHHHHHHHHhCCCcchhhHhHHHHHHHHHHhHHHHHHhHHHHHHhcccCCCHHHHHHHHHHHHHHHHHhhhhhhh
Confidence            999999999999887653210                   0               578999999999999999999999


Q ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHHHHHHhhhChHHHHHhccCCCChhh
Q 024463          126 YLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPAN  205 (267)
Q Consensus       126 ~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp~l~al~~~~~~~~~l~~~~~~~~~  205 (267)
                      ++++.+++..+.+.+||.++|++|||+||++|++++++.+||+.|+||++||+|||+++++                   
T Consensus       190 ~~~~~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~g~~~~~GK~~g~Di~~gK~T~p~i~a~-------------------  250 (290)
T d1rtra_         190 DIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLLGK-------------------  250 (290)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-------------CCHHHHHHH-------------------
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhccCcccHhhcCCccHHHHHHH-------------------
Confidence            9999999999999999999999999999999999999999999999999999999999965                   


Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCCCccchHHHHHHHHHHHHHHhc
Q 024463          206 VDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITR  265 (267)
Q Consensus       206 ~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~~~~~~~~~~~L~~l~~~~~~R  265 (267)
                                    +.+.+.+..+.+++.+.+..++...      .++.|.++++++++|
T Consensus       251 --------------~~a~~~~~~~~~~~~~~l~~~~~~~------~~~~l~el~d~i~~R  290 (290)
T d1rtra_         251 --------------DGAEDKLTYHRDAAVDELTQIDEQF------NTKHLLEIVDLFYSR  290 (290)
T ss_dssp             --------------HHHHHHHHHHHHHHHHHHHTSCTTS------CCHHHHHHHHHHHCC
T ss_pred             --------------HHHHHHHHHHHHHHHHHHHhCcCch------hHHHHHHHHHHHHcC
Confidence                          4456678888899999999998776      457899999999987

>d1ezfa_ a.128.1.2 (A:) Squalene synthase {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.30  E-value=0.012  Score=50.65  Aligned_cols=120  Identities=15%  Similarity=0.115  Sum_probs=74.1

Q ss_pred             HHHHHHHHhchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcchhhhhccccCccccCCCcccccccCcccHH
Q 024463          102 MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP  181 (267)
Q Consensus       102 ~~~y~~~~~~KTa~l~~~~~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~GK~~~~Dl~~gk~Tlp  181 (267)
                      ++++..-+++-.|+.-.+.+.+-..-...++ ..+....++.++|+|+|+.|=+.|+.           .|+..|++-||
T Consensus       128 ~~dL~~Ycy~VAG~VG~~l~~l~~~~~~~~~-~~~~~~~~A~~lG~AlQltNIlRDi~-----------eD~~~gR~YlP  195 (333)
T d1ezfa_         128 EQEWDKYCHYVAGLVGIGLSRLFSASEFEDP-LVGEDTERANSMGLFLQKTNIIRDYL-----------EDQQGGREFWP  195 (333)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHHHHTSSCH-HHHHCHHHHHHHHHHHHHHHHHHTHH-----------HHHHHTCCCSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCcCCCccc-cHHHHHHHHHHHHHHHHHHHHHHhhH-----------HHHhCCcEECC
Confidence            3444444444455544555555433332333 33456788999999999999988884           67788999888


Q ss_pred             HHHHhhhChHHHHHhccCCCChhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 024463          182 ILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH  244 (267)
Q Consensus       182 ~l~al~~~~~~~~~l~~~~~~~~~~~~i~~~i~~~g~i~~a~~~~~~~~~~a~~~L~~lp~~~  244 (267)
                      .=..-+..-...++.     +++..+.+..      +++.....++.|++.|.+-+..+|...
T Consensus       196 ~e~l~~~g~~~~dl~-----~~~~~~~~~~------~~~~l~~~A~~~~~~a~~y~~~lp~~~  247 (333)
T d1ezfa_         196 QEVWSRYVKKLGDFA-----KPENIDLAVQ------CLNELITNALHHIPDVITYLSRLRNQS  247 (333)
T ss_dssp             HHHHTTTCSSGGGGG-----SGGGHHHHHH------HHHHHHHHHHTTHHHHHHHHHTCCCHH
T ss_pred             HHHHHHcCCCHHHHH-----hccchHHHHH------HHHHHHHHHHHHHHHHHHHHHHCCchh
Confidence            765433221111111     1222233322      456677889999999999999999643