Psyllid ID: psy17022

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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-------270-------280-------
Protein Sequence
MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHcccccHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHccccHHHHHccccHHHHHHHHHHcHHcccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHcccHHHHHHcccccHHHHHHHHcccccHHHHHHHccccccHHHHHHHHHHccHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHcccccHHHHHcccHHHHHHHccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHccccccHHHHcccccHHHHHHHHccHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHccccccHHHHcccccHHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHHccHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAsamlggaddKLSEVAFEYGRNLGIAFQLVDDLLDfisssdamgkptaADLKLGLATAPVLFACEKsamlggaddKLSEVAFEYGRNLGIAFQLVDDLLDfisssdamgkptaADLKLGLatapvlfacekfpelnpMIMRrfqepgdveKAFEFVhksqgleqTKFLARKH
Flexible Loop (DISEMBL)
MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVhksqgleqtkflarkh
Low Complexity Region (SEG)
MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH
Disordered region (IsUnstruct)
***DFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFV****************
Disordered Region (DISOPRED)
MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH
Disordered Region (DISEMBL)
MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH
Disordered Region (DISPRO)
*AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH
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	287	2.2.26 [Sep-21-2011]
Q5T2R2	415	Decaprenyl-diphosphate sy	yes	N/A	0.379	0.262	0.688	7e-41
Q33DR2	409	Decaprenyl-diphosphate sy	yes	N/A	0.379	0.266	0.678	1e-40
P18900	473	Hexaprenyl pyrophosphate	yes	N/A	0.634	0.384	0.4	7e-30
Q7S565	449	Probable hexaprenyl pyrop	N/A	N/A	0.358	0.229	0.527	3e-29
Q6CBH3	452	Probable hexaprenyl pyrop	yes	N/A	0.209	0.132	0.509	3e-28
Q54VJ9	456	Decaprenyl-diphosphate sy	yes	N/A	0.313	0.197	0.514	2e-27
Q653T6	430	Solanesyl-diphosphate syn	yes	N/A	0.369	0.246	0.472	6e-27
O43091	378	Decaprenyl-diphosphate sy	yes	N/A	0.209	0.158	0.481	2e-25
Q5HZ00	422	Solanesyl diphosphate syn	yes	N/A	0.560	0.381	0.339	8e-25
P72580	323	Prenyl transferase OS=Syn	N/A	N/A	0.494	0.439	0.404	9e-23

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

 Score =  167 bits (424), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 75/109 (68%), Positives = 94/109 (86%)

Query: 73  IMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAF 132
           ++ DLV+GEF+QLGSKE ENERFAHYL KT++KTASLIAN  KA ++LG  D  + E+A+
Sbjct: 234 VIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDPVVHEIAY 293

Query: 133 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
           +YG+N+GIAFQL+DD+LDF S SD MGKPT+ADLKLGLAT PVLFAC++
Sbjct: 294 QYGKNVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGLATGPVLFACQQ 342

Supplies decaprenyl diphosphate, the precursor for the side chain of the isoprenoid quinones ubiquinone-10.
Homo sapiens (taxid: 9606)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 9EC: 1

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

 Score =  167 bits (422), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 74/109 (67%), Positives = 94/109 (86%)

Query: 73  IMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAF 132
           ++ DLV+GEF+QLGSKE ENERFAHYL KT++KTASLIAN  KA ++LG  D  + E+A+
Sbjct: 228 VIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDPVVHEIAY 287

Query: 133 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
           +YG+N+GIAFQL+DD+LDF S SD MGKPT+ADLKLG+AT PVLFAC++
Sbjct: 288 QYGKNVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGIATGPVLFACQQ 336

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|P18900|COQ1_YEAST Hexaprenyl pyrophosphate synthase, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=COQ1 PE=1 SV=1

 Score =  131 bits (329), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 76/190 (40%), Positives = 111/190 (58%), Gaps = 8/190 (4%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENE----RFAHYLT 56
           +AGDF+L  A   ISRL + +V   +S  + +LV+GEFMQL +   + +       H L 
Sbjct: 219 LAGDFLLGRATVSISRLHNPEVVELMSNSIANLVEGEFMQLKNTSIDADIDTIENGHKLL 278

Query: 57  KTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKA 116
               K   +  +  +  +    QG  +QL   +     F +Y+ KTY KTA+LI+   + 
Sbjct: 279 PVPSKKLEVKEHDFR--VPSRQQG--LQLSHDQIIETAFEYYIHKTYLKTAALISKSCRC 334

Query: 117 SAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVL 176
           +A+L GA   + +  +++GRNLGI FQLVDD+LDF  S   +GKP+ ADLKLG+ATAPVL
Sbjct: 335 AAILSGASPAVIDECYDFGRNLGICFQLVDDMLDFTVSGKDLGKPSGADLKLGIATAPVL 394

Query: 177 FACEKSAMLG 186
           FA ++   LG
Sbjct: 395 FAWKEDPSLG 404

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.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: -

>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 =  129 bits (323), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 58/110 (52%), Positives = 81/110 (73%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C  SA+LGGAD    + A+ YG+NLG+AFQLVDD+LD+  S   +GKP  ADL+LGLAT
Sbjct: 308 SCRASALLGGADAATVDAAYLYGKNLGLAFQLVDDMLDYTRSEKELGKPAGADLELGLAT 367

Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           AP+LFA +  PEL P++ R+F++ GD  +A E V +S G+EQT+ LA+ +
Sbjct: 368 APLLFAWKTMPELGPLVGRKFEKEGDAARARELVLQSNGIEQTRALAQDY 417

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

 Score =  125 bits (315), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 56/110 (50%), Positives = 81/110 (73%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C  +A+L GA + + + ++++G+NLG+ FQ+VDD+LD+      +GKP  ADLKLGLAT
Sbjct: 311 SCRAAAVLSGARNPIVDASYKFGKNLGLCFQVVDDMLDYSEGESHLGKPAGADLKLGLAT 370

Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           APVLFA EK+PEL  MI R+F  PGDVE+A   V ++ GL +T+ LA+K+
Sbjct: 371 APVLFAWEKYPELGDMIKRKFDGPGDVERARFLVQQADGLSRTRELAQKY 420

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

 Score =  123 bits (309), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 55/107 (51%), Positives = 80/107 (74%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C  +A+L GAD  +  ++ E+G+NLG+AFQ+VDDLLD+  S++  GK T+ DL LGLAT
Sbjct: 315 SCRSAAILSGADSNIINISTEFGKNLGLAFQIVDDLLDYTGSAEECGKATSVDLTLGLAT 374

Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLA 284
           APVL+A ++FP+L  +I R+F E GDVE+A   V  S+G+E+T+ LA
Sbjct: 375 APVLYATQEFPQLEKLIKRKFSEIGDVEEAKRLVALSKGIEKTRNLA 421

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

 Score =  121 bits (303), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 52/110 (47%), Positives = 83/110 (75%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C+  A+L G    +S +A+EYGRNLG+AFQL+DD+LDF  +S ++GK +  D++ G+ T
Sbjct: 283 SCKAVAILAGHTADVSMLAYEYGRNLGLAFQLIDDVLDFTGTSASLGKGSLTDIRHGIIT 342

Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           AP+L+A E+FP+L+ ++ R F  P +VE A +++ KS+G+E+TK LAR+H
Sbjct: 343 APMLYAMEEFPQLHEVVDRGFDNPANVELALDYLQKSRGIEKTKELAREH 392

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|O43091|DPS1_SCHPO Decaprenyl-diphosphate synthase subunit 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=dps1 PE=1 SV=1

 Score =  116 bits (290), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 53/110 (48%), Positives = 74/110 (67%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C+ S +LG     ++  A EYGR +G AFQL+DD+LD+ S  D +GK   ADLKLGLAT
Sbjct: 237 SCKASTILGQCSPTVATAAGEYGRCIGTAFQLMDDVLDYTSKDDTLGKAAGADLKLGLAT 296

Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           APVLFA +K+PEL  MI+ RF  P D+++A   V  +  +EQT   A+++
Sbjct: 297 APVLFAWKKYPELGAMIVNRFNHPSDIQRARSLVECTDAIEQTITWAKEY 346

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

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 1

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

 Score =  114 bits (285), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 72/212 (33%), Positives = 113/212 (53%), Gaps = 51/212 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           +AGDF+L+ AC  ++ L++ +V                                      
Sbjct: 207 LAGDFLLSRACGALAALKNTEVV------------------------------------- 229

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
              +L+A  V+     LV GE M++ S   +     +Y+ KTY KTASLI+N  KA A+L
Sbjct: 230 ---ALLATAVE----HLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVL 282

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            G   +++ +AFEYGRNLG+AFQL+DD+LDF  +S ++GK + +D++ G+ TAP+LFA E
Sbjct: 283 TGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAME 342

Query: 181 KSAMLGGADDKLS------EVAFEY-GRNLGI 205
           +   L    D++       ++A EY G++ GI
Sbjct: 343 EFPQLREVVDQVEKDPRNVDIALEYLGKSKGI 374

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: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 8

EC: 5

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

 Score =  107 bits (268), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 59/146 (40%), Positives = 87/146 (59%), Gaps = 4/146 (2%)

Query: 66  IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD 125
           +   +  ++ D  +GE +Q  ++   +     YL K+Y KTASLIAN  KA+ +L  A  
Sbjct: 135 VVKLLSEVIRDFAEGEILQSINRFDTDTDLETYLEKSYFKTASLIANSAKAAGVLSDAPR 194

Query: 126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAML 185
            + +  +EYG++LG+AFQ+VDD+LDF S ++ +GKP  +DL  G  TAP LFA EK  +L
Sbjct: 195 DVCDHLYEYGKHLGLAFQIVDDILDFTSPTEVLGKPAGSDLISGNITAPALFAMEKYPLL 254

Query: 186 GGADDKLSEVAFEYGRNLGIAFQLVD 211
           G    KL E  F    +L  A +LV+
Sbjct: 255 G----KLIEREFAQAGDLEQALELVE 276

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: -

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	287
195341723	461	GM12094 [Drosophila sechellia] gi|194131	0.707	0.440	0.522	2e-70
195575272	461	GD16491 [Drosophila simulans] gi|1942015	0.707	0.440	0.522	2e-70
345494369	475	PREDICTED: decaprenyl-diphosphate syntha	0.477	0.288	0.646	6e-57
242011677	262	Decaprenyl-diphosphate synthase subunit,	0.477	0.522	0.657	8e-57
328713339	338	PREDICTED: decaprenyl-diphosphate syntha	0.477	0.405	0.646	3e-56
270001562	339	hypothetical protein TcasGA2_TC000408 [T	0.477	0.404	0.624	1e-54
91077592	446	PREDICTED: similar to AGAP000591-PA [Tri	0.477	0.307	0.624	2e-54
307175359	337	Decaprenyl-diphosphate synthase subunit	0.498	0.424	0.588	7e-54
195388636	445	GJ23628 [Drosophila virilis] gi|19415107	0.477	0.307	0.596	7e-53
358443028	410	control protein HCTL026 [Heliconius erat	0.477	0.334	0.618	7e-53

>gi|195341723|ref|XP_002037455.1| GM12094 [Drosophila sechellia] gi|194131571|gb|EDW53614.1| GM12094 [Drosophila sechellia]

 Score =  271 bits (694), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 150/287 (52%), Positives = 181/287 (63%), Gaps = 84/287 (29%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGD+IL++A  MI+RLR +DVT+ LSQI+                              
Sbjct: 227 MAGDYILSIASIMIARLRSDDVTIVLSQIL------------------------------ 256

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                         TDLVQGEFMQLGS+ETENERFAHYLTKTYRKTASLIAN +KA+A++
Sbjct: 257 --------------TDLVQGEFMQLGSRETENERFAHYLTKTYRKTASLIANALKATAVI 302

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
             ADD ++EVAF+YGRN+G+AFQLVDD+LDF+SS++ MGKPTAADLKLGLATAPVLFACE
Sbjct: 303 AQADDNVAEVAFQYGRNIGLAFQLVDDMLDFVSSTEQMGKPTAADLKLGLATAPVLFACE 362

Query: 181 KSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240
           K + +G A    S+VA    RN        DD+                           
Sbjct: 363 KMS-IGYA----SKVA-SRRRN--------DDVF-------------------------- 382

Query: 241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           +    K+PELNPM+MRRF EPGDVE+AFE VHKS GLEQT+FLA+KH
Sbjct: 383 MVPAVKYPELNPMVMRRFSEPGDVERAFELVHKSHGLEQTRFLAKKH 429

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195575272|ref|XP_002105603.1| GD16491 [Drosophila simulans] gi|194201530|gb|EDX15106.1| GD16491 [Drosophila simulans]

 Score =  271 bits (693), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 150/287 (52%), Positives = 181/287 (63%), Gaps = 84/287 (29%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGD+IL++A  MI+RLR +DVT+ LSQI+                              
Sbjct: 227 MAGDYILSIASIMIARLRSDDVTIVLSQIL------------------------------ 256

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                         TDLVQGEFMQLGS+ETENERFAHYLTKTYRKTASLIAN +KA+A++
Sbjct: 257 --------------TDLVQGEFMQLGSRETENERFAHYLTKTYRKTASLIANALKATAVI 302

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
             ADD ++EVAF+YGRN+G+AFQLVDD+LDF+SS++ MGKPTAADLKLGLATAPVLFACE
Sbjct: 303 AQADDNVAEVAFQYGRNIGLAFQLVDDMLDFVSSTEQMGKPTAADLKLGLATAPVLFACE 362

Query: 181 KSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240
           K + +G A    S+VA    RN        DD+                           
Sbjct: 363 KMS-IGYA----SKVA-SRRRN--------DDVF-------------------------- 382

Query: 241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           +    K+PELNPM+MRRF EPGDVE+AFE VHKS GLEQT+FLA+KH
Sbjct: 383 MVPAVKYPELNPMVMRRFSEPGDVERAFELVHKSHGLEQTRFLAKKH 429

Source: Drosophila simulans

Species: Drosophila simulans

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345494369|ref|XP_001602352.2| PREDICTED: decaprenyl-diphosphate synthase subunit 1-like [Nasonia vitripennis]

 Score =  226 bits (577), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 117/181 (64%), Positives = 132/181 (72%), Gaps = 44/181 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGDFILAVA  MI+RL+++DVTLTLSQ++T                             
Sbjct: 266 MAGDFILAVASMMIARLQNDDVTLTLSQVIT----------------------------- 296

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                          DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIAN  KA AML
Sbjct: 297 ---------------DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANSAKAVAML 341

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
           GGAD++L+E+AF+YGRN+G+AFQLVDDLLDF+SSSDAMGKPTAADLKLGLATAPVLFACE
Sbjct: 342 GGADERLAELAFQYGRNIGLAFQLVDDLLDFVSSSDAMGKPTAADLKLGLATAPVLFACE 401

Query: 181 K 181
           +
Sbjct: 402 R 402

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242011677|ref|XP_002426574.1| Decaprenyl-diphosphate synthase subunit, putative [Pediculus humanus corporis] gi|212510711|gb|EEB13836.1| Decaprenyl-diphosphate synthase subunit, putative [Pediculus humanus corporis]

 Score =  226 bits (577), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 119/181 (65%), Positives = 129/181 (71%), Gaps = 44/181 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGDFILAVA  MI+RLRD+ VTLTLSQ++T                             
Sbjct: 53  MAGDFILAVASMMIARLRDDKVTLTLSQVVT----------------------------- 83

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                          DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIAN  KA AML
Sbjct: 84  ---------------DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANSAKAVAML 128

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            GAD+ LSEVAF+YGRN+G+AFQLVDDLLDF+SS+DAMGKPTAADLKLGLATAPVLFACE
Sbjct: 129 AGADESLSEVAFQYGRNIGLAFQLVDDLLDFVSSADAMGKPTAADLKLGLATAPVLFACE 188

Query: 181 K 181
           K
Sbjct: 189 K 189

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328713339|ref|XP_001947197.2| PREDICTED: decaprenyl-diphosphate synthase subunit 1-like [Acyrthosiphon pisum]

 Score =  224 bits (572), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 117/181 (64%), Positives = 127/181 (70%), Gaps = 44/181 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGD+ILAV   MI+RL  NDVT+TLSQI+                              
Sbjct: 196 MAGDYILAVTSMMIARLNHNDVTITLSQII------------------------------ 225

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                         TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIAN VKA AML
Sbjct: 226 --------------TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANSVKAEAML 271

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            GADD+L +V+FEYGRN+G+AFQLVDDLLDF+SS DAMGKPTAADLKLGLATAPVLFACE
Sbjct: 272 AGADDQLVDVSFEYGRNIGLAFQLVDDLLDFVSSKDAMGKPTAADLKLGLATAPVLFACE 331

Query: 181 K 181
           K
Sbjct: 332 K 332

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270001562|gb|EEZ98009.1| hypothetical protein TcasGA2_TC000408 [Tribolium castaneum]

 Score =  219 bits (557), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 113/181 (62%), Positives = 129/181 (71%), Gaps = 44/181 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGDFILAVA  MI+RL++NDVTL LSQ+++                             
Sbjct: 130 MAGDFILAVASIMIARLKNNDVTLVLSQVVS----------------------------- 160

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                          DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIAN VK+  ML
Sbjct: 161 ---------------DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANSVKSVTML 205

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            GAD++LS+++++YGRNLG+AFQLVDDLLDF+SSS AMGKPTAADLKLGLATAPVLFACE
Sbjct: 206 AGADEQLSDISYQYGRNLGLAFQLVDDLLDFVSSSAAMGKPTAADLKLGLATAPVLFACE 265

Query: 181 K 181
           K
Sbjct: 266 K 266

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91077592|ref|XP_973319.1| PREDICTED: similar to AGAP000591-PA [Tribolium castaneum]

 Score =  219 bits (557), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 113/181 (62%), Positives = 129/181 (71%), Gaps = 44/181 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGDFILAVA  MI+RL++NDVTL LSQ+++                             
Sbjct: 237 MAGDFILAVASIMIARLKNNDVTLVLSQVVS----------------------------- 267

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                          DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIAN VK+  ML
Sbjct: 268 ---------------DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANSVKSVTML 312

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            GAD++LS+++++YGRNLG+AFQLVDDLLDF+SSS AMGKPTAADLKLGLATAPVLFACE
Sbjct: 313 AGADEQLSDISYQYGRNLGLAFQLVDDLLDFVSSSAAMGKPTAADLKLGLATAPVLFACE 372

Query: 181 K 181
           K
Sbjct: 373 K 373

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307175359|gb|EFN65378.1| Decaprenyl-diphosphate synthase subunit 1 [Camponotus floridanus]

 Score =  216 bits (551), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 110/187 (58%), Positives = 131/187 (70%), Gaps = 44/187 (23%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGD+ILAVAC+M+SRL++++VT+T+SQI+                              
Sbjct: 128 MAGDYILAVACRMLSRLQNDEVTITISQIV------------------------------ 157

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                         TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANC KA A+L
Sbjct: 158 --------------TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCSKAVAIL 203

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
              DD + E+AF+YGRN+G+AFQLVDDLLDF++SS+A+GKPTAADLKLGLATAPVLFACE
Sbjct: 204 AEVDDHMIEMAFQYGRNVGLAFQLVDDLLDFVASSEALGKPTAADLKLGLATAPVLFACE 263

Query: 181 KSAMLGG 187
           +   L  
Sbjct: 264 RYPELNA 270

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195388636|ref|XP_002052985.1| GJ23628 [Drosophila virilis] gi|194151071|gb|EDW66505.1| GJ23628 [Drosophila virilis]

 Score =  213 bits (543), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 108/181 (59%), Positives = 128/181 (70%), Gaps = 44/181 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGD+IL++A  MISRLR +DVT+ LSQI+                              
Sbjct: 236 MAGDYILSIASIMISRLRSDDVTIVLSQIL------------------------------ 265

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                         TDLVQGEFMQLGS+ETENERFAHYLTKTYRKTASLIAN +KA+A++
Sbjct: 266 --------------TDLVQGEFMQLGSRETENERFAHYLTKTYRKTASLIANALKATAVI 311

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
             ADD ++EVAF+YGRN+G+AFQLVDD+LDF+SS++ MGKPTAADLKLGLATAPVLFACE
Sbjct: 312 AQADDNVAEVAFQYGRNIGLAFQLVDDMLDFVSSTEQMGKPTAADLKLGLATAPVLFACE 371

Query: 181 K 181
           K
Sbjct: 372 K 372

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|358443028|gb|AEU11760.1| control protein HCTL026 [Heliconius erato]

 Score =  213 bits (542), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 112/181 (61%), Positives = 126/181 (69%), Gaps = 44/181 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           MAGDFILAVA  MI+RLR ++VTL LSQ++T                             
Sbjct: 211 MAGDFILAVASMMIARLRSDEVTLVLSQVVT----------------------------- 241

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                          DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIAN VKA A+L
Sbjct: 242 ---------------DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANSVKAVALL 286

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            GAD+  SE+AF+YGRNLG++FQLVDDLLDF+SS+ AMGKPTA DL+LGLATAPVLFACE
Sbjct: 287 SGADETTSELAFQYGRNLGLSFQLVDDLLDFVSSAQAMGKPTATDLRLGLATAPVLFACE 346

Query: 181 K 181
           K
Sbjct: 347 K 347

Source: Heliconius erato

Species: Heliconius erato

Genus: Heliconius

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

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	287
FB|FBgn0051005	436	qless "qless" [Drosophila mela	0.379	0.25	0.816	5.6e-45
ASPGD|ASPL0000038406	456	AN10340 [Emericella nidulans (	0.421	0.265	0.508	9.5e-42
UNIPROTKB|F1RTW8	410	PDSS1 "Uncharacterized protein	0.404	0.282	0.646	1.5e-37
POMBASE|SPBPJ4664.01	378	dps1 "decaprenyl diphosphate s	0.421	0.320	0.472	2e-24
UNIPROTKB|F1PV51	365	PDSS1 "Uncharacterized protein	0.404	0.317	0.646	1.9e-37
UNIPROTKB|Q5T2R2	415	PDSS1 "Decaprenyl-diphosphate	0.404	0.279	0.646	1.9e-37
UNIPROTKB|H0YEE6	158	PDSS1 "Decaprenyl-diphosphate	0.404	0.734	0.646	1.9e-37
MGI|MGI:1889278	409	Pdss1 "prenyl (solanesyl) diph	0.404	0.283	0.637	2.4e-37
UNIPROTKB|E1BZW8	366	PDSS1 "Uncharacterized protein	0.404	0.316	0.646	3.9e-37
UNIPROTKB|F6RJN8	418	PDSS1 "Uncharacterized protein	0.404	0.277	0.637	3.9e-37

FB|FBgn0051005 qless "qless" [Drosophila melanogaster (taxid:7227)]

 Score = 473 (171.6 bits), Expect = 5.6e-45, P = 5.6e-45
 Identities = 89/109 (81%), Positives = 104/109 (95%)

Query:    73 IMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAF 132
             I+TDLVQGEFMQLGS+ETENERFAHYLTKTYRKTASLIAN +KA+A++  ADD ++EVAF
Sbjct:   255 ILTDLVQGEFMQLGSRETENERFAHYLTKTYRKTASLIANALKATAVIAQADDNVAEVAF 314

Query:   133 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
             +YGRN+G+AFQLVDD+LDF+SS++ MGKPTAADLKLGLATAPVLFACEK
Sbjct:   315 QYGRNIGLAFQLVDDMLDFVSSTEQMGKPTAADLKLGLATAPVLFACEK 363

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

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0033554 "cellular response to stress" evidence=IMP

GO:0043066 "negative regulation of apoptotic process" evidence=IMP

GO:0014019 "neuroblast development" evidence=IMP

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

 Score = 312 (114.9 bits), Expect = 9.5e-42, Sum P(2) = 9.5e-42
 Identities = 62/122 (50%), Positives = 89/122 (72%)

Query:   167 KLGLATAPVLF-ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 225
             K  L TA ++  +C  +A+LG +   + E A+ YGRNLG+AFQLVDD+LD+  S   +GK
Sbjct:   303 KTYLKTASLISKSCRAAALLGHSTPDVVEAAYSYGRNLGLAFQLVDDMLDYTVSGVELGK 362

Query:   226 PTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR 285
             P  ADL+LGLATAP+LFA ++ PEL P++ R+F   GDVEKA E V+++ G+EQT+ LA+
Sbjct:   363 PAGADLELGLATAPLLFAWKQHPELGPLVGRKFCREGDVEKARELVYRANGVEQTRALAQ 422

Query:   286 KH 287
             ++
Sbjct:   423 EY 424

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

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

 Score = 403 (146.9 bits), Expect = 1.5e-37, P = 1.5e-37
 Identities = 75/116 (64%), Positives = 97/116 (83%)

Query:    66 IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD 125
             + + +  ++ DLV+GEF+QLGSKE ENERFAHYL KT++KTASLIAN  KA ++LG  D 
Sbjct:   222 VISILTQVIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDP 281

Query:   126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
              + E+A++YG+N+GIAFQL+DD+LDF S SD MGKPT+ADLKLGLAT PVLFAC++
Sbjct:   282 AVHEIAYQYGKNVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGLATGPVLFACQQ 337

GO:0016740 "transferase activity" evidence=IEA

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

POMBASE|SPBPJ4664.01 dps1 "decaprenyl diphosphate synthase subunit Dps1" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 60/127 (47%), Positives = 81/127 (63%)

Query:    66 IANCVKAIMTDLVQGEFMQL------GSKETENERFAHYLTKTYRKTASLIANCVKASAM 119
             +   +  ++ DLV+GEF+QL       S E +   F +Y+ K++ KTASLI+   KAS +
Sbjct:   184 VTELLATVIADLVRGEFLQLKNTMDPSSLEIKQSNFDYYIEKSFLKTASLISKSCKASTI 243

Query:   120 LGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFAC 179
             LG     ++  A EYGR +G AFQL+DD+LD+ S  D +GK   ADLKLGLATAPVLFA 
Sbjct:   244 LGQCSPTVATAAGEYGRCIGTAFQLMDDVLDYTSKDDTLGKAAGADLKLGLATAPVLFAW 303

Query:   180 EKSAMLG 186
             +K   LG
Sbjct:   304 KKYPELG 310

GO:0005739 "mitochondrion" evidence=IDA

GO:0005743 "mitochondrial inner membrane" evidence=IC

GO:0006119 "oxidative phosphorylation" evidence=TAS

GO:0006744 "ubiquinone biosynthetic process" evidence=IDA

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0016209 "antioxidant activity" evidence=IMP

GO:0019418 "sulfide oxidation" evidence=IMP

GO:0019646 "aerobic electron transport chain" evidence=TAS

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

GO:0046872 "metal ion binding" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IPI

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

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

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

 Score = 402 (146.6 bits), Expect = 1.9e-37, P = 1.9e-37
 Identities = 75/116 (64%), Positives = 97/116 (83%)

Query:    66 IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD 125
             + + +  ++ DLV+GEF+QLGSKE ENERFAHYL KT++KTASLIAN  KA ++LG  D 
Sbjct:   177 VISILTQVIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDP 236

Query:   126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
              + E+A++YG+N+GIAFQL+DD+LDF S SD MGKPT+ADLKLGLAT PVLFAC++
Sbjct:   237 VVHEIAYQYGKNVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGLATGPVLFACQQ 292

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

 Score = 402 (146.6 bits), Expect = 1.9e-37, P = 1.9e-37
 Identities = 75/116 (64%), Positives = 97/116 (83%)

Query:    66 IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD 125
             + + +  ++ DLV+GEF+QLGSKE ENERFAHYL KT++KTASLIAN  KA ++LG  D 
Sbjct:   227 VISILTQVIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDP 286

Query:   126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
              + E+A++YG+N+GIAFQL+DD+LDF S SD MGKPT+ADLKLGLAT PVLFAC++
Sbjct:   287 VVHEIAYQYGKNVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGLATGPVLFACQQ 342

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|H0YEE6 PDSS1 "Decaprenyl-diphosphate synthase subunit 1" [Homo sapiens (taxid:9606)]

 Score = 402 (146.6 bits), Expect = 1.9e-37, P = 1.9e-37
 Identities = 75/116 (64%), Positives = 97/116 (83%)

Query:    66 IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD 125
             + + +  ++ DLV+GEF+QLGSKE ENERFAHYL KT++KTASLIAN  KA ++LG  D 
Sbjct:    30 VISILTQVIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDP 89

Query:   126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
              + E+A++YG+N+GIAFQL+DD+LDF S SD MGKPT+ADLKLGLAT PVLFAC++
Sbjct:    90 VVHEIAYQYGKNVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGLATGPVLFACQQ 145

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

MGI|MGI:1889278 Pdss1 "prenyl (solanesyl) diphosphate synthase, subunit 1" [Mus musculus (taxid:10090)]

 Score = 401 (146.2 bits), Expect = 2.4e-37, P = 2.4e-37
 Identities = 74/116 (63%), Positives = 97/116 (83%)

Query:    66 IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD 125
             + + +  ++ DLV+GEF+QLGSKE ENERFAHYL KT++KTASLIAN  KA ++LG  D 
Sbjct:   221 VVSMLAQVIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDP 280

Query:   126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
              + E+A++YG+N+GIAFQL+DD+LDF S SD MGKPT+ADLKLG+AT PVLFAC++
Sbjct:   281 VVHEIAYQYGKNVGIAFQLIDDVLDFTSCSDQMGKPTSADLKLGIATGPVLFACQQ 336

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

GO:0005739 "mitochondrion" evidence=IDA

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

GO:0008299 "isoprenoid biosynthetic process" evidence=ISO;IDA

GO:0016740 "transferase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=ISO;IDA

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

GO:0051290 "protein heterotetramerization" evidence=IPI

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

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 75/116 (64%), Positives = 96/116 (82%)

Query:    66 IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD 125
             I + +  ++ DLV+GEF+QLGSKE ENERFAHYL KT++KTASLIAN  KA ++LG  D 
Sbjct:   178 IISVLTQVIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSILGCPDP 237

Query:   126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
             K+ E+A++YG+N+GIAFQL+DD+LDF S +D +GKP AADLKLGLAT PVLFAC +
Sbjct:   238 KVHEIAYQYGKNVGIAFQLIDDVLDFTSCADHLGKPAAADLKLGLATGPVLFACRQ 293

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

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

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 74/116 (63%), Positives = 97/116 (83%)

Query:    66 IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD 125
             + + +  ++ DLV+GEF+QLGSKE ENERFAHYL KT++KTASLIAN  KA ++LG  D 
Sbjct:   230 VISILTQVIEDLVRGEFLQLGSKENENERFAHYLEKTFKKTASLIANSCKAVSVLGCPDP 289

Query:   126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
              + E+A++YG+N+GIAFQL+DD+LDF S S+ MGKPT+ADLKLGLAT PVLFAC++
Sbjct:   290 AVHEIAYQYGKNVGIAFQLIDDVLDFTSCSEQMGKPTSADLKLGLATGPVLFACQQ 345

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.5.1	0.691

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	287
cd00685	259	cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphat	2e-36
TIGR02749	322	TIGR02749, prenyl_cyano, solanesyl diphosphate syn	3e-33
TIGR02749	322	TIGR02749, prenyl_cyano, solanesyl diphosphate syn	7e-32
PLN02890	422	PLN02890, PLN02890, geranyl diphosphate synthase	2e-31
CHL00151	323	CHL00151, preA, prenyl transferase; Reviewed	1e-30
CHL00151	323	CHL00151, preA, prenyl transferase; Reviewed	1e-30
PLN02890	422	PLN02890, PLN02890, geranyl diphosphate synthase	6e-30
PLN02857	416	PLN02857, PLN02857, octaprenyl-diphosphate synthas	1e-28
COG0142	322	COG0142, IspA, Geranylgeranyl pyrophosphate syntha	5e-28
PLN02857	416	PLN02857, PLN02857, octaprenyl-diphosphate synthas	4e-26
cd00867	236	cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate S	8e-26
COG0142	322	COG0142, IspA, Geranylgeranyl pyrophosphate syntha	5e-25
cd00685	259	cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphat	2e-21
pfam00348	260	pfam00348, polyprenyl_synt, Polyprenyl synthetase	2e-21
TIGR02748	319	TIGR02748, GerC3_HepT, heptaprenyl diphosphate syn	6e-19
cd00385	243	cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynth	4e-17
PRK10888	323	PRK10888, PRK10888, octaprenyl diphosphate synthas	5e-16
pfam00348	260	pfam00348, polyprenyl_synt, Polyprenyl synthetase	3e-15
cd00867	236	cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate S	6e-14
TIGR02748	319	TIGR02748, GerC3_HepT, heptaprenyl diphosphate syn	2e-12
PRK10888	323	PRK10888, PRK10888, octaprenyl diphosphate synthas	2e-10
PRK10581	299	PRK10581, PRK10581, geranyltranstransferase; Provi	2e-06
PRK10581	299	PRK10581, PRK10581, geranyltranstransferase; Provi	1e-04

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

 Score =  130 bits (329), Expect = 2e-36
 Identities = 51/183 (27%), Positives = 83/183 (45%), Gaps = 41/183 (22%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           +AGD++LA A ++++RL  N       ++ ++                            
Sbjct: 85  LAGDYLLARAFELLARL-GNPYYPRALELFSE---------------------------- 115

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                        + +LV+G+ + L S+   +     YL     KTA+L A      A+L
Sbjct: 116 ------------AILELVEGQLLDLLSEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALL 163

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            GAD++ +E    +GRNLG+AFQ+ DD+LD     + +GKP  +DL+ G  T PVL A  
Sbjct: 164 AGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLPVLLALR 223

Query: 181 KSA 183
           + A
Sbjct: 224 ELA 226

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|131796 TIGR02749, prenyl_cyano, solanesyl diphosphate synthase

 Score =  123 bits (310), Expect = 3e-33
 Identities = 49/117 (41%), Positives = 80/117 (68%), Gaps = 1/117 (0%)

Query: 172 TAPVLFA-CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 230
           TA ++ A  + +A+L     +++   +EYG++LG+AFQ+VDD+LDF  S++ +GKP  +D
Sbjct: 174 TASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGSTEQLGKPAGSD 233

Query: 231 LKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           L  G  TAPVLFA E+ P+L+ +I R F + GD+E+A   V KS G+++ + LA++ 
Sbjct: 234 LMKGNLTAPVLFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQ 290

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|131796 TIGR02749, prenyl_cyano, solanesyl diphosphate synthase

 Score =  119 bits (301), Expect = 7e-32
 Identities = 55/140 (39%), Positives = 82/140 (58%), Gaps = 4/140 (2%)

Query: 73  IMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAF 132
           ++TD  +GE  Q  ++   +     YL K++ KTASL+A   KA+A+L     +++   +
Sbjct: 141 VITDFAEGEIKQGLNQFDSDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLY 200

Query: 133 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKL 192
           EYG++LG+AFQ+VDD+LDF  S++ +GKP  +DL  G  TAPVLFA E+   L     +L
Sbjct: 201 EYGKHLGLAFQVVDDILDFTGSTEQLGKPAGSDLMKGNLTAPVLFALEEEPKL----SEL 256

Query: 193 SEVAFEYGRNLGIAFQLVDD 212
            E  F    +L  A  LV  
Sbjct: 257 IEREFSQKGDLEQALSLVRK 276

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|178478 PLN02890, PLN02890, geranyl diphosphate synthase

 Score =  120 bits (303), Expect = 2e-31
 Identities = 51/110 (46%), Positives = 84/110 (76%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C+  A+L G   +++ +AFEYGRNLG+AFQL+DD+LDF  +S ++GK + +D++ G+ T
Sbjct: 275 SCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGTSASLGKGSLSDIRHGVIT 334

Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           AP+LFA E+FP+L  ++ R F  P +V+ A E++ KS+G+++T+ LAR+H
Sbjct: 335 APILFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREH 384

Length = 422

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

 Score =  116 bits (292), Expect = 1e-30
 Identities = 66/212 (31%), Positives = 109/212 (51%), Gaps = 48/212 (22%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           +AGDF+ A +   ++ L + +V   +S+++TD  +GE  Q              L + + 
Sbjct: 114 LAGDFLFAQSSWYLANLNNLEVVKLISKVITDFAEGEIRQ-------------GLVQ-FD 159

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
            T S++                               Y+ K++ KTASLIA   KA+A+L
Sbjct: 160 TTLSILN------------------------------YIEKSFYKTASLIAASCKAAALL 189

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
             AD+K     + YG++LG+AFQ++DD+LD  SS++++GKP  +DLK G  TAPVLFA  
Sbjct: 190 SDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIGSDLKNGNLTAPVLFALT 249

Query: 181 KSAMLGGADDKLSEVAFEYGRNLGIAFQLVDD 212
           +++ L     KL E  F   +++  A Q++ +
Sbjct: 250 QNSKL----AKLIEREFCETKDISQALQIIKE 277

Length = 323

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

 Score =  116 bits (292), Expect = 1e-30
 Identities = 46/110 (41%), Positives = 75/110 (68%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C+ +A+L  AD+K     + YG++LG+AFQ++DD+LD  SS++++GKP  +DLK G  T
Sbjct: 182 SCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSSTESLGKPIGSDLKNGNLT 241

Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           APVLFA  +  +L  +I R F E  D+ +A + + ++ G+E+ K LA +H
Sbjct: 242 APVLFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEH 291

Length = 323

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

 Score =  116 bits (292), Expect = 6e-30
 Identities = 74/212 (34%), Positives = 112/212 (52%), Gaps = 51/212 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           +AGDF+L+ AC  ++ L++ +V                                      
Sbjct: 207 LAGDFLLSRACVALAALKNTEVV------------------------------------- 229

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
              SL+A  V+     LV GE MQ+ S   +     +Y+ KTY KTASLI+N  KA A+L
Sbjct: 230 ---SLLATAVE----HLVTGETMQITSSREQRRSMDYYMQKTYYKTASLISNSCKAVAIL 282

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            G   +++ +AFEYGRNLG+AFQL+DD+LDF  +S ++GK + +D++ G+ TAP+LFA E
Sbjct: 283 AGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGTSASLGKGSLSDIRHGVITAPILFAME 342

Query: 181 KSAMLGGADDKLS------EVAFEY-GRNLGI 205
           +   L    D+        ++A EY G++ GI
Sbjct: 343 EFPQLREVVDRGFDNPANVDIALEYLGKSRGI 374

Length = 422

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

 Score =  113 bits (283), Expect = 1e-28
 Identities = 52/116 (44%), Positives = 78/116 (67%), Gaps = 1/116 (0%)

Query: 172 TAPVLFA-CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 230
           TA ++ A  + +A+  G D  + E  +EYG+NLG+AFQ+VDD+LDF  S++ +GKP  +D
Sbjct: 268 TASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQSTEQLGKPAGSD 327

Query: 231 LKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARK 286
           L  G  TAPV+FA EK PEL  +I   F E G +E+A E V++  G+E+ + LA++
Sbjct: 328 LAKGNLTAPVIFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKE 383

Length = 416

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

 Score =  109 bits (274), Expect = 5e-28
 Identities = 45/107 (42%), Positives = 60/107 (56%), Gaps = 1/107 (0%)

Query: 76  DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYG 135
            L  G+ + L   E +      YL     KTA+L A      A+L GAD++L E   +YG
Sbjct: 145 GLCGGQALDLAF-ENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYG 203

Query: 136 RNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
           RNLG+AFQ+ DD+LD     + +GKP  +DLK G  T PVL A EK+
Sbjct: 204 RNLGLAFQIQDDILDITGDEEELGKPVGSDLKEGKPTLPVLLALEKA 250

Length = 322

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

 Score =  106 bits (265), Expect = 4e-26
 Identities = 52/113 (46%), Positives = 70/113 (61%)

Query: 73  IMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAF 132
           ++ D   GE  Q  S    +     YL K+Y KTASLIA   K++A+  G D  + E  +
Sbjct: 235 VIKDFASGEIKQASSLFDCDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMY 294

Query: 133 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAML 185
           EYG+NLG+AFQ+VDD+LDF  S++ +GKP  +DL  G  TAPV+FA EK   L
Sbjct: 295 EYGKNLGLAFQVVDDILDFTQSTEQLGKPAGSDLAKGNLTAPVIFALEKEPEL 347

Length = 416

>gnl|CDD|173836 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate Synthases

 Score =  101 bits (254), Expect = 8e-26
 Identities = 41/108 (37%), Positives = 59/108 (54%), Gaps = 1/108 (0%)

Query: 73  IMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAF 132
            + +L++G+ + L  +    E    YL     KTA L+       A L GADD+ +E   
Sbjct: 93  ALRELLEGQALDLEFERDTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALK 152

Query: 133 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
           +YGR LG+AFQL DDLLD    ++ +GK   +DL+ G  T PV+ A E
Sbjct: 153 DYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPVILARE 199

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

 Score =  101 bits (253), Expect = 5e-25
 Identities = 47/111 (42%), Positives = 66/111 (59%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A    A+L GAD++L E   +YGRNLG+AFQ+ DD+LD     + +GKP  +DLK G  
Sbjct: 180 AAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDEEELGKPVGSDLKEGKP 239

Query: 237 TAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           T PVL A EK  E   ++    +  G+VE+A E + KS  +E  K LA+ +
Sbjct: 240 TLPVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTY 290

Length = 322

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

 Score = 90.3 bits (225), Expect = 2e-21
 Identities = 34/77 (44%), Positives = 47/77 (61%), Gaps = 3/77 (3%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA  LF  A    A+L GAD++ +E    +GRNLG+AFQ+ DD+LD     + +GKP  +
Sbjct: 149 TA-ALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGS 207

Query: 230 DLKLGLATAPVLFACEK 246
           DL+ G  T PVL A  +
Sbjct: 208 DLREGKCTLPVLLALRE 224

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

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

 Score = 90.4 bits (225), Expect = 2e-21
 Identities = 42/107 (39%), Positives = 63/107 (58%), Gaps = 2/107 (1%)

Query: 78  VQGEFMQLGSKETENERF--AHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYG 135
            QGE  QL   ETE +      YL     KTA+L    V+  A++ GAD++  +  +++G
Sbjct: 116 AQGEVGQLMDLETEGKDITLEEYLRIVSYKTAALFYASVQLGAIVAGADEEDEKDLYDFG 175

Query: 136 RNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
           R+LG+AFQ+ DD+LD    ++ +GKP   DL+ G +T PVL A E +
Sbjct: 176 RDLGLAFQIQDDILDLTGDTEELGKPVGTDLQEGKSTLPVLLALEGA 222

Length = 260

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

 Score = 84.8 bits (210), Expect = 6e-19
 Identities = 46/179 (25%), Positives = 81/179 (45%), Gaps = 46/179 (25%)

Query: 3   GDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKT 62
           GD++ A + + ++ ++D      LS  + ++ +GE  Q+  K   ++    YL +  RKT
Sbjct: 111 GDYLFAKSLETMTEIKDPRAHQILSHTIVEVCRGEIEQIKDKYNFDQNLRTYLRRIKRKT 170

Query: 63  ASLIA-NCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
           A LIA +C              QLG                               A+  
Sbjct: 171 ALLIAASC--------------QLG-------------------------------AIAS 185

Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
           GA++ + +  + +G  +G+++Q+ DD+LDF+ + + +GKP   DL  G  T PVL+A E
Sbjct: 186 GANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLLQGNVTLPVLYAME 244

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|173830 cd00385, Isoprenoid_Biosyn_C1, Isoprenoid Biosynthesis enzymes, Class 1

 Score = 78.3 bits (193), Expect = 4e-17
 Identities = 42/181 (23%), Positives = 70/181 (38%), Gaps = 11/181 (6%)

Query: 51  FAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLI 110
            A    +  R+ +      +   + DL++G+ + L  +         YL     KTA L+
Sbjct: 65  LADAFEELAREGSPEALEILAEALLDLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLV 124

Query: 111 ANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 170
                  A L G + +L E   + GR LG+AFQL +DLLD+   ++            G 
Sbjct: 125 GALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERGE---------GK 175

Query: 171 ATAPVLFACEKSAMLGGADDKLSEVAFEYGRNL--GIAFQLVDDLLDFISSSDAMGKPTA 228
            T PVL+A E               + E        +A + + +L + I S   + +   
Sbjct: 176 CTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLPDVPRALL 235

Query: 229 A 229
           A
Sbjct: 236 A 236

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|182813 PRK10888, PRK10888, octaprenyl diphosphate synthase; Provisional

 Score = 76.4 bits (188), Expect = 5e-16
 Identities = 54/178 (30%), Positives = 86/178 (48%), Gaps = 19/178 (10%)

Query: 32  DLVQGEFMQLGSKETENERFAH---------YLTKTYRKTASLIANCVKAIMTDLV---- 78
           D+V    M+ G K T N  F +           T+ ++   SL +  V  +M++ V    
Sbjct: 85  DVVDESDMRRG-KATANAAFGNAASVLVGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIA 143

Query: 79  QGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNL 138
           +GE +QL +    +    +Y+   Y KTA L     + S +L G   +  +   +YGR L
Sbjct: 144 EGEVLQLMNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYL 203

Query: 139 GIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFAC-----EKSAMLGGADDK 191
           G AFQL+DDLLD+ +  + +GK    DL  G  T P+L A      E++AM+  A ++
Sbjct: 204 GTAFQLIDDLLDYSADGETLGKNVGDDLNEGKPTLPLLHAMHHGTPEQAAMIRTAIEQ 261

Length = 323

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

 Score = 73.5 bits (181), Expect = 3e-15
 Identities = 37/106 (34%), Positives = 60/106 (56%), Gaps = 6/106 (5%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           + +  A++ GAD++  +  +++GR+LG+AFQ+ DD+LD    ++ +GKP   DL+ G +T
Sbjct: 153 SVQLGAIVAGADEEDEKDLYDFGRDLGLAFQIQDDILDLTGDTEELGKPVGTDLQEGKST 212

Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFL 283
            PVL A E   E    ++R   E    E A      +QG+  TK L
Sbjct: 213 LPVLLALEGAREEQRKLLREAYEQKLSEAA------AQGVALTKAL 252

Length = 260

>gnl|CDD|173836 cd00867, Trans_IPPS, Trans-Isoprenyl Diphosphate Synthases

 Score = 69.3 bits (170), Expect = 6e-14
 Identities = 32/70 (45%), Positives = 43/70 (61%), Gaps = 1/70 (1%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
            C   A L GADD+ +E   +YGR LG+AFQL DDLLD    ++ +GK   +DL+ G  T
Sbjct: 133 LCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRIT 191

Query: 238 APVLFACEKF 247
            PV+ A E+ 
Sbjct: 192 LPVILARERA 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 = 66.3 bits (162), Expect = 2e-12
 Identities = 32/108 (29%), Positives = 60/108 (55%), Gaps = 11/108 (10%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C+  A+  GA++ + +  + +G  +G+++Q+ DD+LDF+ + + +GKP   DL  G  T
Sbjct: 177 SCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTEEELGKPAGGDLLQGNVT 236

Query: 238 APVLFACEKFPELNPMIMRRFQEPG------DVEKAFEFVHKSQGLEQ 279
            PVL+A E     +P + +R ++        ++E   E V KS  +E 
Sbjct: 237 LPVLYAME-----DPFLKKRIEQVLEETTAEEMEPLIEEVKKSDAIEY 279

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|182813 PRK10888, PRK10888, octaprenyl diphosphate synthase; Provisional

 Score = 60.2 bits (146), Expect = 2e-10
 Identities = 27/66 (40%), Positives = 38/66 (57%)

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           A + S +L G   +  +   +YGR LG AFQL+DDLLD+ +  + +GK    DL  G  T
Sbjct: 178 AAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADGETLGKNVGDDLNEGKPT 237

Query: 238 APVLFA 243
            P+L A
Sbjct: 238 LPLLHA 243

Length = 323

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

 Score = 48.2 bits (115), Expect = 2e-06
 Identities = 26/79 (32%), Positives = 44/79 (55%), Gaps = 1/79 (1%)

Query: 105 KTASLIANCVKASAMLGGADDKLSEVAFE-YGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
           KT +LI   V+  A+  G   + +    + Y  ++G+AFQ+ DD+LD +  +  +GK   
Sbjct: 181 KTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQG 240

Query: 164 ADLKLGLATAPVLFACEKS 182
           AD +LG +T P L   E++
Sbjct: 241 ADQQLGKSTYPALLGLEQA 259

Length = 299

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

 Score = 42.5 bits (100), Expect = 1e-04
 Identities = 19/48 (39%), Positives = 30/48 (62%)

Query: 199 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 246
           Y  ++G+AFQ+ DD+LD +  +  +GK   AD +LG +T P L   E+
Sbjct: 211 YAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQ 258

Length = 299

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	287
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
KOG0776|consensus	384		99.97
PF00348	260	polyprenyl_synt: Polyprenyl synthetase; InterPro:	99.96
PRK10581	299	geranyltranstransferase; Provisional	99.95
cd00685	259	Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthase	99.93
KOG0777|consensus	322		99.86
cd00867	236	Trans_IPPS Trans-Isoprenyl Diphosphate Synthases.	99.85
PRK10581	299	geranyltranstransferase; Provisional	99.74
cd00685	259	Trans_IPPS_HT Trans-Isoprenyl Diphosphate Synthase	99.63
KOG0711|consensus	347		99.55
cd00867	236	Trans_IPPS Trans-Isoprenyl Diphosphate Synthases.	99.4
cd00385	243	Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzym	99.26
COG0142	322	IspA Geranylgeranyl pyrophosphate synthase [Coenzy	98.98
PLN02890	422	geranyl diphosphate synthase	98.8
PRK10888	323	octaprenyl diphosphate synthase; Provisional	98.73
TIGR02748	319	GerC3_HepT heptaprenyl diphosphate synthase compon	98.72
PF00348	260	polyprenyl_synt: Polyprenyl synthetase; InterPro:	98.71
TIGR02749	322	prenyl_cyano solanesyl diphosphate synthase. Membe	98.71
PLN02857	416	octaprenyl-diphosphate synthase	98.63
KOG0776|consensus	384		98.57
CHL00151	323	preA prenyl transferase; Reviewed	98.44
KOG0711|consensus	347		95.42
PF07307	212	HEPPP_synt_1: Heptaprenyl diphosphate synthase (HE	94.35
TIGR01559	336	squal_synth farnesyl-diphosphate farnesyltransfera	89.36
PLN02632	334	phytoene synthase	84.74
PF00494	267	SQS_PSY: Squalene/phytoene synthase; InterPro: IPR	84.16
TIGR03465	266	HpnD squalene synthase HpnD. The genes of this fam	82.72
cd00683	265	Trans_IPPS_HH Trans-Isoprenyl Diphosphate Synthase	81.81
cd00385	243	Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzym	81.22

>PLN02890 geranyl diphosphate synthase

Probab=100.00  E-value=5.2e-35  Score=275.42  Aligned_cols=178  Identities=45%  Similarity=0.791  Sum_probs=154.7

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||++||..+++.+++++++.+++++..+++||++|+.+..+                                  
T Consensus       207 laGD~Lla~A~~~l~~~~~~~~~~~~s~a~~~l~~Gq~ld~~~~~~----------------------------------  252 (422)
T PLN02890        207 LAGDFLLSRACVALAALKNTEVVSLLATAVEHLVTGETMQITSSRE----------------------------------  252 (422)
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHhccC----------------------------------
Confidence            5899999999999999999999999999999999999998865433                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||+.||.+|++++|.+++..+.+++||+++|++|||+||++|++++      
T Consensus       253 ----------~~~s~~~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~~g~------  316 (422)
T PLN02890        253 ----------QRRSMDYYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDFTGT------  316 (422)
T ss_pred             ----------CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC------
Confidence                      2467789999999999999999999999999998877777777777777777777777776655      


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                 ++.+|||.++|+++||+|+|+
T Consensus       317 -----------------------------------------------------------~~~~GK~~g~DL~eGk~TlPv  337 (422)
T PLN02890        317 -----------------------------------------------------------SASLGKGSLSDIRHGVITAPI  337 (422)
T ss_pred             -----------------------------------------------------------hhhhCCCchhhHhcCCccHHH
Confidence                                                                       456788889999999999999


Q ss_pred             HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..+++.+++.+...++++++++.++|.++|++++|+++|++|
T Consensus       338 l~al~~~~~l~~~l~~~~~~~~~v~~~~~~i~~~gaie~a~~la~~~  384 (422)
T PLN02890        338 LFAMEEFPQLREVVDRGFDNPANVDIALEYLGKSRGIQRTRELAREH  384 (422)
T ss_pred             HHHHhcCHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHH
Confidence            99998777777888777778889999999999999999999999876

>TIGR02749 prenyl_cyano solanesyl diphosphate synthase

Probab=100.00  E-value=2.4e-34  Score=264.72  Aligned_cols=178  Identities=40%  Similarity=0.672  Sum_probs=157.3

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||++||+.+++.+++.+++.+++++.++++||++|+.+..+                                  
T Consensus       113 l~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~----------------------------------  158 (322)
T TIGR02749       113 LAGDFLFAQASWYLANLENLEVVKLISKVITDFAEGEIKQGLNQFD----------------------------------  158 (322)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHcccC----------------------------------
Confidence            5899999999999999999999999999999999999998744322                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||++||.+|+++++.+++.++.+.+||.++|++|||+||++|+.+++     
T Consensus       159 ----------~~~~~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~~~~-----  223 (322)
T TIGR02749       159 ----------SDLSLEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFTGST-----  223 (322)
T ss_pred             ----------CCCCHHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCh-----
Confidence                      23577899999999999999999999999999998888888888888888888888888887654     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  +.+|||.++|+++||+|+|+
T Consensus       224 ------------------------------------------------------------~~~GK~~g~Dl~~Gk~Tlp~  243 (322)
T TIGR02749       224 ------------------------------------------------------------EQLGKPAGSDLMKGNLTAPV  243 (322)
T ss_pred             ------------------------------------------------------------HhhCCChhHHHhCCCchHHH
Confidence                                                                        45788889999999999999


Q ss_pred             HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..+++.+++.+...++++++++.++|.++|++++|++++++|
T Consensus       244 l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~ga~~~a~~~~~~~  290 (322)
T TIGR02749       244 LFALEEEPKLSELIEREFSQKGDLEQALSLVRKSGGIKKARELAKEQ  290 (322)
T ss_pred             HHHHhcChHHHHHHHhccCCHHHHHHHHHHHHHCCHHHHHHHHHHHH
Confidence            99998877777888777778889999999999999999999999875

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=2.3e-34  Score=271.15  Aligned_cols=178  Identities=42%  Similarity=0.687  Sum_probs=156.8

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||++||+.+++++++++++.+++++.++++||++|+.+..+                                  
T Consensus       207 laGD~L~a~A~~~la~~~~~~~~~~~s~~~~~l~~Gei~q~~~~~~----------------------------------  252 (416)
T PLN02857        207 LAGDFMFAQSSWYLANLDNLEVIKLISQVIKDFASGEIKQASSLFD----------------------------------  252 (416)
T ss_pred             eHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhHHHHHhcccC----------------------------------
Confidence            6899999999999999999999999999999999999998754322                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ...++++|++|+++|||+||+.||.+|+++++.+++..+.+.+||+++|++|||+||++|+.+++     
T Consensus       253 ----------~~~s~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~~~~-----  317 (416)
T PLN02857        253 ----------CDVTLDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFTQST-----  317 (416)
T ss_pred             ----------CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCH-----
Confidence                      23577899999999999999999999999999988888888888888888888888877776653     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  +.+|||.++|+++||.|+|+
T Consensus       318 ------------------------------------------------------------~~~GK~~g~DL~eGK~TlPl  337 (416)
T PLN02857        318 ------------------------------------------------------------EQLGKPAGSDLAKGNLTAPV  337 (416)
T ss_pred             ------------------------------------------------------------HHhCCCcchhhhcCCccHHH
Confidence                                                                        56788889999999999999


Q ss_pred             HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..+++.+++.....+++++++++++|+++|++++|++++++|
T Consensus       338 i~al~~~~~l~~~l~~~~~~~~~~~~~~~lv~~~Ggie~a~~~a~~~  384 (416)
T PLN02857        338 IFALEKEPELREIIESEFCEEGSLEEAIELVNEGGGIERAQELAKEK  384 (416)
T ss_pred             HHHHhcChHHHHHHhhccCCHHHHHHHHHHHHHcCHHHHHHHHHHHH
Confidence            99999888888888777778899999999999999999999999875

>CHL00151 preA prenyl transferase; Reviewed

Probab=100.00  E-value=1.3e-33  Score=260.20  Aligned_cols=178  Identities=39%  Similarity=0.620  Sum_probs=154.6

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||+.||+.+++.+++.+++.+++++..+++||++|..+..                                   
T Consensus       114 l~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~l~~G~~~~~~~~~-----------------------------------  158 (323)
T CHL00151        114 LAGDFLFAQSSWYLANLNNLEVVKLISKVITDFAEGEIRQGLVQF-----------------------------------  158 (323)
T ss_pred             hhHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHhcCC-----------------------------------
Confidence            689999999999999999989999999999999999999764321                                   


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                               +...+.++|++|+.+|||+||++||.+|+++++.+++..+.+++||.++|++|||+||++|+++++     
T Consensus       159 ---------~~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~~~~-----  224 (323)
T CHL00151        159 ---------DTTLSILNYIEKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDITSST-----  224 (323)
T ss_pred             ---------CCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccCh-----
Confidence                     123677899999999999999999999999999988877878888888888888777777776653     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  +.+|||.|+|+++||+|+|+
T Consensus       225 ------------------------------------------------------------~~~GK~~g~Dl~eGk~Tlp~  244 (323)
T CHL00151        225 ------------------------------------------------------------ESLGKPIGSDLKNGNLTAPV  244 (323)
T ss_pred             ------------------------------------------------------------hhhCCCchhhHhcCchHHHH
Confidence                                                                        46788889999999999999


Q ss_pred             HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..++..+.+.....++++++++.+++.++|++++|++++++|
T Consensus       245 l~al~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~a~~~  291 (323)
T CHL00151        245 LFALTQNSKLAKLIEREFCETKDISQALQIIKETNGIEKAKDLALEH  291 (323)
T ss_pred             HHHHhcChHHHHHHHHhcCCHHHHHHHHHHHHHCCcHHHHHHHHHHH
Confidence            99999877777777777777889999999999999999999999875

>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II

Probab=100.00  E-value=4.3e-33  Score=256.29  Aligned_cols=177  Identities=28%  Similarity=0.493  Sum_probs=147.2

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      ++|||||++||+.+++++++.+++.+++++..+++||++|+.+..+                                  
T Consensus       109 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~~~~~~~~----------------------------------  154 (319)
T TIGR02748       109 YTGDYLFAKSLETMTEIKDPRAHQILSHTIVEVCRGEIEQIKDKYN----------------------------------  154 (319)
T ss_pred             HHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHhccC----------------------------------
Confidence            5899999999999999999999999999999999999998754332                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||++||.+|+++++.+++.++.+.+||+++|++|||+||++|+++++     
T Consensus       155 ----------~~~~~~~Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~-----  219 (319)
T TIGR02748       155 ----------FDQNLRTYLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFVGTE-----  219 (319)
T ss_pred             ----------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCH-----
Confidence                      23567899999999999999999999999999988877778888887777777777777776653     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  +.+|||.++|+++||+|+|+
T Consensus       220 ------------------------------------------------------------~~~GK~~~~Dl~~gk~Tlp~  239 (319)
T TIGR02748       220 ------------------------------------------------------------EELGKPAGGDLLQGNVTLPV  239 (319)
T ss_pred             ------------------------------------------------------------HhhCCChhhHHhCCCchHHH
Confidence                                                                        56788889999999999999


Q ss_pred             HHhhhhCccchHHHHhhc--CCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~~~~l~~~~--~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..+ .+..+....  .+++++++++++++++|++++|+.++++|
T Consensus       240 l~al~~~~-~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~a~~~  287 (319)
T TIGR02748       240 LYAMEDPF-LKKRIEQVLEETTAEEMEPLIEEVKKSDAIEYAYAVSDRY  287 (319)
T ss_pred             HHHhcCcc-hhHHHHHHHcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence            99998543 333443222  25678999999999999999999999875

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=1.2e-32  Score=253.38  Aligned_cols=178  Identities=30%  Similarity=0.438  Sum_probs=148.0

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||+.||+.+++.++++++..+++++..+++||.+|+.+..+                                  
T Consensus       110 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~d~~~~~~----------------------------------  155 (323)
T PRK10888        110 LVGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEGEVLQLMNVND----------------------------------  155 (323)
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHhccC----------------------------------
Confidence            5899999999999999999999999999999999999998754322                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||++||.+|+++++.+++..+.+++||+++|++|||+||++|+.+++     
T Consensus       156 ----------~~~s~~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~-----  220 (323)
T PRK10888        156 ----------PDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYSADG-----  220 (323)
T ss_pred             ----------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCCh-----
Confidence                      24677899999999999999999999999999988888888888888888888888888877654     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  +.+|||+|+|+++||+|+|+
T Consensus       221 ------------------------------------------------------------~~~GK~~g~Dl~~gk~Tlp~  240 (323)
T PRK10888        221 ------------------------------------------------------------ETLGKNVGDDLNEGKPTLPL  240 (323)
T ss_pred             ------------------------------------------------------------HhhCCCchhhhhcCCchHHH
Confidence                                                                        45678888999999999999


Q ss_pred             HHhhhhCcc-chHHHHhhc---CCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPE-LNPMIMRRF---QEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~-~~~~l~~~~---~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..++ .++.+....   ..+++++++++++.++|++++++++|++|
T Consensus       241 l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~g~~e~~~~~a~~~  291 (323)
T PRK10888        241 LHAMHHGTPEQAAMIRTAIEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEE  291 (323)
T ss_pred             HHHHHhCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            999986533 333333222   23467899999999999999999999875

>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]

Probab=100.00  E-value=1.4e-32  Score=253.02  Aligned_cols=177  Identities=37%  Similarity=0.554  Sum_probs=142.4

Q ss_pred             CchhHHHHHHHHHHhcCCC--hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRD--NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLV   78 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~--~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~   78 (287)
                      |+||||++.||+++++.++  +.+++.+++++..++.||.+|+                                     
T Consensus       112 laGD~L~~~Af~~l~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl-------------------------------------  154 (322)
T COG0142         112 LAGDALLAAAFELLSKLGSEALEAIKALAEAINGLCGGQALDL-------------------------------------  154 (322)
T ss_pred             HHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHHHhHHHHH-------------------------------------
Confidence            5899999999999999988  6666666665555555555544                                     


Q ss_pred             hhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCcccc
Q psy17022         79 QGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM  158 (287)
Q Consensus        79 ~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~  158 (287)
                             .++++. ++.++|++|+++|||+||++++.+|+++++.+++..+.+.+||+++|++|||+||++|+.+++   
T Consensus       155 -------~~~~~~-~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~~d~---  223 (322)
T COG0142         155 -------AFENKP-VTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDITGDE---  223 (322)
T ss_pred             -------HccCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCCCCh---
Confidence                   444444 788999999999999999999999999999988888888888888888888888888877664   


Q ss_pred             CccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChH
Q psy17022        159 GKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATA  238 (287)
Q Consensus       159 Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tl  238 (287)
                                                                                    ..+|||+|+|+++||+||
T Consensus       224 --------------------------------------------------------------~~lGK~~g~Dl~~gK~T~  241 (322)
T COG0142         224 --------------------------------------------------------------EELGKPVGSDLKEGKPTL  241 (322)
T ss_pred             --------------------------------------------------------------HHhCCCcchHHHcCCchH
Confidence                                                                          467888899999999999


Q ss_pred             HHHHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        239 PVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       239 p~i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      |++++++.+.+..+.+........+++++++++.++|+++++..+++.|
T Consensus       242 p~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~  290 (322)
T COG0142         242 PVLLALEKANEDQKLLRILLEGGGEVEEALELLRKSGAIEYAKNLAKTY  290 (322)
T ss_pred             HHHHHHHcCchhhHHHHHHhhcchHHHHHHHHHHHcchHHHHHHHHHHH
Confidence            9999999876533333333233339999999999999999988888765

>KOG0776|consensus

Probab=99.97  E-value=2.3e-31  Score=243.63  Aligned_cols=179  Identities=46%  Similarity=0.647  Sum_probs=156.9

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||+.||+.++.++|+.++++|++++++|++|+++|....                                   |
T Consensus       176 LaGD~LLa~A~~~la~l~n~~v~elm~~aI~dLv~ge~~~~~~~-----------------------------------~  220 (384)
T KOG0776|consen  176 LAGDALLALASEHLASLENPVVVELMASAIADLVRGEFTQGLVA-----------------------------------G  220 (384)
T ss_pred             hhhHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHhhhhccccc-----------------------------------c
Confidence            79999999999999999999999999999999999999977443                                   2


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                      |.+|..     +..+++|..++.+|||+|++.+|.++++++|.+++..+.+++||+++|++||+.||++|++...     
T Consensus       221 ~~~d~~-----~~~~e~~e~~~~~KTAsLla~Sc~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildftkss-----  290 (384)
T KOG0776|consen  221 EGLDLD-----DVGLEYLEFKTLLKTASLLAKSCVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFTKSS-----  290 (384)
T ss_pred             cccccC-----CcchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcccch-----
Confidence            223332     2567899999999999999999999999999999999999999999999999999988887764     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  +.+|||.|.|+..|+.|+|+
T Consensus       291 ------------------------------------------------------------~elGK~ag~Dl~~g~lT~P~  310 (384)
T KOG0776|consen  291 ------------------------------------------------------------EELGKTAGKDLKAGKLTAPV  310 (384)
T ss_pred             ------------------------------------------------------------hhcCcchhhhhhhccccccc
Confidence                                                                        35677778899999999999


Q ss_pred             HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      ++++++.|++.+.+.+.+.++.+..+..+++.   ++..|..+|++|
T Consensus       311 Lf~~e~~pe~~e~l~~~~~e~~~~~~~~k~v~---~v~~a~~la~~~  354 (384)
T KOG0776|consen  311 LFALEKSPELREKLEREFSEPLDGFDADKAVP---GVALAKYLARRH  354 (384)
T ss_pred             hhhhhhChHHHHHHHHhccccchhhHHHHHHH---HHHHHHHHHHHH
Confidence            99999999999999999888888888888887   899999998876

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

Probab=99.96  E-value=3.2e-29  Score=224.67  Aligned_cols=178  Identities=34%  Similarity=0.524  Sum_probs=138.7

Q ss_pred             CchhHHHHHHHHHHhcCCC----hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhh
Q psy17022          1 MAGDFILAVACQMISRLRD----NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTD   76 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~----~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~   76 (287)
                      ++||||++.||+.+++..+    .....+++.....++                                        .+
T Consensus        79 l~gd~ll~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~----------------------------------------~~  118 (260)
T PF00348_consen   79 LAGDYLLALAFELLARLGHFDPSERVLRILELFIEALI----------------------------------------EG  118 (260)
T ss_dssp             HHHHHHHHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHH----------------------------------------HH
T ss_pred             hhchHHHHHHHHHHHHhhcccchHHHHHHHHHHHHhcc----------------------------------------cc
Confidence            5799999999999999872    222332222222222                                        22


Q ss_pred             hhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCcc
Q psy17022         77 LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSD  156 (287)
Q Consensus        77 ~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~  156 (287)
                      + .||..|+.+... .+++++|++|+++|||+||++||++|+++++.+++..+.+++||+++|++|||+||++|+.++  
T Consensus       119 ~-~~q~~d~~~~~~-~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~~d~~~~--  194 (260)
T PF00348_consen  119 E-IGQALDLANEDK-DPTEEEYLEIIRLKTGSLFALACQLGAILAGADEEQIEALREFGRHLGIAFQIRDDLLDLFGD--  194 (260)
T ss_dssp             H-HHHHHHHHTTTS-STSHHHHHHHHHHHTHHHHHHHHHHHHHHTTSGHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH--
T ss_pred             e-eehhhccccccc-cccHHHHHHHHhhcchHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHhhhhhhhhccCc--
Confidence            2 337777777544 789999999999999999999999999999999888888888888888888888888777664  


Q ss_pred             ccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCC
Q psy17022        157 AMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA  236 (287)
Q Consensus       157 ~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~  236 (287)
                                                                                     ++.+||++++||++||+
T Consensus       195 ---------------------------------------------------------------~~~~gK~~~~Dl~~gk~  211 (260)
T PF00348_consen  195 ---------------------------------------------------------------EEELGKPVGSDLKEGKP  211 (260)
T ss_dssp             ---------------------------------------------------------------HHHHSSTTTHHHHTTTS
T ss_pred             ---------------------------------------------------------------HHHhcccchhHHhcCcc
Confidence                                                                           34568888999999999


Q ss_pred             hHHHHHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHH
Q psy17022        237 TAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR  285 (287)
Q Consensus       237 Tlp~i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~  285 (287)
                      |||++++++++++..+.+.....+..+.+.+.+.+..++.+++++++++
T Consensus       212 Tlp~~~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  260 (260)
T PF00348_consen  212 TLPVLHALERAREELRELLQEAYGKEDSEEALEIIAQTGALEYTRKFME  260 (260)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHTHHHHHH-
T ss_pred             cHHHHHHHHhCHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHhhcC
Confidence            9999999999766555555555556678889999999999999998764

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 ....

>PRK10581 geranyltranstransferase; Provisional

Probab=99.95  E-value=3.5e-27  Score=214.93  Aligned_cols=147  Identities=26%  Similarity=0.413  Sum_probs=120.1

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHH-Hhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKA-IMTDLVQ   79 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~-~~~~~~~   79 (287)
                      |+||||++.||+++++...+.+...           +.+                        .++...... +..+|+.
T Consensus       112 l~GD~L~~~a~~~l~~~~~~~~~~~-----------~~~------------------------~~~~~~~~~~~~~~l~~  156 (299)
T PRK10581        112 LAGDALQTLAFSILSDAPMPEVSDR-----------DRI------------------------SMISELASASGIAGMCG  156 (299)
T ss_pred             HHHHHHHHHHHHHHHhCCCccCChH-----------HHH------------------------HHHHHHHHhcccchhhH
Confidence            6899999999999988754321110           000                        011222221 3568899


Q ss_pred             hhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCcccc
Q psy17022         80 GEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM  158 (287)
Q Consensus        80 GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~  158 (287)
                      ||++|+.+... .+++++|++|+.+|||+||.+|+.+|+++++.++ ..++.+++||.++|++|||+||++|+.++++.+
T Consensus       157 GQ~ld~~~~~~-~~~~~~y~~i~~~KTa~L~~~~~~~gailag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~  235 (299)
T PRK10581        157 GQALDLEAEGK-QVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATL  235 (299)
T ss_pred             hhHHHHhccCC-CCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHH
Confidence            99999988654 6789999999999999999999999999999865 568999999999999999999999999999999


Q ss_pred             CccchhhhHhhhhhhhhHhhhhhhh
Q psy17022        159 GKPTAADLKLGLATAPVLFACEKSA  183 (287)
Q Consensus       159 Gk~~~~Di~~~K~t~~~l~a~~~ga  183 (287)
                      ||+.++|+.+||.|+|++++++.+.
T Consensus       236 GK~~g~Dl~~gk~T~p~l~~~e~a~  260 (299)
T PRK10581        236 GKRQGADQQLGKSTYPALLGLEQAR  260 (299)
T ss_pred             CCCcchhhhcCCCCHHHHHHHHHHH
Confidence            9999999999999999999987653

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

Probab=99.93  E-value=5e-25  Score=197.44  Aligned_cols=135  Identities=37%  Similarity=0.601  Sum_probs=118.7

Q ss_pred             CchhHHHHHHHHHHhcCCC---hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhh
Q psy17022          1 MAGDFILAVACQMISRLRD---NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDL   77 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~---~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~   77 (287)
                      ++||||++.+|++++...+   +++++.+++.+..+++||.+++.                                   
T Consensus        85 l~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~GQ~~d~~-----------------------------------  129 (259)
T cd00685          85 LAGDYLLARAFELLARLGNPYYPRALELFSEAILELVEGQLLDLL-----------------------------------  129 (259)
T ss_pred             HHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHH-----------------------------------
Confidence            5799999999999999877   56666666666666666666553                                   


Q ss_pred             hhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccc
Q psy17022         78 VQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA  157 (287)
Q Consensus        78 ~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~  157 (287)
                               +.....+++++|++|+.+|||+||.+++.+|+++++.+++..+.+++||+++|++|||+||++|+.++++.
T Consensus       130 ---------~~~~~~~~~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~  200 (259)
T cd00685         130 ---------SEYDTDVTEEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPET  200 (259)
T ss_pred             ---------ccCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHH
Confidence                     43334578899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCccchhhhHhhhhhhhhHhhh
Q psy17022        158 MGKPTAADLKLGLATAPVLFAC  179 (287)
Q Consensus       158 ~Gk~~~~Di~~~K~t~~~l~a~  179 (287)
                      +||+.++|+.+||.|+|+++++
T Consensus       201 ~gK~~~~Di~~gk~T~~~~~~l  222 (259)
T cd00685         201 LGKPVGSDLREGKCTLPVLLAL  222 (259)
T ss_pred             HCCCcchHHHcCCchHHHHHHH
Confidence            9999999999999999999988

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

>KOG0777|consensus

Probab=99.86  E-value=3.3e-21  Score=164.24  Aligned_cols=131  Identities=18%  Similarity=0.252  Sum_probs=109.3

Q ss_pred             chhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhhh
Q psy17022          2 AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQGE   81 (287)
Q Consensus         2 ~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~GQ   81 (287)
                      +.+|++..|.+.++.+..|++++++.+..-.++.||++++.||+...                                 
T Consensus       102 tANY~yFlalekV~qLdhP~a~kifteqLleLHrGQGldIYWRD~~t---------------------------------  148 (322)
T KOG0777|consen  102 TANYMYFLALEKVSQLDHPNAIKIFTEQLLELHRGQGLDIYWRDFLT---------------------------------  148 (322)
T ss_pred             hhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCCcceeeeccCc---------------------------------
Confidence            57899999999999999999999999999999999999999998763                                 


Q ss_pred             hhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCcc
Q psy17022         82 FMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKP  161 (287)
Q Consensus        82 ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~  161 (287)
                                +|+++.|..|+..|||.||++++++.-.++...+    .+..+-..+|+.|||+||+.++...+....|.
T Consensus       149 ----------cPtee~Yk~Mv~~KTGGLF~La~rLMqlfS~~ke----dl~pl~n~LGl~fQIRDDY~NL~~keysenKs  214 (322)
T KOG0777|consen  149 ----------CPTEEMYKNMVMNKTGGLFRLALRLMQLFSHHKE----DLVPLINLLGLIFQIRDDYLNLKDKEYSENKS  214 (322)
T ss_pred             ----------CCCHHHHHHHHHHhcccHHHHHHHHHHHHHhcch----hHHHHHHHHhHhhhhhhhhccchhhhhhcccc
Confidence                      4777899999999999999999999998885543    46778889999999999999998876665666


Q ss_pred             chhhhHhhhhhhhhHhhh
Q psy17022        162 TAADLKLGLATAPVLFAC  179 (287)
Q Consensus       162 ~~~Di~~~K~t~~~l~a~  179 (287)
                      +.+|+.+||.++|+++|+
T Consensus       215 FaEDlTEGKfsFP~iHA~  232 (322)
T KOG0777|consen  215 FAEDLTEGKFSFPIIHAL  232 (322)
T ss_pred             hhhhhccCccCCcchhhh
Confidence            555555555555555444

>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases

Probab=99.85  E-value=1.4e-20  Score=165.77  Aligned_cols=134  Identities=37%  Similarity=0.571  Sum_probs=118.2

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      ++||++++.+|..++....++..+++++.+..+++||.+++.+..                                   
T Consensus        65 ~~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~Gq~~Dl~~~~-----------------------------------  109 (236)
T cd00867          65 LAGDYLLARAFQLLARLGYPRALELFAEALRELLEGQALDLEFER-----------------------------------  109 (236)
T ss_pred             HHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHhcc-----------------------------------
Confidence            479999999999999887777777777777777777777664332                                   


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                               +..+++++|.+++++|||+++..++..++++++.+++..+.+.+||+++|++||+.||++|+.++.+..||
T Consensus       110 ---------~~~~t~~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk  180 (236)
T cd00867         110 ---------DTYETLDEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK  180 (236)
T ss_pred             ---------CCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCc
Confidence                     23468899999999999999999999999999999888999999999999999999999999999999999


Q ss_pred             cchhhhHhhhhhhhhHhhh
Q psy17022        161 PTAADLKLGLATAPVLFAC  179 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~  179 (287)
                       .++|+.+||.|+|...+.
T Consensus       181 -~~~D~~~gr~tlp~~~~~  198 (236)
T cd00867         181 -VGSDLREGRITLPVILAR  198 (236)
T ss_pred             -cHHHHHcCCchHHHHHHH
Confidence             999999999999999883

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

>PRK10581 geranyltranstransferase; Provisional

Probab=99.74  E-value=1.3e-17  Score=152.08  Aligned_cols=141  Identities=22%  Similarity=0.249  Sum_probs=102.5

Q ss_pred             HHHHHHHHHHHhcCC--C-hHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhc
Q psy17022        109 LIANCVKASAMLGGA--D-DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAML  185 (287)
Q Consensus       109 L~~~~~~~g~~la~~--~-~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~l  185 (287)
                      |+..++.+.+.....  . ....+.+..+....|+.--+...++|+..............+..+||+.++..+++.|+++
T Consensus       117 L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~GQ~ld~~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~gail  196 (299)
T PRK10581        117 LQTLAFSILSDAPMPEVSDRDRISMISELASASGIAGMCGGQALDLEAEGKQVPLDALERIHRHKTGALIRAAVRLGALS  196 (299)
T ss_pred             HHHHHHHHHHhCCCccCChHHHHHHHHHHHHhcccchhhHhhHHHHhccCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            355555554433221  1 1223445555554333222233333333332233455667789999999999999999999


Q ss_pred             cCCCh-HHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCcc
Q psy17022        186 GGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE  249 (287)
Q Consensus       186 a~~~~-~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~  249 (287)
                      ++.++ +..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||.|+|++++++.+.+
T Consensus       197 ag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~g~~~~~GK~~g~Dl~~gk~T~p~l~~~e~a~~  261 (299)
T PRK10581        197 AGDKGRRALPVLDRYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARK  261 (299)
T ss_pred             cCCCcHHHHHHHHHHHHHHHHHHHHHHHHccccCChHHHCCCcchhhhcCCCCHHHHHHHHHHHH
Confidence            98764 57899999999999999999999999999999999999999999999999999987654

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

Probab=99.63  E-value=7e-16  Score=138.28  Aligned_cols=86  Identities=36%  Similarity=0.533  Sum_probs=80.7

Q ss_pred             ccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHH
Q psy17022        160 KPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAP  239 (287)
Q Consensus       160 k~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp  239 (287)
                      ......+...|++.++..++..++++++++++..+.+.+||.++|++|||.||++|++++++.+||+.++|+++||+|||
T Consensus       138 ~~~y~~~~~~KT~~l~~~~~~~~a~l~~~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~~~~~gK~~~~Di~~gk~T~~  217 (259)
T cd00685         138 EEEYLRIIRLKTAALFAAAPLLGALLAGADEEEAEALKRFGRNLGLAFQIQDDILDLFGDPETLGKPVGSDLREGKCTLP  217 (259)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHCCCcchHHHcCCchHH
Confidence            34566779999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhh
Q psy17022        240 VLFACE  245 (287)
Q Consensus       240 ~i~al~  245 (287)
                      ++++++
T Consensus       218 ~~~~l~  223 (259)
T cd00685         218 VLLALR  223 (259)
T ss_pred             HHHHHH
Confidence            999983

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

>KOG0711|consensus

Probab=99.55  E-value=1.3e-14  Score=129.49  Aligned_cols=114  Identities=19%  Similarity=0.177  Sum_probs=83.1

Q ss_pred             HHHHHHHhhhhhhhhhhhccCccc--hhhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcCC-ChHHHHHHHHHHHHHhHHH
Q psy17022         67 ANCVKAIMTDLVQGEFMQLGSKET--ENERFAHYLTKTYRKTASL-IANCVKASAMLGGA-DDKLSEVAFEYGRNLGIAF  142 (287)
Q Consensus        67 ~~~~~~~~~~~~~GQ~~d~~~~~~--~~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~~-~~~~~~~l~~~g~~~G~af  142 (287)
                      ....+.++.....||+++....+.  ..+|++.|-.|+..||+.+ |.+|+.++..++|. +.+.-.....+...+|..|
T Consensus       152 ~elf~ev~f~T~lGdllt~~~~~~~ls~fsl~~y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~F  231 (347)
T KOG0711|consen  152 VELFHEVTFQTELGDLLTTPEGNKDLSKFSLEKYVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYF  231 (347)
T ss_pred             HHHHHHHHHHHhhhccccCcccchhHhhhhHHHHHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHH
Confidence            344556677778888887665443  3899999999999999999 99999999999986 4444566777777777777


Q ss_pred             HhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhh
Q psy17022        143 QLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK  181 (287)
Q Consensus       143 Qi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~  181 (287)
                      |++||++|++++++.+||. |+||..+|+||++..|++.
T Consensus       232 QvQDDYLd~fgDp~vtgki-GtDIqDnKCsWlv~~al~~  269 (347)
T KOG0711|consen  232 QVQDDYLDCFGDPEVTGKI-GTDIQDNKCSWLVVKALQR  269 (347)
T ss_pred             hcchHHHHhcCChhhcCCC-CCccccCceeeehHHHHhh
Confidence            7777777777776666553 4555555555555554443

>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases

Probab=99.40  E-value=2.1e-12  Score=113.67  Aligned_cols=85  Identities=39%  Similarity=0.566  Sum_probs=77.9

Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                      .....+..+|++.++..++..++.+++.+++..+.+..+|.++|++||+.||++|+.++.+.+|| .++|+++||+|+|.
T Consensus       116 ~~y~~~~~~Kta~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk-~~~D~~~gr~tlp~  194 (236)
T cd00867         116 DEYLEYCRYKTAGLVGLLCLLGAGLSGADDEQAEALKDYGRALGLAFQLTDDLLDVFGDAEELGK-VGSDLREGRITLPV  194 (236)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHHCc-cHHHHHcCCchHHH
Confidence            34567788999999999999999999988889999999999999999999999999999999999 99999999999999


Q ss_pred             HHhhhh
Q psy17022        241 LFACEK  246 (287)
Q Consensus       241 i~al~~  246 (287)
                      +++.+.
T Consensus       195 ~~~~~~  200 (236)
T cd00867         195 ILARER  200 (236)
T ss_pred             HHHHHH
Confidence            999443

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

>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1

Probab=99.26  E-value=3.1e-10  Score=98.03  Aligned_cols=80  Identities=34%  Similarity=0.515  Sum_probs=62.4

Q ss_pred             hhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCc
Q psy17022         76 DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS  155 (287)
Q Consensus        76 ~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~  155 (287)
                      .++.||..|+.+.....+++++|+++++.|||.++...+..++.....+....+.+.+++.++|+++|+.||+.|+..+.
T Consensus        90 ~~~~g~~~d~~~~~~~~~t~~ey~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~  169 (243)
T cd00385          90 DLLEGQLLDLKWRREYVPTLEEYLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDA  169 (243)
T ss_pred             HHHHHHHHHHHhccCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH
Confidence            34444444444433235788999999999999999999999888887776667888999999999999999999987653

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

>COG0142 IspA Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]

Probab=98.98  E-value=3.5e-09  Score=97.86  Aligned_cols=125  Identities=26%  Similarity=0.276  Sum_probs=85.0

Q ss_pred             hhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCc
Q psy17022        148 LLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT  227 (287)
Q Consensus       148 ~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~  227 (287)
                      ++|+.......-.....-++++||..++.+++..|+++++++++..+.+.+||+++|++|||+||++|++          
T Consensus       151 ~lDl~~~~~~~t~e~y~~~i~~KTa~L~~~a~~~ga~la~~~~~~~~~l~~~g~~lGlaFQi~DDiLD~~----------  220 (322)
T COG0142         151 ALDLAFENKPVTLEEYLRVIELKTAALFAAAAVLGAILAGADEELLEALEDYGRNLGLAFQIQDDILDIT----------  220 (322)
T ss_pred             HHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhHHHHHHHHhhcCC----------
Confidence            3444443332334445667999999999999999999999999999999999999999999999999985          


Q ss_pred             hhhHhhCCChHHHHHhhhhCccchHHHH-hhcCCchhHHHHHHHHHhcChHHHHHHHHHh
Q psy17022        228 AADLKLGLATAPVLFACEKFPELNPMIM-RRFQEPGDVEKAFEFVHKSQGLEQTKFLARK  286 (287)
Q Consensus       228 g~Dl~~gk~Tlp~i~al~~~~~~~~~l~-~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~  286 (287)
                      +..-..||.+---+.-   .......+. -....+++. .++..+...+-++++..+.++
T Consensus       221 ~d~~~lGK~~g~Dl~~---gK~T~p~l~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  276 (322)
T COG0142         221 GDEEELGKPVGSDLKE---GKPTLPVLLALEKANEDQK-LLRILLEGGGEVEEALELLRK  276 (322)
T ss_pred             CChHHhCCCcchHHHc---CCchHHHHHHHHcCchhhH-HHHHHhhcchHHHHHHHHHHH
Confidence            3345568866522221   222222222 223334444 667777676667777666554

>PLN02890 geranyl diphosphate synthase

Probab=98.80  E-value=8.9e-09  Score=97.86  Aligned_cols=55  Identities=40%  Similarity=0.686  Sum_probs=51.0

Q ss_pred             chhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        162 TAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       162 ~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      ..-.+..+|+..++..+|+.|+++++++++..+.+.+||+++|++|||+||++||
T Consensus       259 ~Yl~~i~~KTa~Lf~~s~~~gAilaga~~~~~~~l~~fG~~lGlAFQI~DDiLD~  313 (422)
T PLN02890        259 YYMQKTYYKTASLISNSCKAVAILAGQTAEVAVLAFEYGRNLGLAFQLIDDVLDF  313 (422)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3455688999999999999999999999999999999999999999999999997

>PRK10888 octaprenyl diphosphate synthase; Provisional

Probab=98.73  E-value=1.8e-08  Score=93.18  Aligned_cols=57  Identities=32%  Similarity=0.439  Sum_probs=52.7

Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      .....+..+|++.++..+|+.|+++++.+++..+.+.+||+++|++|||+||++|++
T Consensus       161 ~~y~~~i~~KTa~lf~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~  217 (323)
T PRK10888        161 ENYMRVIYSKTARLFEAAAQCSGILAGCTPEQEKGLQDYGRYLGTAFQLIDDLLDYS  217 (323)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            345567899999999999999999999999999999999999999999999999986

>TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II

Probab=98.72  E-value=2.4e-08  Score=92.20  Aligned_cols=55  Identities=22%  Similarity=0.469  Sum_probs=50.8

Q ss_pred             hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      .-++..+|++.++..+|+.|+++++.+++..+.+.+||.++|++|||+||++||+
T Consensus       162 Y~~~i~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~  216 (319)
T TIGR02748       162 YLRRIKRKTALLIAASCQLGAIASGANEAIVKKLYWFGYYVGMSYQITDDILDFV  216 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            3456789999999999999999999999999999999999999999999999994

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.

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

Probab=98.71  E-value=2.8e-07  Score=82.74  Aligned_cols=106  Identities=29%  Similarity=0.337  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHhcCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCC
Q psy17022        110 IANCVKASAMLGGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGA  188 (287)
Q Consensus       110 ~~~~~~~g~~la~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~  188 (287)
                      +..++...+.+...++ .....+.......+...++. +..|+..............+.+.|++.++.++|+.|+++++.
T Consensus        85 l~~a~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~-q~~d~~~~~~~~~~~~y~~i~~~KTg~l~~~~~~~ga~lag~  163 (260)
T PF00348_consen   85 LALAFELLARLGHFDPSERVLRILELFIEALIEGEIG-QALDLANEDKDPTEEEYLEIIRLKTGSLFALACQLGAILAGA  163 (260)
T ss_dssp             HHHHHHHHHHHCHSHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHTTTSSTSHHHHHHHHHHHTHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHhhcccchHHHHHHHHHHHHhcccceee-hhhccccccccccHHHHHHHHhhcchHHHHHHHHHHHHhccc
Confidence            5556666665552222 33333333333333333333 555555543344455667889999999999999999999999


Q ss_pred             ChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        189 DDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       189 ~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      +++..+.+.+||.++|++||+.||++|+
T Consensus       164 ~~~~~~~l~~~g~~lG~afQi~DD~~d~  191 (260)
T PF00348_consen  164 DEEQIEALREFGRHLGIAFQIRDDLLDL  191 (260)
T ss_dssp             GHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHhhhhhhhhc
Confidence            9999999999999999999999999997

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 ....

>TIGR02749 prenyl_cyano solanesyl diphosphate synthase

Probab=98.71  E-value=2e-08  Score=92.84  Aligned_cols=58  Identities=29%  Similarity=0.508  Sum_probs=53.1

Q ss_pred             ccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        160 KPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       160 k~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      ....-.+..+|+..++..+|+.|+++++.+++..+.+.+||.++|++||++||++|++
T Consensus       163 ~~~y~~~~~~KTa~L~~~~~~~ga~~ag~~~~~~~~l~~~G~~lG~aFQi~DDild~~  220 (322)
T TIGR02749       163 LEDYLEKSFYKTASLVAASSKAAAVLSDVPSQVANDLYEYGKHLGLAFQVVDDILDFT  220 (322)
T ss_pred             HHHHHHHHHccHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence            3445667899999999999999999999999999999999999999999999999985

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=98.63  E-value=5.9e-08  Score=92.27  Aligned_cols=58  Identities=33%  Similarity=0.543  Sum_probs=53.5

Q ss_pred             ccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        160 KPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       160 k~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      .....++..+|+..++..+|+.|+++++++++..+.+.+||+++|++|||+||++|++
T Consensus       257 ~~~Yl~~i~~KTa~L~~~a~~~gallaga~~~~~~~l~~fG~~LGiAFQI~DDiLD~~  314 (416)
T PLN02857        257 LDEYLLKSYYKTASLIAASTKSAAIFSGVDSSVKEQMYEYGKNLGLAFQVVDDILDFT  314 (416)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            3456677899999999999999999999999999999999999999999999999986

>KOG0776|consensus

Probab=98.57  E-value=3.2e-07  Score=85.20  Aligned_cols=165  Identities=24%  Similarity=0.224  Sum_probs=108.4

Q ss_pred             HhhhhHHHHHHHHHHHHHHhcCCCh--HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhh
Q psy17022        101 KTYRKTASLIANCVKASAMLGGADD--KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA  178 (287)
Q Consensus       101 ~~~~KTg~L~~~~~~~g~~la~~~~--~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a  178 (287)
                      |.-+-=..|++.++...+.+.+...  -....+.++++-.|.-.+.-.--+|+..    .|-....-++..|+..++..+
T Consensus       173 ~AvLaGD~LLa~A~~~la~l~n~~v~elm~~aI~dLv~ge~~~~~~~~~~~d~~~----~~~e~~e~~~~~KTAsLla~S  248 (384)
T KOG0776|consen  173 MAVLAGDALLALASEHLASLENPVVVELMASAIADLVRGEFTQGLVAGEGLDLDD----VGLEYLEFKTLLKTASLLAKS  248 (384)
T ss_pred             hhhhhhHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHhhhhcccccccccccCC----cchHHHHHHHHHHHHHHHHHH
Confidence            3334445567788877777776522  2346788888888776666541122221    455667788999999999999


Q ss_pred             hhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHh-hhhCccchHHHHhh
Q psy17022        179 CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA-CEKFPELNPMIMRR  257 (287)
Q Consensus       179 ~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~a-l~~~~~~~~~l~~~  257 (287)
                      |+.|+++++.+++.++.+++||+++|++||++||++|+.          .+...-||...--+.+ .-..|.    +-..
T Consensus       249 c~~~aILgg~s~ev~e~~~~yGR~lGL~fQvvDDildft----------kss~elGK~ag~Dl~~g~lT~P~----Lf~~  314 (384)
T KOG0776|consen  249 CVAAAILGGGSEEVIEAAFEYGRCLGLAFQVVDDILDFT----------KSSEELGKTAGKDLKAGKLTAPV----LFAL  314 (384)
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcccCcc----------cchhhcCcchhhhhhhccccccc----hhhh
Confidence            999999999999999999999999999999999999974          2344446644332222 112232    2222


Q ss_pred             cCCchhHHHHHHHHHhcChHHHHHHH
Q psy17022        258 FQEPGDVEKAFEFVHKSQGLEQTKFL  283 (287)
Q Consensus       258 ~~~~~~~~~~~~~i~~~g~~e~a~~~  283 (287)
                      ...++-.+.+..-..+.+-.+.+.+.
T Consensus       315 e~~pe~~e~l~~~~~e~~~~~~~~k~  340 (384)
T KOG0776|consen  315 EKSPELREKLEREFSEPLDGFDADKA  340 (384)
T ss_pred             hhChHHHHHHHHhccccchhhHHHHH
Confidence            23444455555555555555555544

>CHL00151 preA prenyl transferase; Reviewed

Probab=98.44  E-value=1.3e-06  Score=80.91  Aligned_cols=53  Identities=32%  Similarity=0.612  Sum_probs=49.6

Q ss_pred             hhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        165 DLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       165 Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      .+..+|++.++..+|+.|+++++.+++..+.+.+||.++|++|||+||++|++
T Consensus       169 ~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~G~~lG~aFQi~DDilD~~  221 (323)
T CHL00151        169 EKSFYKTASLIAASCKAAALLSDADEKDHNDFYLYGKHLGLAFQIIDDVLDIT  221 (323)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            34589999999999999999999999999999999999999999999999985

>KOG0711|consensus

Probab=95.42  E-value=0.009  Score=54.36  Aligned_cols=116  Identities=18%  Similarity=0.140  Sum_probs=91.2

Q ss_pred             chhhhHhhhhhhhhH-hhhhhhhhccC-CChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHH
Q psy17022        162 TAADLKLGLATAPVL-FACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAP  239 (287)
Q Consensus       162 ~~~Di~~~K~t~~~l-~a~~~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp  239 (287)
                      ..+-|.+.|+++-.. +....|-.+++ ...+.+...+++...+|.-||++||++|.++|++.+||. |+||+++|+||.
T Consensus       184 ~y~~Iv~~KTa~YsFYLPialAl~~ag~~~~k~~~~~k~v~~~lg~~FQvQDDYLd~fgDp~vtgki-GtDIqDnKCsWl  262 (347)
T KOG0711|consen  184 KYVFIVEYKTAYYSFYLPVALALLLAGIANLKEHACEKKVLLLLGEYFQVQDDYLDCFGDPEVTGKI-GTDIQDNKCSWL  262 (347)
T ss_pred             HHHHHhhccccceeeecHHHHHHHHhhhhhHHHhhhHHHHHHHHHHHHhcchHHHHhcCChhhcCCC-CCccccCceeee
Confidence            345677788776544 34444555555 566778889999999999999999999999999999997 799999999999


Q ss_pred             HHHhhhhC-ccchHHHHhhcC--CchhHHHHHHHHHhcChHH
Q psy17022        240 VLFACEKF-PELNPMIMRRFQ--EPGDVEKAFEFVHKSQGLE  278 (287)
Q Consensus       240 ~i~al~~~-~~~~~~l~~~~~--~~~~~~~~~~~i~~~g~~e  278 (287)
                      +..|++.+ ++..+++..++.  +++.+++++.+..+.+...
T Consensus       263 v~~al~~~~~eq~~~l~~~yg~~~~~~v~~vk~ly~el~l~~  304 (347)
T KOG0711|consen  263 VVKALQRASAEQYKILFENYGKPEAEAVAKVKALYKELHLPA  304 (347)
T ss_pred             hHHHHhhcCHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHH
Confidence            99999986 556677766554  5677888888877776543

>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=94.35  E-value=0.25  Score=42.95  Aligned_cols=68  Identities=18%  Similarity=0.288  Sum_probs=51.7

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHH
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVK   71 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~   71 (287)
                      |+|||.=+.-+.+||+.++..+++.||+++..+++....-....   ..+.++|+..+..=.+.++...+.
T Consensus        74 LAGDy~S~~yY~lLA~~~~i~li~~ls~aI~eiNE~K~~ly~~~---~~~~e~~~~~~~~ies~l~~~~~~  141 (212)
T PF07307_consen   74 LAGDYYSGLYYQLLAESGDISLIRALSEAIKEINELKMSLYQKK---KETAEEYLESVVTIESALFQSFAE  141 (212)
T ss_pred             hhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHhh---hCCHHHHHHHHHHHHHHHHHHHHH
Confidence            79999999999999999999999999999999999987644222   235577776655444444444443

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) [, ].

>TIGR01559 squal_synth farnesyl-diphosphate farnesyltransferase

Probab=89.36  E-value=14  Score=34.42  Aligned_cols=160  Identities=11%  Similarity=0.107  Sum_probs=89.0

Q ss_pred             HHHHHHHHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhh
Q psy17022         66 IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLV  145 (287)
Q Consensus        66 ~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~  145 (287)
                      +...+..++..|+.|...|+....-...|.++|..=+++=.|.-=.+.+.+-+. ++..........+++..+|+++|+.
T Consensus       102 ~~~~I~~~~~~M~~GMa~dl~~~~~~~~T~~dL~~YCy~VAG~VG~mlt~l~~~-~~~~~~~~~~~~~~A~~lG~aLQlT  180 (336)
T TIGR01559       102 YQEVIADITRRMGNGMADFIDKEVTNEQTVGDYDKYCHYVAGLVGIGLSRLFVA-SGFEDPSLGESEALSNSMGLFLQKT  180 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHhccccHHHHHHHHHHhh-cCCCCcchhhhHHHHHHHHHHHHHH
Confidence            344445567788899988887643212566666665655555543333333222 2222211223467899999999999


Q ss_pred             hhhhhhccCccccCccchhhhHhhhhhhhhHhhhh----hhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhcc
Q psy17022        146 DDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE----KSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSD  221 (287)
Q Consensus       146 dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~----~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~  221 (287)
                      |=+.|+           ++|+..|..=+|-..--+    ......+...+..  ..-...-+..+...+++.+.|+..-.
T Consensus       181 NIlRDv-----------~ED~~~GR~YlP~e~l~~~g~~~~dl~~~~~~~~~--~~~l~~lv~~A~~~~~~al~yl~~l~  247 (336)
T TIGR01559       181 NIIRDY-----------LEDINEGRMFWPREIWSKYAKKLGDFKKPENSDKA--LQCLNELVTNALHHATDCLTYLSRLR  247 (336)
T ss_pred             HHHHHH-----------HhHHhCCCCCCCHHHHHHcCCCHHHhcCccccHHH--HHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            999886           455666666666552221    1222222111111  11122345556677788888876431


Q ss_pred             ccCCCchhhHhhCCChHHHHHhhhh
Q psy17022        222 AMGKPTAADLKLGLATAPVLFACEK  246 (287)
Q Consensus       222 ~~gK~~g~Dl~~gk~Tlp~i~al~~  246 (287)
                      .   + +  + ..-+-+|.++|+..
T Consensus       248 ~---~-~--~-~~fcaip~~mAi~T  265 (336)
T TIGR01559       248 D---Q-S--I-FNFCAIPQVMAIAT  265 (336)
T ss_pred             C---c-c--h-hHHHHHHHHHHHHH
Confidence            1   1 1  1 23567899999876

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.

>PLN02632 phytoene synthase

Probab=84.74  E-value=3.3  Score=38.57  Aligned_cols=90  Identities=22%  Similarity=0.250  Sum_probs=63.4

Q ss_pred             HhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhc
Q psy17022         73 IMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  152 (287)
Q Consensus        73 ~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~  152 (287)
                      ...+|+.|..+|+...  .-.|++++..-++.=.|.+..+++.+... ...+....+.+...+.++|+++|+.|=+.|+ 
T Consensus       141 ~~~~li~g~~~Dl~~~--~~~t~~eL~~Ycy~vAgtVG~l~l~vlg~-~~~~~~~~~~~~~~A~~lG~AlQltNILRDv-  216 (334)
T PLN02632        141 PFRDMIEGMRMDLVKS--RYENFDELYLYCYYVAGTVGLMSVPVMGI-APESKASTESVYNAALALGIANQLTNILRDV-  216 (334)
T ss_pred             HHHHHHHHHHHHhccC--CCCCHHHHHHHHHHhhHHHHHHHHHHhCC-CCccccchHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            3578999999999753  45577888887888888887666655221 1111223355678899999999999999887 


Q ss_pred             cCccccCccchhhhHhhhhhhhhH
Q psy17022        153 SSSDAMGKPTAADLKLGLATAPVL  176 (287)
Q Consensus       153 ~~~~~~Gk~~~~Di~~~K~t~~~l  176 (287)
                                ++|...|..-+|.-
T Consensus       217 ----------~eD~~~GRvYLP~e  230 (334)
T PLN02632        217 ----------GEDARRGRVYLPQD  230 (334)
T ss_pred             ----------HHHHhCCceeCCHH
Confidence                      56667777666654

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

Probab=84.16  E-value=11  Score=33.49  Aligned_cols=73  Identities=27%  Similarity=0.257  Sum_probs=54.9

Q ss_pred             HHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhh
Q psy17022         72 AIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  151 (287)
Q Consensus        72 ~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~  151 (287)
                      ....+|+.|...|+...  ...|++++..-++.=+|++..+.+.+...-  .+.   .....++.++|.++|+.|=+.|+
T Consensus        91 ~~l~~li~~~~~dl~~~--~~~t~~~L~~Y~~~vag~vg~l~~~~~~~~--~~~---~~~~~~a~~lG~alql~nilRd~  163 (267)
T PF00494_consen   91 EPLLELIDGMEMDLEFT--PYETFADLERYCYYVAGSVGLLLLQLLGAH--DPD---EAARDAARALGRALQLTNILRDI  163 (267)
T ss_dssp             HHHHHHHHHHHHCTT-S----SSHHHHHHHHHHHTHHHHHHHHHHHHSS--TSH---HHHHHHHHHHHHHHHHHHHHHTH
T ss_pred             HHHHHHHHHhcccccCC--CCCCHHHHHHHHHHHHHHHHHHHHHHhccc--cch---hhHHHHHHHHHHHHHHHHHHHHh
Confidence            45779999999999863  356888999989999999887777765542  111   45778889999999999888886

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 ....

>TIGR03465 HpnD squalene synthase HpnD

Probab=82.72  E-value=4.2  Score=36.41  Aligned_cols=86  Identities=23%  Similarity=0.261  Sum_probs=63.3

Q ss_pred             HHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhh
Q psy17022         72 AIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  151 (287)
Q Consensus        72 ~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~  151 (287)
                      .-..+|+.|+..|+...  ...|.+++..-++.=.|++..+++.+-   +..+    +....++.++|.++|+.|=+.|+
T Consensus        85 ~~~~~li~g~~~Dl~~~--~~~t~~dL~~Y~~~vAg~vg~l~~~ll---g~~~----~~~~~~a~~lG~AlqltnilRdv  155 (266)
T TIGR03465        85 EDFLEVIDGMEMDLEQT--RYPDFAELDLYCDRVAGAVGRLSARIF---GATD----ARTLEYAHHLGRALQLTNILRDV  155 (266)
T ss_pred             HHHHHHHHHHHHHcCCC--CCCCHHHHHHHHHHhHHHHHHHHHHHh---CCCC----hhHHHHHHHHHHHHHHHHHHHHh
Confidence            33678999999999764  456888888888888888877766653   2222    23567899999999999999887


Q ss_pred             ccCccccCccchhhhHhhhhhhhhHh
Q psy17022        152 ISSSDAMGKPTAADLKLGLATAPVLF  177 (287)
Q Consensus       152 ~~~~~~~Gk~~~~Di~~~K~t~~~l~  177 (287)
                                 +.|+..|..-+|.-.
T Consensus       156 -----------~eD~~~gR~ylP~~~  170 (266)
T TIGR03465       156 -----------GEDARRGRIYLPAEE  170 (266)
T ss_pred             -----------HHHHhCCCeecCHHH
Confidence                       456666776666543

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.

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

Probab=81.81  E-value=3.9  Score=36.52  Aligned_cols=86  Identities=26%  Similarity=0.297  Sum_probs=59.6

Q ss_pred             HHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhh
Q psy17022         72 AIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  151 (287)
Q Consensus        72 ~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~  151 (287)
                      ....+|+.|...|+...  .-.+++++..-++.=.|+...+++.+.   +...   .+....++.++|+++|+.|=+.|+
T Consensus        93 ~~~~~li~g~~~Dl~~~--~~~t~~eL~~Y~~~vAg~vg~l~~~i~---~~~~---~~~~~~~A~~lG~AlqltnilRdv  164 (265)
T cd00683          93 EPFRDLLAGMAMDLDKR--RYETLDELDEYCYYVAGVVGLMLLRVF---GASS---DEAALERARALGLALQLTNILRDV  164 (265)
T ss_pred             HHHHHHHHHHHHhCCCC--CCCCHHHHHHHHHHhHHHHHHHHHHHh---CCCC---ChHHHHHHHHHHHHHHHHHHHHHH
Confidence            44678999999999853  456777777777777777766555443   2211   133568899999999999999887


Q ss_pred             ccCccccCccchhhhHhhhhhhhhH
Q psy17022        152 ISSSDAMGKPTAADLKLGLATAPVL  176 (287)
Q Consensus       152 ~~~~~~~Gk~~~~Di~~~K~t~~~l  176 (287)
                      -           .|...|..-+|.-
T Consensus       165 ~-----------eD~~~gR~YlP~d  178 (265)
T cd00683         165 G-----------EDARRGRIYLPRE  178 (265)
T ss_pred             H-----------HHHccCCCcCCHH
Confidence            4           4555555555543

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

>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1

Probab=81.22  E-value=2.5  Score=35.69  Aligned_cols=77  Identities=34%  Similarity=0.385  Sum_probs=59.9

Q ss_pred             hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHH
Q psy17022        163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF  242 (287)
Q Consensus       163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~  242 (287)
                      ...+...|+..++...+..+......+......+..++..+|.++|+.||+.|+..+....         +|+.|+|.++
T Consensus       112 y~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~~~---------~~~~~l~~~~  182 (243)
T cd00385         112 YLEYCRYKTAGLVGALCLLGAGLSGGEAELLEALRKLGRALGLAFQLTNDLLDYEGDAERG---------EGKCTLPVLY  182 (243)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHh---------CCchHHHHHH
Confidence            4455677776777777777666665556677889999999999999999999998764321         4899999999


Q ss_pred             hhhhCc
Q psy17022        243 ACEKFP  248 (287)
Q Consensus       243 al~~~~  248 (287)
                      ..+...
T Consensus       183 ~~~~~~  188 (243)
T cd00385         183 ALEYGV  188 (243)
T ss_pred             HHHhCC
Confidence            988754

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	287
3aq0_A	348	Ligand-Bound Form Of Arabidopsis MediumLONG-Chain L		6e-26
3aq0_A	348	Ligand-Bound Form Of Arabidopsis MediumLONG-Chain L		2e-24
3apz_A	348	Apo Form Of Arabidopsis MediumLONG-Chain Length Pre		8e-26
3apz_A	348	Apo Form Of Arabidopsis MediumLONG-Chain Length Pre		2e-24
3oyr_A	345	Crystal Structure Of Polyprenyl Synthase From Caulo		7e-13
3oyr_A	345	Crystal Structure Of Polyprenyl Synthase From Caulo		4e-10
3mzv_A	341	Crystal Structure Of A Decaprenyl Diphosphate Synth		3e-11
3aqb_B	325	M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphospha		7e-11
3aqb_B	325	M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphospha		8e-08
3tc1_A	315	Crystal Structure Of Octaprenyl Pyrophosphate Synth		3e-10
3tc1_A	315	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-07
3nf2_A	352	Crystal Structure Of Polyprenyl Synthetase From Str		1e-09
3nf2_A	352	Crystal Structure Of Polyprenyl Synthetase From Str		6e-09
3lmd_A	360	Crystal Structure Of Geranylgeranyl Pyrophosphate S		1e-09
3lmd_A	360	Crystal Structure Of Geranylgeranyl Pyrophosphate S		6e-06
1wy0_A	342	Crystal Structure Of Geranylgeranyl Pyrophosphate S		2e-09
1wy0_A	342	Crystal Structure Of Geranylgeranyl Pyrophosphate S		1e-06
3n3d_A	335	Crystal Structure Of Geranylgeranyl Pyrophosphate S		4e-08
3pko_A	334	Crystal Structure Of Geranylgeranyl Pyrophosphate S		4e-08
3ipi_A	295	Crystal Structure Of A Geranyltranstransferase From		8e-08
3kra_A	295	Mint Heterotetrameric Geranyl Pyrophosphate Synthas		2e-07
3kra_A	295	Mint Heterotetrameric Geranyl Pyrophosphate Synthas		3e-05
1rqi_A	300	Active Conformation Of Farnesyl Pyrophosphate Synth		1e-06
1rqi_A	300	Active Conformation Of Farnesyl Pyrophosphate Synth		6e-05
1rqj_A	299	Active Conformation Of Farnesyl Pyrophosphate Synth		1e-06
1rqj_A	299	Active Conformation Of Farnesyl Pyrophosphate Synth		6e-05
2for_A	323	Crystal Structure Of The Shigella Flexneri Farnesyl		1e-06
2for_A	323	Crystal Structure Of The Shigella Flexneri Farnesyl		5e-05
3lk5_A	380	Crystal Structure Of Putative Geranylgeranyl Pyroph		1e-06
3lk5_A	380	Crystal Structure Of Putative Geranylgeranyl Pyroph		6e-05
2h8o_A	335	The 1.6a Crystal Structure Of The Geranyltransferas		3e-06
1wl1_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		3e-06
1vg3_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1vg2_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
2azl_A	299	Crystal Structure For The Mutant F117e Of Thermotog		4e-06
1vg7_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1vg6_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1v4j_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1vg4_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1v4h_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1v4k_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1v4i_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1v4e_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1wkz_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
3p8r_A	302	Crystal Structure Of Polyprenyl Synthase From Vibri		4e-06
3p8r_A	302	Crystal Structure Of Polyprenyl Synthase From Vibri		9e-06
1wl2_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1wl0_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
1wl3_A	299	Crystal Structure Of Octaprenyl Pyrophosphate Synth		4e-06
4dhd_A	358	Crystal Structure Of Isoprenoid Synthase A3msh1 (Ta		8e-06
4dhd_A	358	Crystal Structure Of Isoprenoid Synthase A3msh1 (Ta		2e-05
4f62_A	317	Crystal Structure Of A Putative Farnesyl-Diphosphat		2e-05
3m9u_A	309	Crystal Structure Of Geranylgeranyl Pyrophosphate S		3e-05
3npk_A	291	The Crystal Structure Of Geranyltranstransferase Fr		4e-05
2j1o_A	268	Geranylgeranyl Diphosphate Synthase From Sinapis Al		5e-05
1rtr_A	301	Crystal Structure Of S. Aureus Farnesyl Pyrophospha		8e-05
3p8l_A	302	Crystal Structure Of Polyprenyl Synthase From Enter		1e-04
2j1p_A	293	Geranylgeranyl Diphosphate Synthase From Sinapis Al		2e-04
3rmg_A	334	Crystal Structure Of Geranylgeranyl Pyrophosphate S		2e-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 =  114 bits (285), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 73/212 (34%), Positives = 112/212 (52%), Gaps = 51/212 (24%)
Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           +AGDF+L+ AC  ++ L++ +V                                      
Sbjct: 133 LAGDFLLSRACGALAALKNTEVV------------------------------------- 155
Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
              +L+A  V+     LV GE M++ S         +Y+ KTY KTASLI+N  KA A+L
Sbjct: 156 ---ALLATAVE----HLVTGETMEITSSTAARYSMDYYMQKTYYKTASLISNSCKAVAVL 208
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            G   +++ +AFEYGRNLG+AFQL+DD+LDF  +S ++GK + +D++ G+ TAP+LFA E
Sbjct: 209 TGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAME 268
Query: 181 KSAMLG------GADDKLSEVAFEY-GRNLGI 205
           +   L        AD +  ++A EY G++ GI
Sbjct: 269 EFPQLREVVDQVAADPRNVDIALEYLGKSKGI 300

>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 =  108 bits (271), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 47/110 (42%), Positives = 82/110 (74%)
Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C+  A+L G   +++ +AFEYGRNLG+AFQL+DD+LDF  +S ++GK + +D++ G+ T
Sbjct: 201 SCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVIT 260
Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           AP+LFA E+FP+L  ++ +   +P +V+ A E++ KS+G+++ + LA +H
Sbjct: 261 APILFAMEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEH 310

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

Iteration: 1
 Score =  114 bits (284), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 72/212 (33%), Positives = 113/212 (53%), Gaps = 51/212 (24%)
Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           +AGDF+L+ AC  ++ L++ +V                                      
Sbjct: 133 LAGDFLLSRACGALAALKNTEVV------------------------------------- 155
Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
              +L+A  V+     LV GE M++ S   +     +Y+ KTY KTASLI+N  KA A+L
Sbjct: 156 ---ALLATAVE----HLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVL 208
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            G   +++ +AFEYGRNLG+AFQL+DD+LDF  +S ++GK + +D++ G+ TAP+LFA E
Sbjct: 209 TGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAME 268
Query: 181 KSAMLGGADDKLS------EVAFEY-GRNLGI 205
           +   L    D++       ++A EY G++ GI
Sbjct: 269 EFPQLREVVDQVEKDPRNVDIALEYLGKSKGI 300

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

Iteration: 1
 Score =  109 bits (272), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 47/110 (42%), Positives = 83/110 (75%)
Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           +C+  A+L G   +++ +AFEYGRNLG+AFQL+DD+LDF  +S ++GK + +D++ G+ T
Sbjct: 201 SCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVIT 260
Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           AP+LFA E+FP+L  ++ +  ++P +V+ A E++ KS+G+++ + LA +H
Sbjct: 261 APILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEH 310

>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 = 70.9 bits (172), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 42/106 (39%), Positives = 57/106 (53%)
Query: 77  LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGR 136
           + +GE +QL      N   A YL     KTA L A   +A A+  G D   SE   +YG 
Sbjct: 163 IAEGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAASEAGAVSAGVDVAKSEALRDYGL 222
Query: 137 NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
           NLG+AFQL DD LD+  +++ +GK    D + G AT P+L A  +S
Sbjct: 223 NLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIARS 268

>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 = 61.6 bits (148), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 40/108 (37%), Positives = 54/108 (50%), Gaps = 5/108 (4%)
Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           A E  A+  G D   SE   +YG NLG+AFQL DD LD+  +++ +GK    D + G AT
Sbjct: 199 ASEAGAVSAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKAT 258
Query: 238 APVLFACEKF-PE----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQT 280
            P+L A  +  P         I RR Q   D  +A E +  S  L+ T
Sbjct: 259 LPLLLAIARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDAT 306

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

Iteration: 1
 Score = 65.5 bits (158), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 41/112 (36%), Positives = 56/112 (50%), Gaps = 5/112 (4%)
Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
           A E   ++GGA +   +  F+YG  LGIAFQ+VDDLLD+   S  +GK T  D +    T
Sbjct: 187 ATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLT 246
Query: 238 APVLFACEKFPELNPMIMRRF-----QEPGDVEKAFEFVHKSQGLEQTKFLA 284
            PV+ A     E      +R      Q+ GD+E A   + K   LE T+  A
Sbjct: 247 MPVIKAVALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAA 298

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

Iteration: 1
 Score = 64.3 bits (155), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 40/121 (33%), Positives = 64/121 (52%), Gaps = 10/121 (8%)
Query: 80  GEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAF----EYG 135
           GEF Q+  +      F  YL +  RKTA LI    +AS  LG    +L E +     ++G
Sbjct: 145 GEFDQMADRFNYPVSFTAYLRRINRKTAILI----EASCHLGALSSQLDEQSTYHIKQFG 200
Query: 136 RNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEV 195
             +G+++Q++DD+LD+ S    +GKP  +D++ G  T P++ A   + +    DDKL  V
Sbjct: 201 HCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAI--ANLKEQDDDKLEAV 258
Query: 196 A 196
Sbjct: 259 V 259

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 34/149 (22%), Positives = 69/149 (46%), Gaps = 12/149 (8%)
Query: 150 DFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAF----EYGRNLGI 205
           +F   +D    P +    L           E S  LG    +L E +     ++G  +G+
Sbjct: 146 EFDQMADRFNYPVSFTAYLRRINRKTAILIEASCHLGALSSQLDEQSTYHIKQFGHCIGM 205
Query: 206 AFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELN----PMIMRRFQEP 261
           ++Q++DD+LD+ S    +GKP  +D++ G  T P++ A     E +      +++     
Sbjct: 206 SYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAIANLKEQDDDKLEAVVKHLTST 265
Query: 262 GDVEKAFEFV---HKSQGLEQTKFLARKH 287
            D ++ ++++    K  G+E  + L+RK+
Sbjct: 266 SD-DEVYQYIVSQVKQYGIEPAELLSRKY 293

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

Iteration: 1
 Score = 62.4 bits (150), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 41/121 (33%), Positives = 57/121 (47%), Gaps = 3/121 (2%)
Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
           K   LIA  +   +  L +GE   +   E  N     Y      KTA  I   +K+ A+L
Sbjct: 118 KMGELIAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAIL 177
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
              D K   +  ++G N G+AFQ++DDLLD    +  +GKP  +D K G  T P L   E
Sbjct: 178 LNKDAK---IYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYE 234
Query: 181 K 181
           K
Sbjct: 235 K 235

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 36/60 (60%)
Query: 190 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE 249
           +K +++  ++G N G+AFQ++DDLLD    +  +GKP  +D K G  T P L   EK  +
Sbjct: 179 NKDAKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKLNQ 238

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 34/100 (34%), Positives = 53/100 (53%)
Query: 77  LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGR 136
           L+ G+   +  +  +       L     KT +L+A      A+LGGAD++ ++   +YG 
Sbjct: 155 LIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASSIGAVLGGADERTADTLEKYGY 214
Query: 137 NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVL 176
           +LG+AFQ VDDLL      DA GK T +DL+    + PV+
Sbjct: 215 HLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVV 254

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 43/68 (63%), Gaps = 2/68 (2%)
Query: 176 LFACEKS--AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKL 233
           L AC  S  A+LGGAD++ ++   +YG +LG+AFQ VDDLL      DA GK T +DL+ 
Sbjct: 187 LLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQ 246
Query: 234 GLATAPVL 241
              + PV+
Sbjct: 247 RKKSLPVV 254

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 36/112 (32%), Positives = 58/112 (51%), Gaps = 3/112 (2%)
Query: 76  DLVQGEFMQ-LGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEY 134
           +LV G+  + +G ++T+     HY      KT  LIA+     AM  GA  +  +    +
Sbjct: 171 ELVTGQMRETVGPRDTDP--IEHYTNVIREKTGVLIASAGYLGAMHAGAAPEHIDALKNF 228
Query: 135 GRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLG 186
           G  +G+ FQ+VDD++D  S +   GK    DL+ G+ T PVL+A  +   +G
Sbjct: 229 GAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVG 280

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 31/98 (31%), Positives = 49/98 (50%), Gaps = 4/98 (4%)
Query: 183 AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242
           AM  GA  +  +    +G  +G+ FQ+VDD++D  S +   GK    DL+ G+ T PVL+
Sbjct: 212 AMHAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLY 271
Query: 243 AC-EKFP---ELNPMIMRRFQEPGDVEKAFEFVHKSQG 276
           A  E  P   EL  ++    ++   V    E + +S G
Sbjct: 272 ALREDTPVGAELRDILTGPLEDDETVNHVLELLSQSGG 309

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

Iteration: 1
 Score = 59.3 bits (142), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 33/112 (29%), Positives = 57/112 (50%), Gaps = 1/112 (0%)
Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
           K A ++   VKA   +L +G+   L  ++        Y+     KT +L     K   ++
Sbjct: 134 KKARVLEVIVKA-SNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGALFEASAKVGGII 192
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 172
           G  +++  +    +GRN+GIAFQ+ DD+LD I+    +GKP  +D++ G  T
Sbjct: 193 GTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKT 244

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 38/62 (61%), Gaps = 4/62 (6%)
Query: 180 EKSAMLGGA----DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
           E SA +GG     +++  +    +GRN+GIAFQ+ DD+LD I+    +GKP  +D++ G 
Sbjct: 183 EASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGK 242
Query: 236 AT 237
            T
Sbjct: 243 KT 244

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 57/122 (46%), Gaps = 3/122 (2%)
Query: 51  FAHYLTKTYRKTA--SLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTAS 108
           F  Y  +  + T   SLI N + A M  ++QGE  Q+     E+     YL +   KTA 
Sbjct: 121 FTVYFDQVLKSTTDRSLIQNHIDA-MHRILQGELHQMDLNYREDITLDAYLNEIAGKTAE 179
Query: 109 LIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKL 168
           L A      A L GA   + +   + G  +G A+Q++DD+LD+        KP   DL+ 
Sbjct: 180 LFALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRS 239
Query: 169 GL 170
           G+
Sbjct: 240 GV 241

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 57/122 (46%), Gaps = 3/122 (2%)
Query: 51  FAHYLTKTYRKTA--SLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTAS 108
           F  Y  +  + T   SLI N + A M  ++QGE  Q+     E+     YL +   KTA 
Sbjct: 128 FTVYFDQVLKSTTDRSLIQNHIDA-MHRILQGELHQMDLNYREDITLDAYLNEIAGKTAE 186
Query: 109 LIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKL 168
           L A      A L GA   + +   + G  +G A+Q++DD+LD+        KP   DL+ 
Sbjct: 187 LFALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRS 246
Query: 169 GL 170
           G+
Sbjct: 247 GV 248

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 31/79 (39%), Positives = 46/79 (58%), Gaps = 5/79 (6%)
Query: 76  DLVQGEFMQLGSKETENERFAH--YLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFE 133
           D  +GE + L   + E+E F    Y    Y+KTASL A      A  GGA+++L+E    
Sbjct: 138 DXAEGEVLDL---KLEDESFGENDYFKCIYKKTASLFAISASIGAYTGGAEEELAERFSH 194
Query: 134 YGRNLGIAFQLVDDLLDFI 152
           +G  LG A+Q+VDD+L+F+
Sbjct: 195 FGNALGTAYQIVDDILEFL 213

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

Iteration: 1
 Score = 53.1 bits (126), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/106 (32%), Positives = 51/106 (48%)
Query: 77  LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGR 136
           LV G+ + + S+        H     + KTA+L+   V   A+LGG  ++      ++  
Sbjct: 152 LVAGQVVDVCSEGMAEVGLDHLEFIHHHKTAALLQGSVVLGAILGGGKEEEVAKLRKFAN 211
Query: 137 NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
            +G+ FQ+VDD+LD   SS  +GK    DL     T P L   EKS
Sbjct: 212 CIGLLFQVVDDILDVTKSSKELGKTAGKDLVADKTTYPKLIGVEKS 257

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 27/78 (34%), Positives = 38/78 (48%)
Query: 183 AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242
           A+LGG  ++      ++   +G+ FQ+VDD+LD   SS  +GK    DL     T P L 
Sbjct: 193 AILGGGKEEEVAKLRKFANCIGLLFQVVDDILDVTKSSKELGKTAGKDLVADKTTYPKLI 252
Query: 243 ACEKFPELNPMIMRRFQE 260
             EK  E    + R  QE
Sbjct: 253 GVEKSKEFADRLNREAQE 270

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 2/86 (2%)
Query: 99  LTKTYR-KTASLIANCVKASAMLGGADDKLS-EVAFEYGRNLGIAFQLVDDLLDFISSSD 156
           L + +R KT +LI   V+  A+  G   + +  V  +Y  ++G+AFQ+ DD+LD +  + 
Sbjct: 175 LERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTA 234
Query: 157 AMGKPTAADLKLGLATAPVLFACEKS 182
            +GK   AD +LG +T P L   E++
Sbjct: 235 TLGKRQGADQQLGKSTYPALLGLEQA 260

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 198 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 246
           +Y  ++G+AFQ+ DD+LD +  +  +GK   AD +LG +T P L   E+
Sbjct: 211 KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQ 259

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 2/86 (2%)
Query: 99  LTKTYR-KTASLIANCVKASAMLGGADDKLS-EVAFEYGRNLGIAFQLVDDLLDFISSSD 156
           L + +R KT +LI   V+  A+  G   + +  V  +Y  ++G+AFQ+ DD+LD +  + 
Sbjct: 174 LERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTA 233
Query: 157 AMGKPTAADLKLGLATAPVLFACEKS 182
            +GK   AD +LG +T P L   E++
Sbjct: 234 TLGKRQGADQQLGKSTYPALLGLEQA 259

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 198 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 246
           +Y  ++G+AFQ+ DD+LD +  +  +GK   AD +LG +T P L   E+
Sbjct: 210 KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQ 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 = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 2/86 (2%)
Query: 99  LTKTYR-KTASLIANCVKASAMLGGADDKLS-EVAFEYGRNLGIAFQLVDDLLDFISSSD 156
           L + +R KT +LI   V+  A+  G   + +  V  +Y  ++G+AFQ+ DD+LD +  + 
Sbjct: 198 LERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTA 257
Query: 157 AMGKPTAADLKLGLATAPVLFACEKS 182
            +GK   AD +LG +T P L   E++
Sbjct: 258 TLGKRQGADQQLGKSTYPALLGLEQA 283

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 198 EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 246
           +Y  ++G+AFQ+ DD+LD +  +  +GK   AD +LG +T P L   E+
Sbjct: 234 KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQ 282

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 31/117 (26%), Positives = 55/117 (47%), Gaps = 3/117 (2%)
Query: 68  NCVKAIMTDLVQGEFMQ--LGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD 125
           +  +   T+++ G+ +   L S   E+   A  + + ++  A  IA  +   A + G   
Sbjct: 178 DAWRGXRTEVIGGQLLDIYLESHANESVELADSVNR-FKTAAYTIARPLHLGASIAGGSP 236
Query: 126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
           +L +    YG ++GIAFQL DDLL         GKP   D++ G  T  +  A +++
Sbjct: 237 QLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALALQRA 293

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 35/70 (50%)
Query: 183 AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242
           A + G   +L +    YG ++GIAFQL DDLL         GKP   D++ G  T  +  
Sbjct: 229 ASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLAL 288
Query: 243 ACEKFPELNP 252
           A ++  + +P
Sbjct: 289 ALQRADKQSP 298

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 40/77 (51%), Gaps = 4/77 (5%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
           FACE  A++ G++    +    +G  +G++FQL DDLLD  + +  MGK T  D   G  
Sbjct: 228 FACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKG 287
Query: 237 TAPVL----FACEKFPE 249
           T   L    +A EK  E
Sbjct: 288 TLVALRGEAWAREKLQE 304

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 34/111 (30%), Positives = 57/111 (51%), Gaps = 4/111 (3%)
Query: 147 DLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIA 206
           +L++ +S    + K     +  G + A    A +  A+L G   +L E  +  G  +G  
Sbjct: 143 ELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGEDLYNLGVTIGTI 199
Query: 207 FQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRR 257
           +Q+ DD++DF +  + +GK    DLK G+A+ P++ A EKFPE   M   R
Sbjct: 200 YQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/111 (30%), Positives = 57/111 (51%), Gaps = 4/111 (3%)
Query: 147 DLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIA 206
           +L++ +S    + K     +  G + A    A +  A+L G   +L E  +  G  +G  
Sbjct: 143 ELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEG---ELGEDLYNLGVTIGTI 199
Query: 207 FQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMIMRR 257
           +Q+ DD++DF +  + +GK    DLK G+A+ P++ A EKFPE   M   R
Sbjct: 200 YQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 1/77 (1%)
Query: 105 KTASLIANCVKASAMLGGADDKLSEVAFE-YGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
           KT +L+   ++  A+  G   +      + Y   +G+AFQ+ DD+LD IS ++ +GKP  
Sbjct: 187 KTGALMRCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQG 246
Query: 164 ADLKLGLATAPVLFACE 180
           +D +L  +T P L   E
Sbjct: 247 SDQELNKSTYPALLGLE 263

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 20/47 (42%), Positives = 30/47 (63%)
Query: 199 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 245
           Y   +G+AFQ+ DD+LD IS ++ +GKP  +D +L  +T P L   E
Sbjct: 217 YAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYPALLGLE 263

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            A +  A+L G   +L E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A
Sbjct: 173 LALQLPALLEG---ELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVA 228
Query: 237 TAPVLFACEKFPELNPMIMRR 257
           + P++ A EKFPE   M   R
Sbjct: 229 SFPLVTAMEKFPEARQMFENR 249

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 35/70 (50%)
Query: 98  YLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA 157
           Y+     KT +LIA   K   +    D  L+E A+ +G   G+AFQ++DD+LD       
Sbjct: 177 YIKMVSLKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKK 236
Query: 158 MGKPTAADLK 167
            GK    D+K
Sbjct: 237 FGKEIGKDIK 246

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 168 LGLATAPVLFACEKSAMLGGADDK-LSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKP 226
           + L T  ++ A  K  +L  +DD+ L+E A+ +G   G+AFQ++DD+LD        GK 
Sbjct: 181 VSLKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKE 240
Query: 227 TAADLK 232
              D+K
Sbjct: 241 IGKDIK 246

>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 = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 39/143 (27%), Positives = 68/143 (47%), Gaps = 7/143 (4%)
Query: 77  LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGA--DDKLSEVAFEY 134
           ++ G+ + L S E +N   A        KT +LI   V+  A+  G    ++L+++   Y
Sbjct: 153 MITGQMIDLSS-ENKNISLAELEQMHVHKTGALIKASVRMGALSTGQVKPEQLAKLD-AY 210
Query: 135 GRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSE 194
              +G+AFQ+ DD++D  S ++ +GK   +D +   AT P L   + +  L     +L E
Sbjct: 211 AHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPKLLGLDGAKALVV---RLHE 267
Query: 195 VAFEYGRNLGIAFQLVDDLLDFI 217
            A       G   Q + DL ++I
Sbjct: 268 QAIAQISEFGDKSQPLTDLANYI 290

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 34/117 (29%), Positives = 57/117 (48%), Gaps = 5/117 (4%)
Query: 53  HYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTY----RKTAS 108
            +LT T    A++ A  V+A+ T       +   +K+ ++E     L++       KT +
Sbjct: 129 QWLTAT-DLPATMQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHKEKTGA 187
Query: 109 LIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 165
           L+   V+A  +LG A +       ++    G+AFQ+ DD+LD +SS   MGK T  D
Sbjct: 188 LLHYAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKD 244

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 35/116 (30%), Positives = 56/116 (48%), Gaps = 18/116 (15%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
            KTA LIA  +K    +   +++ S   ++ G  LG+ FQ+ DD++D  +S +  GKPT 
Sbjct: 173 HKTARLIAAALKXGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTN 232
Query: 164 ADLK-------LGLATA-----PVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAF 207
            D+        LGL  A      +L  CE+        +KL+E   +  +NL I +
Sbjct: 233 NDIHKNSFVNLLGLEQAIKTKENLLNECEQDL------EKLNEKLAQXIQNLIIQY 282

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 36/129 (27%), Positives = 64/129 (49%), Gaps = 7/129 (5%)
Query: 66  IANCVKAIMTD-LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGAD 124
           +    KAI T+ LV G+ + + +   E+ +F H       KTA+L+        ++GG  
Sbjct: 132 VGELAKAIGTEGLVAGQVVDISNVGLEHLKFIHL-----HKTAALLEASAVLGGIIGGGS 186
Query: 125 DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAM 184
           D+  E   ++ R +G+ FQ+VDD+LD ++ +D +  P    L+     A  L    +  +
Sbjct: 187 DEEIERLRKFARCIGLLFQVVDDILD-VTIADKLTYPKLMGLEKSREFAEKLNTEARDQL 245
Query: 185 LGGADDKLS 193
           LG   DK++
Sbjct: 246 LGFDSDKVA 254

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 44/89 (49%), Gaps = 6/89 (6%)
Query: 105 KTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 164
           KT +L+   V ++A +   DD   E    Y  +LG+ FQ+ DDLLD       +GK   +
Sbjct: 177 KTGALLTFAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGS 236
Query: 165 DLKLGLATAPVLFACEKSAMLGGADDKLS 193
           DL+   +T   L   +      GA+DKL+
Sbjct: 237 DLENNKSTYVSLLGKD------GAEDKLT 259

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 27/91 (29%), Positives = 45/91 (49%), Gaps = 6/91 (6%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
           +KT +LI   + A  +L    +++  +  ++  + G+AFQ+ DDLLD  S+   +GK   
Sbjct: 184 KKTGALIEFALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVG 243
Query: 164 ADLKLGLATAPVLFACEKSAMLGGADDKLSE 194
            D  L  +T P L        + GA D L+ 
Sbjct: 244 RDEALNKSTYPALLG------IAGAKDALTH 268

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/93 (31%), Positives = 47/93 (50%), Gaps = 3/93 (3%)
Query: 66  IANCVKAIMTD-LVQGEFMQLGSK--ETENERFAHYLTKTYRKTASLIANCVKASAMLGG 122
           +    KAI T+ LV G+ + + S+  +  N    H       KTA+L+        ++GG
Sbjct: 150 VGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHLHKTAALLEASAVLGGIIGG 209
Query: 123 ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS 155
             D+  E   ++ R +G+ FQ+VDD+LD   SS
Sbjct: 210 GSDEEIERLRKFARCIGLLFQVVDDILDVTKSS 242

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 30/92 (32%), Positives = 45/92 (48%), Gaps = 8/92 (8%)
Query: 194 EVAFE--YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE-L 250
           EVAF    G  +GI FQ+ DD+ D+  S   +GKPT  D+  G  T P L+A     +  
Sbjct: 195 EVAFARLLGEYIGICFQIKDDIFDYFDSK-KIGKPTGNDMLEGKLTLPALYALNTTKDAW 253
Query: 251 NPMIMRRFQE----PGDVEKAFEFVHKSQGLE 278
              I  + +E    P ++ +  EF   + G+E
Sbjct: 254 AEQIAFKVKEGTATPDEIVRLIEFTKDNGGIE 285

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	287
3apz_A	348	Geranyl diphosphate synthase; prenyltransferase, a	6e-52
3apz_A	348	Geranyl diphosphate synthase; prenyltransferase, a	5e-47
3aqb_B	325	Component B of hexaprenyl diphosphate synthase; pr	8e-34
3aqb_B	325	Component B of hexaprenyl diphosphate synthase; pr	3e-26
3lmd_A	360	Geranylgeranyl pyrophosphate synthase; isoprenyl d	7e-33
3lmd_A	360	Geranylgeranyl pyrophosphate synthase; isoprenyl d	1e-27
3pko_A	334	Geranylgeranyl pyrophosphate synthase; isoprenyl d	7e-33
3pko_A	334	Geranylgeranyl pyrophosphate synthase; isoprenyl d	3e-30
3oyr_A	345	Trans-isoprenyl diphosphate synthase; isoprenyl sy	5e-32
3oyr_A	345	Trans-isoprenyl diphosphate synthase; isoprenyl sy	2e-28
3rmg_A	334	Octaprenyl-diphosphate synthase; structural genomi	6e-31
3rmg_A	334	Octaprenyl-diphosphate synthase; structural genomi	9e-27
3mzv_A	341	Decaprenyl diphosphate synthase; transferase, stru	7e-31
3mzv_A	341	Decaprenyl diphosphate synthase; transferase, stru	3e-26
1v4e_A	299	Octoprenyl-diphosphate synthase; trans-type prenyl	7e-29
1v4e_A	299	Octoprenyl-diphosphate synthase; trans-type prenyl	1e-24
3tc1_A	315	Octaprenyl pyrophosphate synthase; all alpha-helic	1e-28
3tc1_A	315	Octaprenyl pyrophosphate synthase; all alpha-helic	3e-24
3ipi_A	295	Geranyltranstransferase; isoprene biosynthesis, he	8e-27
3ipi_A	295	Geranyltranstransferase; isoprene biosynthesis, he	1e-16
3nf2_A	352	Putative polyprenyl synthetase; isoprenyl diphosph	2e-26
3nf2_A	352	Putative polyprenyl synthetase; isoprenyl diphosph	6e-21
2azj_A	289	Geranylgeranyl pyrophosphate synthetase; hexpps, t	3e-26
2azj_A	289	Geranylgeranyl pyrophosphate synthetase; hexpps, t	2e-17
1wy0_A	342	Geranylgeranyl pyrophosphate synthetase; pyrococcu	3e-26
1wy0_A	342	Geranylgeranyl pyrophosphate synthetase; pyrococcu	7e-22
4dhd_A	358	Polyprenyl synthetase; isoprenoid synthesis, isopr	5e-26
4dhd_A	358	Polyprenyl synthetase; isoprenoid synthesis, isopr	7e-23
2q80_A	301	Geranylgeranyl pyrophosphate synthetase; isoprenoi	1e-22
2q80_A	301	Geranylgeranyl pyrophosphate synthetase; isoprenoi	4e-19
3lk5_A	380	Geranylgeranyl pyrophosphate synthase; structural	1e-21
3lk5_A	380	Geranylgeranyl pyrophosphate synthase; structural	4e-18
4fp4_A	285	Polyprenyl synthetase; isoprenoid synthesis, isopr	3e-21
4fp4_A	285	Polyprenyl synthetase; isoprenoid synthesis, isopr	6e-15
1wmw_A	330	Geranylgeranyl diphosphate synthetase; GGPP, preny	5e-20
1wmw_A	330	Geranylgeranyl diphosphate synthetase; GGPP, preny	3e-17
2e8v_A	340	Geranylgeranyl pyrophosphate synthetase; prenyltra	9e-19
2e8v_A	340	Geranylgeranyl pyrophosphate synthetase; prenyltra	2e-13
1rtr_A	301	Geranyltranstransferase; 2.50A {Staphylococcus aur	7e-18
1rtr_A	301	Geranyltranstransferase; 2.50A {Staphylococcus aur	5e-14
3uca_A	324	Geranyltranstransferase; isoprenoid synthesis, iso	8e-18
3uca_A	324	Geranyltranstransferase; isoprenoid synthesis, iso	6e-14
2h8o_A	335	Geranyltranstransferase; geranyltransferase,agroba	9e-18
2h8o_A	335	Geranyltranstransferase; geranyltransferase,agroba	5e-14
3p8l_A	302	Geranyltranstransferase; isoprenyl synthase, struc	2e-17
3p8l_A	302	Geranyltranstransferase; isoprenyl synthase, struc	1e-13
3pde_A	309	Farnesyl-diphosphate synthase; isoprenyl diphospha	4e-17
3pde_A	309	Farnesyl-diphosphate synthase; isoprenyl diphospha	3e-13
3lom_A	313	Geranyltranstransferase; geranyltransferase, struc	5e-16
3lom_A	313	Geranyltranstransferase; geranyltransferase, struc	2e-12
3lsn_A	304	Geranyltranstransferase; structural genomics, prot	6e-16
3lsn_A	304	Geranyltranstransferase; structural genomics, prot	4e-12
3m0g_A	297	Farnesyl diphosphate synthase; structural genomics	7e-16
3m0g_A	297	Farnesyl diphosphate synthase; structural genomics	4e-12
3npk_A	291	Geranyltranstransferase; isoprene biosynthesis, SG	8e-16
3npk_A	291	Geranyltranstransferase; isoprene biosynthesis, SG	4e-12
4f62_A	317	Geranyltranstransferase; enzyme function initiativ	8e-16
4f62_A	317	Geranyltranstransferase; enzyme function initiativ	4e-12
3ts7_A	324	Geranyltranstransferase; isoprenoid synthesis, far	1e-15
3ts7_A	324	Geranyltranstransferase; isoprenoid synthesis, far	5e-12
1rqj_A	299	Geranyltranstransferase; bisphosphonate, isoprenyl	1e-15
1rqj_A	299	Geranyltranstransferase; bisphosphonate, isoprenyl	5e-12
3p8r_A	302	Geranyltranstransferase; isoprenyl synthase, struc	2e-15
3p8r_A	302	Geranyltranstransferase; isoprenyl synthase, struc	4e-12
3llw_A	311	Geranyltranstransferase (ISPA); structural genomic	7e-15
3llw_A	311	Geranyltranstransferase (ISPA); structural genomic	2e-10
1uby_A	367	FPS, farnesyl diphosphate synthase; transferase, i	7e-14
1uby_A	367	FPS, farnesyl diphosphate synthase; transferase, i	5e-12
2ihi_A	395	Pyrophosphate synthase; PV092040, structural genom	1e-12
2ihi_A	395	Pyrophosphate synthase; PV092040, structural genom	5e-10
2qis_A	374	Farnesyl pyrophosphate synthetase; trans-prenyltra	2e-12
2qis_A	374	Farnesyl pyrophosphate synthetase; trans-prenyltra	3e-09
1yhl_A	362	Farnesyl pyrophosphate synthase; farnesyl diphosph	1e-11
1yhl_A	362	Farnesyl pyrophosphate synthase; farnesyl diphosph	1e-08
2j1p_A	293	Geranylgeranyl pyrophosphate synthetase; transfera	2e-11
2j1p_A	293	Geranylgeranyl pyrophosphate synthetase; transfera	3e-08
3dyh_A	390	Farnesyl pyrophosphate synthase; protein-bisphosph	2e-11
3dyh_A	390	Farnesyl pyrophosphate synthase; protein-bisphosph	3e-08
3qkc_B	273	Geranyl diphosphate synthase small subunit; struct	3e-11
3qkc_B	273	Geranyl diphosphate synthase small subunit; struct	1e-07
2her_A	368	Fragment, farnesyl pyrophosphate synthase; farnesy	7e-10
2her_A	368	Fragment, farnesyl pyrophosphate synthase; farnesy	3e-05
3kra_B	274	Geranyl diphosphate synthase small subunit; prenyl	2e-09
3kra_B	274	Geranyl diphosphate synthase small subunit; prenyl	5e-06
2ftz_A	284	Geranyltranstransferase; TM0161, structural GE joi	2e-07
2ftz_A	284	Geranyltranstransferase; TM0161, structural GE joi	6e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-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 =  172 bits (438), Expect = 6e-52
 Identities = 64/185 (34%), Positives = 98/185 (52%), Gaps = 44/185 (23%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           +AGDF+L+ AC  ++ L++ +V   L+  +  LV GE M++ S   +     +Y+ KTY 
Sbjct: 133 LAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYY 192

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
           KTASLI+N                                            C KA A+L
Sbjct: 193 KTASLISNS-------------------------------------------C-KAVAVL 208

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            G   +++ +AFEYGRNLG+AFQL+DD+LDF  +S ++GK + +D++ G+ TAP+LFA E
Sbjct: 209 TGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAME 268

Query: 181 KSAML 185
           +   L
Sbjct: 269 EFPQL 273

>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 =  159 bits (405), Expect = 5e-47
 Identities = 50/118 (42%), Positives = 86/118 (72%), Gaps = 3/118 (2%)

Query: 172 TAPVLFA--CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA  L +  C+  A+L G   +++ +AFEYGRNLG+AFQL+DD+LDF  +S ++GK + +
Sbjct: 194 TA-SLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLS 252

Query: 230 DLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           D++ G+ TAP+LFA E+FP+L  ++ +  ++P +V+ A E++ KS+G+++ + LA +H
Sbjct: 253 DIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEH 310

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

 Score =  124 bits (314), Expect = 8e-34
 Identities = 38/182 (20%), Positives = 71/182 (39%), Gaps = 44/182 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
             G F+LA A Q I+ + ++      S+ + ++  GEF Q+  +                
Sbjct: 110 RTGHFLLARALQNIATINNSKFHQIFSKTILEVCFGEFDQMADRF--------------- 154

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                          +                     YL +  RKTA LI       A+ 
Sbjct: 155 ---------------NYPVSF--------------TAYLRRINRKTAILIEASCHLGALS 185

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
              D++ +    ++G  +G+++Q++DD+LD+ S    +GKP  +D++ G  T P++ A  
Sbjct: 186 SQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAIA 245

Query: 181 KS 182
             
Sbjct: 246 NL 247

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

 Score =  104 bits (261), Expect = 3e-26
 Identities = 32/124 (25%), Positives = 61/124 (49%), Gaps = 9/124 (7%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA +L   +C   A+    D++ +    ++G  +G+++Q++DD+LD+ S    +GKP  +
Sbjct: 171 TA-ILIEASCHLGALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGS 229

Query: 230 DLKLGLATAPVLFACEKFPE-----LNPMIMRRFQEPGD-VEKAFEFVHKSQGLEQTKFL 283
           D++ G  T P++ A     E     L  ++        D V +      K  G+E  + L
Sbjct: 230 DIRNGHITYPLMAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELL 289

Query: 284 ARKH 287
           +RK+
Sbjct: 290 SRKY 293

>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 =  122 bits (309), Expect = 7e-33
 Identities = 49/223 (21%), Positives = 85/223 (38%), Gaps = 53/223 (23%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           +AGD +LA A  ++S+L   D     ++   +LV G+  +                    
Sbjct: 141 LAGDILLAHASGLMSQL-GTDTVAHFAETFGELVTGQMRET------------------- 180

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                                   +G ++T+     HY      KT  LIA+     AM 
Sbjct: 181 ------------------------VGPRDTDPIE--HYTNVIREKTGVLIASAGYLGAMH 214

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            GA  +  +    +G  +G+ FQ+VDD++D  S +   GK    DL+ G+ T PVL+A  
Sbjct: 215 AGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALR 274

Query: 181 KSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 223
           +         +L ++      +       V+ +L+ +S S   
Sbjct: 275 EDT---PVGAELRDILTGPLEDDE----TVNHVLELLSQSGGR 310

>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 =  108 bits (273), Expect = 1e-27
 Identities = 33/122 (27%), Positives = 54/122 (44%), Gaps = 7/122 (5%)

Query: 172 TAPVLFA--CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           T  VL A      AM  GA  +  +    +G  +G+ FQ+VDD++D  S +   GK    
Sbjct: 200 TG-VLIASAGYLGAMHAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGT 258

Query: 230 DLKLGLATAPVLFA----CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR 285
           DL+ G+ T PVL+A         EL  ++    ++   V    E + +S G +       
Sbjct: 259 DLREGVFTLPVLYALREDTPVGAELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVY 318

Query: 286 KH 287
           ++
Sbjct: 319 RY 320

>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 =  121 bits (307), Expect = 7e-33
 Identities = 32/109 (29%), Positives = 52/109 (47%)

Query: 74  MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFE 133
           M  ++QGE  Q+     E+     YL +   KTA L A      A L GA   + +   +
Sbjct: 152 MHRILQGELHQMDLNYREDITLDAYLNEIAGKTAELFALSCYQGAQLAGAPQSVIDRTRD 211

Query: 134 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
            G  +G A+Q++DD+LD+        KP   DL+ G+ + P+L +   +
Sbjct: 212 IGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSLSHA 260

>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 =  115 bits (289), Expect = 3e-30
 Identities = 31/120 (25%), Positives = 56/120 (46%), Gaps = 5/120 (4%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA  LF  +C + A L GA   + +   + G  +G A+Q++DD+LD+        KP   
Sbjct: 184 TA-ELFALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLE 242

Query: 230 DLKLGLATAPVLFACEKFP--ELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           DL+ G+ + P+L +    P      +  ++     D++     V +  G+   K LA+ +
Sbjct: 243 DLRSGVYSLPLLLSLSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDY 302

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

 Score =  120 bits (302), Expect = 5e-32
 Identities = 49/182 (26%), Positives = 72/182 (39%), Gaps = 44/182 (24%)

Query: 1   MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           + GDF+ A A +++           L++    + +GE +QL                   
Sbjct: 131 LVGDFLFARAFELMVETNSMKALEILARASRVIAEGEVLQLMRSH--------------- 175

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
                          DL   +              A YL     KTA L A   +A A+ 
Sbjct: 176 ---------------DLNLSQ--------------AVYLEIIQAKTAELFAAASEAGAVS 206

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
            G D   SE   +YG NLG+AFQL DD LD+  +++ +GK    D + G AT P+L A  
Sbjct: 207 AGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIA 266

Query: 181 KS 182
           +S
Sbjct: 267 RS 268

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

 Score =  110 bits (277), Expect = 2e-28
 Identities = 45/123 (36%), Positives = 60/123 (48%), Gaps = 8/123 (6%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA  LF  A E  A+  G D   SE   +YG NLG+AFQL DD LD+  +++ +GK    
Sbjct: 192 TA-ELFAAASEAGAVSAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGD 250

Query: 230 DLKLGLATAPVLFACEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLA 284
           D + G AT P+L A  +            I RR Q   D  +A E +  S  L+ T  LA
Sbjct: 251 DFREGKATLPLLLAIARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLA 310

Query: 285 RKH 287
             +
Sbjct: 311 ADY 313

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

 Score =  116 bits (294), Expect = 6e-31
 Identities = 41/181 (22%), Positives = 69/181 (38%), Gaps = 45/181 (24%)

Query: 2   AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
           AGD++LA +     +  + ++   +S +   L +GE +QL                    
Sbjct: 114 AGDYLLATSLVHAEQTNNYEIIRLVSSLGQKLAEGELLQL-------------------- 153

Query: 62  TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
                +N      +                      Y     +KTA+L A C +A+A+  
Sbjct: 154 -----SNVSNHSFS-------------------EEVYFDVIRKKTAALFAACAEAAALSV 189

Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
              ++    A   G  +GI FQ+ DD+ D+   S  +GKPT  D+  G  T P L+A   
Sbjct: 190 QVGEEEVAFARLLGEYIGICFQIKDDIFDY-FDSKKIGKPTGNDMLEGKLTLPALYALNT 248

Query: 182 S 182
           +
Sbjct: 249 T 249

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

 Score =  105 bits (265), Expect = 9e-27
 Identities = 32/123 (26%), Positives = 53/123 (43%), Gaps = 9/123 (7%)

Query: 172 TAPVLFA--CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA  LFA   E +A+     ++    A   G  +GI FQ+ DD+ D+   S  +GKPT  
Sbjct: 174 TA-ALFAACAEAAALSVQVGEEEVAFARLLGEYIGICFQIKDDIFDY-FDSKKIGKPTGN 231

Query: 230 DLKLGLATAPVLFACEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLA 284
           D+  G  T P L+A     +     +   +      P ++ +  EF   + G+E      
Sbjct: 232 DMLEGKLTLPALYALNTTKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTI 291

Query: 285 RKH 287
            ++
Sbjct: 292 EQY 294

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

 Score =  116 bits (294), Expect = 7e-31
 Identities = 47/222 (21%), Positives = 82/222 (36%), Gaps = 50/222 (22%)

Query: 2   AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
            GD++ A + Q+++   +  V   L+     + +GE +QL        +           
Sbjct: 120 VGDYLFARSFQLMTDTGNMRVMEILANASAVIAEGEVLQL-----TAAQ----------- 163

Query: 62  TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
                         +L   E                YL     KTA+L +   +   ++G
Sbjct: 164 --------------NLATTE--------------DIYLRVIRGKTAALFSAATEVGGIIG 195

Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
           GA +   +  F+YG  LGIAFQ+VDDLLD+   S  +GK T  D +    T PV+ A   
Sbjct: 196 GAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKAVAL 255

Query: 182 SAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 223
           +     A+    +   E           ++  +  ++    +
Sbjct: 256 A---DEAERAFWKRVIE---KGDQQDGDLEHAMALMTKHGTL 291

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

 Score =  104 bits (262), Expect = 3e-26
 Identities = 45/123 (36%), Positives = 61/123 (49%), Gaps = 8/123 (6%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA  LF  A E   ++GGA +   +  F+YG  LGIAFQ+VDDLLD+   S  +GK T  
Sbjct: 180 TA-ALFSAATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGD 238

Query: 230 DLKLGLATAPVLFACEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLA 284
           D +    T PV+ A     E        +I +  Q+ GD+E A   + K   LE T+  A
Sbjct: 239 DFRERKLTMPVIKAVALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAA 298

Query: 285 RKH 287
              
Sbjct: 299 IGW 301

>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 =  110 bits (278), Expect = 7e-29
 Identities = 36/181 (19%), Positives = 67/181 (37%), Gaps = 49/181 (27%)

Query: 2   AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
           AGD +L  A   +  + +N +      ++  + + E ++  S+                 
Sbjct: 108 AGDLVLVSAFHTVEEIGNNKLRRAFLNVIGKMSEAELIEQLSR----------------- 150

Query: 62  TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
                                       T+ E    YL     K+ +L    ++  A+L 
Sbjct: 151 ------------------------YKPITKEE----YLRIVEGKSGALFGLALQLPALLE 182

Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
           G      E  +  G  +G  +Q+ DD++DF +  + +GK    DLK G+A+ P++ A EK
Sbjct: 183 GEL---GEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEK 238

Query: 182 S 182
            
Sbjct: 239 F 239

>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 = 99.3 bits (248), Expect = 1e-24
 Identities = 33/118 (27%), Positives = 55/118 (46%), Gaps = 12/118 (10%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           +   LF  A +  A+L G      E  +  G  +G  +Q+ DD++DF +  + +GK    
Sbjct: 167 SG-ALFGLALQLPALLEGEL---GEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFL 221

Query: 230 DLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
           DLK G+A+ P++ A EKFPE   M   R     D      F+ +   L++ +   +  
Sbjct: 222 DLKNGVASFPLVTAMEKFPEARQMFENR-----DWSGLMSFMREKGILKECEETLKVL 274

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

 Score =  110 bits (277), Expect = 1e-28
 Identities = 39/119 (32%), Positives = 57/119 (47%), Gaps = 3/119 (2%)

Query: 64  SLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGA 123
            LIA  +   +  L +GE   +   E  N     Y      KTA  I   +K+ A+L   
Sbjct: 121 ELIAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLNK 180

Query: 124 DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
           D   +++  ++G N G+AFQ++DDLLD    +  +GKP  +D K G  T P L   EK 
Sbjct: 181 D---AKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKL 236

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

 Score = 98.5 bits (246), Expect = 3e-24
 Identities = 32/121 (26%), Positives = 57/121 (47%), Gaps = 9/121 (7%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA      + +  A+L   D   +++  ++G N G+AFQ++DDLLD    +  +GKP  +
Sbjct: 163 TA-HFIEASLKSMAILLNKD---AKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFS 218

Query: 230 DLKLGLATAPVLFACEKFPELNPMIMRRF---QEPGDVEKAFEFVHKSQGLEQTKFLARK 286
           D K G  T P L   EK  + +  ++  +        +E   E   +   +E+T   A+ 
Sbjct: 219 DFKEGKTTLPYLLLYEKLNQHDQGLLISYFKQDSHEIIEWTKEKFKQYGIIEETLKTAQV 278

Query: 287 H 287
           +
Sbjct: 279 Y 279

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

 Score =  105 bits (263), Expect = 8e-27
 Identities = 39/181 (21%), Positives = 63/181 (34%), Gaps = 52/181 (28%)

Query: 2   AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
            GD+++A +   IS      V     +   D+ +GE + L  ++                
Sbjct: 109 CGDYLIAKSIAFISPY-GEKVIQDFGKAGMDMAEGEVLDLKLEDES-------------- 153

Query: 62  TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
                                        E      Y    Y+KTASL A      A  G
Sbjct: 154 ---------------------------FGE----NDYFKCIYKKTASLFAISASIGAYTG 182

Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
           GA+++L+E    +G  LG A+Q+VDD+L+F      +      + K    T P ++    
Sbjct: 183 GAEEELAERFSHFGNALGTAYQIVDDILEF------LEVVEGKESKFTSETLPHIYMKST 236

Query: 182 S 182
           S
Sbjct: 237 S 237

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

 Score = 77.3 bits (191), Expect = 1e-16
 Identities = 27/118 (22%), Positives = 47/118 (39%), Gaps = 11/118 (9%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA  LF  +    A  GGA+++L+E    +G  LG A+Q+VDD+L+F      +      
Sbjct: 167 TA-SLFAISASIGAYTGGAEEELAERFSHFGNALGTAYQIVDDILEF------LEVVEGK 219

Query: 230 DLKLGLATAPVLFACEKFPE--LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR 285
           + K    T P ++      E  L   I          ++  E   +    ++   +  
Sbjct: 220 ESKFTSETLPHIYMKSTSKEEALKKSIDCVKLHVAAAKETLETFRECPARDKLFQITD 277

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

 Score =  105 bits (264), Expect = 2e-26
 Identities = 40/139 (28%), Positives = 65/139 (46%), Gaps = 3/139 (2%)

Query: 75  TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEY 134
             L+ G+   +  +  +       L     KT +L+A      A+LGGAD++ ++   +Y
Sbjct: 153 RSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASSIGAVLGGADERTADTLEKY 212

Query: 135 GRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSE 194
           G +LG+AFQ VDDLL      DA GK T +DL+    + PV+ A       G A ++L E
Sbjct: 213 GYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVVAALAAG---GAASERLGE 269

Query: 195 VAFEYGRNLGIAFQLVDDL 213
           +     +    A    ++ 
Sbjct: 270 ILTADAKASDFANFSEEEF 288

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

 Score = 90.1 bits (224), Expect = 6e-21
 Identities = 36/129 (27%), Positives = 53/129 (41%), Gaps = 14/129 (10%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           T   L   A    A+LGGAD++ ++   +YG +LG+AFQ VDDLL      DA GK T +
Sbjct: 184 TG-ALLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWS 242

Query: 230 DLKLGLATAPVLFACEK-----------FPELNPMIMRRFQEPGDVEKAFEFVHKSQGLE 278
           DL+    + PV+ A                              +       + ++ G E
Sbjct: 243 DLRQRKKSLPVVAALAAGGAASERLGEILTADAKASDFANFSEEEFAARAALIEEAGGRE 302

Query: 279 QTKFLARKH 287
            T   AR+ 
Sbjct: 303 WTADEARRQ 311

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

 Score =  103 bits (259), Expect = 3e-26
 Identities = 31/228 (13%), Positives = 60/228 (26%), Gaps = 59/228 (25%)

Query: 2   AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
             ++++  A ++I     +D   T  ++  D   G    +                    
Sbjct: 116 ITNYLIPTALRIIQTSYGDDALNTSIELWKDTSVGALRDMYDNSD--------------- 160

Query: 62  TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
                                               Y+     KT SL       SA   
Sbjct: 161 ------------------------------------YIRTIELKTGSLFKLSTVLSAYAS 184

Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS----DAMGKPTAADLKLGLATAPVLF 177
              +   +   + G+ LGI +Q++DD +D+ +      D   K      + G     V  
Sbjct: 185 KHYNTK-QQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGKLEEYVRS 243

Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 225
              +        D+L        + L     L + L + +     + K
Sbjct: 244 VYLEY---KQKYDELISNIPFQSKYLSEIRSLPEFLANGLLKEANIDK 288

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

 Score = 79.7 bits (197), Expect = 2e-17
 Identities = 20/117 (17%), Positives = 40/117 (34%), Gaps = 12/117 (10%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS----DAMGK 225
           T   LF  +   SA      +   +   + G+ LGI +Q++DD +D+ +      D   K
Sbjct: 169 TG-SLFKLSTVLSAYASKHYNTK-QQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAK 226

Query: 226 PTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPG----DVEKAFEFVHKSQGLE 278
                 + G     V     ++ +    ++           ++    EF+      E
Sbjct: 227 QLFKYYREGKLEEYVRSVYLEYKQKYDELISNIPFQSKYLSEIRSLPEFLANGLLKE 283

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

 Score =  104 bits (262), Expect = 3e-26
 Identities = 34/182 (18%), Positives = 69/182 (37%), Gaps = 41/182 (22%)

Query: 2   AGDFILAVACQMISRL-RDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
           AGD + + A + ++R     +    + +++                              
Sbjct: 113 AGDLLFSKAFEAVARAEIPPEKKARVLEVIVK---------------------------- 144

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
             ++ +            +G+   L  ++        Y+     KT +L     K   ++
Sbjct: 145 -ASNELC-----------EGQARDLEFEKKSTVTIEEYMEMISGKTGALFEASAKVGGII 192

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
           G  +++  +    +GRN+GIAFQ+ DD+LD I+    +GKP  +D++ G  T  V    E
Sbjct: 193 GTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKTLIVAHFFE 252

Query: 181 KS 182
            +
Sbjct: 253 NA 254

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

 Score = 92.7 bits (231), Expect = 7e-22
 Identities = 30/134 (22%), Positives = 57/134 (42%), Gaps = 19/134 (14%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           T   LF  + +   ++G  +++  +    +GRN+GIAFQ+ DD+LD I+    +GKP  +
Sbjct: 178 TG-ALFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGS 236

Query: 230 DLKLGLATAPVLFACEK----------------FPELNPMIMRRFQEPGDVEKAFEFVHK 273
           D++ G  T  V    E                   ++    +       DV +A + + K
Sbjct: 237 DIRKGKKTLIVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLKK 296

Query: 274 SQGLEQTKFLARKH 287
              ++    +A+  
Sbjct: 297 YGSIDYAAEIAKDM 310

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

 Score =  103 bits (260), Expect = 5e-26
 Identities = 29/183 (15%), Positives = 56/183 (30%), Gaps = 33/183 (18%)

Query: 2   AGDFILAVACQMISRLRDNDVTL-TLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
            G +      + +       +    +++++  + +GE + +  +            +   
Sbjct: 112 VGIWYREAIEEAVLDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWRE 171

Query: 61  KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
            T                                   Y+     KT +LIA   K   + 
Sbjct: 172 VT--------------------------------LDDYIKMVSLKTGALIAAAAKWGVLS 199

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
              D  L+E A+ +G   G+AFQ++DD+LD        GK    D+K       V+    
Sbjct: 200 VSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDIKEHKRGNAVVAVAL 259

Query: 181 KSA 183
              
Sbjct: 260 SHL 262

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

 Score = 95.5 bits (238), Expect = 7e-23
 Identities = 30/124 (24%), Positives = 49/124 (39%), Gaps = 9/124 (7%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           T   L   A +   +    D  L+E A+ +G   G+AFQ++DD+LD        GK    
Sbjct: 185 TG-ALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGK 243

Query: 230 DLKLGLATAPVLFAC------EKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFL 283
           D+K       V+          +   L  ++ R   E  DV +A   +      E+   L
Sbjct: 244 DIKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRL 303

Query: 284 ARKH 287
           A ++
Sbjct: 304 AARY 307

>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 = 94.2 bits (235), Expect = 1e-22
 Identities = 27/181 (14%), Positives = 50/181 (27%), Gaps = 47/181 (25%)

Query: 2   AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
           + +++  +  + +  L   D     ++ + +L QG+ + +                    
Sbjct: 92  SANYVYFLGLEKVLTLDHPDAVKLFTRQLLELHQGQGLDI-------------------- 131

Query: 62  TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
                                       TE E    Y     +KT  L    V    +  
Sbjct: 132 -----YWRDNYTCP--------------TEEE----YKAMVLQKTGGLFGLAVGLMQLFS 168

Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
              + L          LG+ FQ+ DD  +  S   +  K    DL  G  + P + A   
Sbjct: 169 DYKEDLKP----LLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWS 224

Query: 182 S 182
            
Sbjct: 225 R 225

>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 = 84.2 bits (209), Expect = 4e-19
 Identities = 23/121 (19%), Positives = 42/121 (34%), Gaps = 10/121 (8%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           T   LF  A     +     + L          LG+ FQ+ DD  +  S   +  K    
Sbjct: 153 TG-GLFGLAVGLMQLFSDYKEDLKP----LLNTLGLFFQIRDDYANLHSKEYSENKSFCE 207

Query: 230 DLKLGLATAPVLFACEKFPE---LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARK 286
           DL  G  + P + A    PE   +  ++ +R +     +    ++      E T+   ++
Sbjct: 208 DLTEGKFSFPTIHAIWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKE 267

Query: 287 H 287
            
Sbjct: 268 L 268

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

 Score = 92.1 bits (229), Expect = 1e-21
 Identities = 31/109 (28%), Positives = 52/109 (47%), Gaps = 1/109 (0%)

Query: 75  TDLVQGEFMQLGSKETENERFAHYLTKTYRKTAS-LIANCVKASAMLGGADDKLSEVAFE 133
           T+++ G+ + +  +   NE      +    KTA+  IA  +   A + G   +L +    
Sbjct: 185 TEVIGGQLLDIYLESHANESVELADSVNRFKTAAYTIARPLHLGASIAGGSPQLIDALLH 244

Query: 134 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
           YG ++GIAFQL DDLL         GKP   D++ G  T  +  A +++
Sbjct: 245 YGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALALQRA 293

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

 Score = 82.5 bits (204), Expect = 4e-18
 Identities = 29/125 (23%), Positives = 49/125 (39%), Gaps = 9/125 (7%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA           A + G   +L +    YG ++GIAFQL DDLL         GKP   
Sbjct: 216 TAAYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGD 275

Query: 230 DLKLGLATAPVLFACEKFPELNP-------MIMRRFQEPGDVEKAFEFVHKSQGLEQTKF 282
           D++ G  T  +  A ++  + +P         + +   P D+    E +  +   E+ + 
Sbjct: 276 DIREGKRTVLLALALQRADKQSPEAATAIRAGVGKVTSPEDIAVITEHIRATGAEEEVEQ 335

Query: 283 LARKH 287
              + 
Sbjct: 336 RISQL 340

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

 Score = 89.7 bits (223), Expect = 3e-21
 Identities = 24/106 (22%), Positives = 38/106 (35%), Gaps = 13/106 (12%)

Query: 77  LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGR 136
           L  G+ + L     E E           KTA LI   +    ++ G  + + E A + G 
Sbjct: 145 LSVGQALDL-----EGE----RDKAAEFKTAPLIEAALVMPLVILGRRELI-ETAKKLGT 194

Query: 137 NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
            LGI +Q  DD  D  +      K  A +  +G     +      +
Sbjct: 195 KLGILYQYSDDYSD-ENVERPETKSIANE--IGRYLLKIKEHVGDA 237

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

 Score = 72.4 bits (178), Expect = 6e-15
 Identities = 20/117 (17%), Positives = 34/117 (29%), Gaps = 8/117 (6%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           TA  L   A     ++ G  + + E A + G  LGI +Q  DD  D  +      K  A 
Sbjct: 165 TA-PLIEAALVMPLVILGRRELI-ETAKKLGTKLGILYQYSDDYSD-ENVERPETKSIAN 221

Query: 230 DLKLGLATAPVLFACEK-FPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR 285
           +  +G     +             +I     +  +               Q+     
Sbjct: 222 E--IGRYLLKIKEHVGDAIAPFERLIKYLIGKALEGTLTVSRTIAENLYFQSHHHHH 276

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

 Score = 87.4 bits (217), Expect = 5e-20
 Identities = 32/111 (28%), Positives = 46/111 (41%), Gaps = 6/111 (5%)

Query: 75  TDLVQGEFMQLG--SKETENERFAHYLTKTYRKTASLIAN-CVKASAMLGGADDKLSEVA 131
                G+ + L      T + R   Y      K A   A   ++  A+L G         
Sbjct: 140 RRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGALLAGKTPP--AAY 197

Query: 132 FEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
            E G  LG AFQ+VDD+L+ +   +A GK  A DL  G  T  +L   E++
Sbjct: 198 EEGGLRLGTAFQIVDDVLN-LEGGEAYGKERAGDLYEGKRTLILLRFLEEA 247

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

 Score = 79.3 bits (196), Expect = 3e-17
 Identities = 32/126 (25%), Positives = 46/126 (36%), Gaps = 14/126 (11%)

Query: 172 TAPVLF---ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 228
            A            A+L G          E G  LG AFQ+VDD+L+ +   +A GK  A
Sbjct: 173 AA-YYTAVAPLRLGALLAGKTPP--AAYEEGGLRLGTAFQIVDDVLN-LEGGEAYGKERA 228

Query: 229 ADLKLGLATAPVLFACEKFPELNPMIMRR-------FQEPGDVEKAFEFVHKSQGLEQTK 281
            DL  G  T  +L   E+ P                 +   +V    E +  S+ L   K
Sbjct: 229 GDLYEGKRTLILLRFLEEAPPEERARALALLALPREAKPEAEVGWLLERLLASRALAWAK 288

Query: 282 FLARKH 287
             A++ 
Sbjct: 289 AEAKRL 294

>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 = 84.0 bits (208), Expect = 9e-19
 Identities = 28/195 (14%), Positives = 60/195 (30%), Gaps = 47/195 (24%)

Query: 2   AGDFILAVACQMISRLRDNDVTLT-----LSQIMTDLVQGEFMQLGSKETENERFAHYLT 56
             +++   A Q++S+L   +          ++ + +L +G+ + +  ++   E       
Sbjct: 107 TANYMYFRAMQLVSQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPE------- 159

Query: 57  KTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKA 116
                                            T+      YL     KT  L    ++ 
Sbjct: 160 -----------IIP-------------------TQEM----YLNMVMNKTGGLFRLTLRL 185

Query: 117 SAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVL 176
              L  +          +   LGI +Q+ DD L+      +  K  A D+  G  + P++
Sbjct: 186 MEALSPSSHH-GHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPIV 244

Query: 177 FACEKSAMLGGADDK 191
            A   +   G  +  
Sbjct: 245 HALNFTKTKGQTEQH 259

>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 = 69.0 bits (169), Expect = 2e-13
 Identities = 21/128 (16%), Positives = 36/128 (28%), Gaps = 14/128 (10%)

Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
           T   LF         L  +          +   LGI +Q+ DD L+      +  K  A 
Sbjct: 175 TG-GLFRLTLRLMEALSPSSHH-GHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAE 232

Query: 230 DLKLGLATAPVLFACEKFPELNPMIMRRF------QEPGDVEKAFEFV----HKSQGLEQ 279
           D+  G  + P++ A                         D +   + +      +  L  
Sbjct: 233 DITEGKLSFPIVHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAY 292

Query: 280 TKFLARKH 287
           TK    + 
Sbjct: 293 TKNFINQL 300

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

 Score = 80.7 bits (200), Expect = 7e-18
 Identities = 24/79 (30%), Positives = 38/79 (48%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
            KT +L+   V ++A +   DD   E    Y  +LG+ FQ+ DDLLD       +GK   
Sbjct: 176 TKTGALLTFAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVG 235

Query: 164 ADLKLGLATAPVLFACEKS 182
           +DL+   +T   L   + +
Sbjct: 236 SDLENNKSTYVSLLGKDGA 254

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

 Score = 69.9 bits (172), Expect = 5e-14
 Identities = 22/70 (31%), Positives = 32/70 (45%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
           FA   +A +   DD   E    Y  +LG+ FQ+ DDLLD       +GK   +DL+   +
Sbjct: 184 FAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKS 243

Query: 237 TAPVLFACEK 246
           T   L   + 
Sbjct: 244 TYVSLLGKDG 253

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

 Score = 81.2 bits (201), Expect = 8e-18
 Identities = 25/115 (21%), Positives = 49/115 (42%), Gaps = 5/115 (4%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
           +KT  LI   + + A+L  A +   +    +G  LG+AFQ+ DD+LD + ++  +GK   
Sbjct: 209 KKTGELIKASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVH 268

Query: 164 ADLKLGLATAPVLFACEKS-AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 217
            D +        +F  E+           ++E   E   ++    + +  L   +
Sbjct: 269 KDQESNKNNYITIFGLEECKKKC----VNITEECIEILSSIKGNTEPLKVLTMKL 319

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

 Score = 70.0 bits (172), Expect = 6e-14
 Identities = 18/70 (25%), Positives = 33/70 (47%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            +    A+L  A +   +    +G  LG+AFQ+ DD+LD + ++  +GK    D +    
Sbjct: 217 ASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKN 276

Query: 237 TAPVLFACEK 246
               +F  E+
Sbjct: 277 NYITIFGLEE 286

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

 Score = 80.8 bits (200), Expect = 9e-18
 Identities = 24/79 (30%), Positives = 39/79 (49%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
            KT +L+    +A A++ G++    +    +G  +G++FQL DDLLD  + +  MGK T 
Sbjct: 220 MKTGALLRFACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATG 279

Query: 164 ADLKLGLATAPVLFACEKS 182
            D   G  T   L     +
Sbjct: 280 KDAARGKGTLVALRGEAWA 298

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

 Score = 70.0 bits (172), Expect = 5e-14
 Identities = 24/66 (36%), Positives = 35/66 (53%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
           FACE  A++ G++    +    +G  +G++FQL DDLLD  + +  MGK T  D   G  
Sbjct: 228 FACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKG 287

Query: 237 TAPVLF 242
           T   L 
Sbjct: 288 TLVALR 293

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

 Score = 79.2 bits (196), Expect = 2e-17
 Identities = 23/79 (29%), Positives = 40/79 (50%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
           +KT +LI   + A  +L    +++  +  ++  + G+AFQ+ DDLLD  S+   +GK   
Sbjct: 184 KKTGALIEFALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVG 243

Query: 164 ADLKLGLATAPVLFACEKS 182
            D  L  +T P L     +
Sbjct: 244 RDEALNKSTYPALLGIAGA 262

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

 Score = 68.4 bits (168), Expect = 1e-13
 Identities = 20/70 (28%), Positives = 33/70 (47%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
           FA     +L    +++  +  ++  + G+AFQ+ DDLLD  S+   +GK    D  L  +
Sbjct: 192 FALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKS 251

Query: 237 TAPVLFACEK 246
           T P L     
Sbjct: 252 TYPALLGIAG 261

>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 = 78.8 bits (195), Expect = 4e-17
 Identities = 25/79 (31%), Positives = 37/79 (46%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
            KT +L+   V+A  +LG A +       ++    G+AFQ+ DD+LD +SS   MGK T 
Sbjct: 183 EKTGALLHYAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQ 242

Query: 164 ADLKLGLATAPVLFACEKS 182
            D      T P       +
Sbjct: 243 KDADEAKNTYPGKLGLIGA 261

>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 = 67.7 bits (166), Expect = 3e-13
 Identities = 21/66 (31%), Positives = 31/66 (46%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
           +A +   +LG A +       ++    G+AFQ+ DD+LD +SS   MGK T  D      
Sbjct: 191 YAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKN 250

Query: 237 TAPVLF 242
           T P   
Sbjct: 251 TYPGKL 256

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

 Score = 75.7 bits (187), Expect = 5e-16
 Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 1/80 (1%)

Query: 104 RKTASLIANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
            KT  LI  C +          +++      YG+++G+ FQ+ DD LD  + +  +GK  
Sbjct: 187 LKTGKLILACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGR 246

Query: 163 AADLKLGLATAPVLFACEKS 182
           ++D      T   LF  ++ 
Sbjct: 247 SSDQANQKTTFATLFNKQQL 266

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

 Score = 65.3 bits (160), Expect = 2e-12
 Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 1/67 (1%)

Query: 177 FACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
              E          +++      YG+++G+ FQ+ DD LD  + +  +GK  ++D     
Sbjct: 195 ACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQK 254

Query: 236 ATAPVLF 242
            T   LF
Sbjct: 255 TTFATLF 261

>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 = 75.3 bits (186), Expect = 6e-16
 Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 1/80 (1%)

Query: 104 RKTASLIANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
            KT +LI   V   A+  G A+    +    Y + +G+AFQ+ DD+LD  S +  +GK  
Sbjct: 180 HKTGALIEASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQ 239

Query: 163 AADLKLGLATAPVLFACEKS 182
            AD+     T P L     +
Sbjct: 240 GADIARDKPTYPALLGLAAA 259

>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 = 64.5 bits (158), Expect = 4e-12
 Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 1/67 (1%)

Query: 177 FACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
            +    A+  G A+    +    Y + +G+AFQ+ DD+LD  S +  +GK   AD+    
Sbjct: 188 ASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDK 247

Query: 236 ATAPVLF 242
            T P L 
Sbjct: 248 PTYPALL 254

>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 = 74.9 bits (185), Expect = 7e-16
 Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 3/79 (3%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
            KT +LI+   +A A+L GAD         Y   LG+AFQ+ DD+LD   + +A GK   
Sbjct: 177 GKTGALISFAAQAGAILAGADR---GPLTAYATALGLAFQIADDILDVEGNEEAAGKRLG 233

Query: 164 ADLKLGLATAPVLFACEKS 182
            D +   AT   L     +
Sbjct: 234 KDAEAHKATFVSLLGLAGA 252

>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 = 64.2 bits (157), Expect = 4e-12
 Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 3/66 (4%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
           FA +  A+L GAD         Y   LG+AFQ+ DD+LD   + +A GK    D +   A
Sbjct: 185 FAAQAGAILAGADR---GPLTAYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKA 241

Query: 237 TAPVLF 242
           T   L 
Sbjct: 242 TFVSLL 247

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

 Score = 75.0 bits (185), Expect = 8e-16
 Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 2/79 (2%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
            KTA LIA  +K    +   +++ S   ++ G  LG+ FQ+ DD++D  +S +  GKPT 
Sbjct: 173 HKTARLIAAALKMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTN 232

Query: 164 ADLKLGLATAPVLFACEKS 182
            D  +   +   L   E++
Sbjct: 233 ND--IHKNSFVNLLGLEQA 249

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

 Score = 64.2 bits (157), Expect = 4e-12
 Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 7/69 (10%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLK---- 232
            A +    +   +++ S   ++ G  LG+ FQ+ DD++D  +S +  GKPT  D+     
Sbjct: 181 AALKMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDIHKNSF 240

Query: 233 ---LGLATA 238
              LGL  A
Sbjct: 241 VNLLGLEQA 249

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

 Score = 75.0 bits (185), Expect = 8e-16
 Identities = 23/80 (28%), Positives = 39/80 (48%), Gaps = 1/80 (1%)

Query: 104 RKTASLIANCVKASAML-GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
            KT +LI   V+  A+  G    +       Y   +G+AFQ+ DD++D  S ++ +GK  
Sbjct: 179 HKTGALIKASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQ 238

Query: 163 AADLKLGLATAPVLFACEKS 182
            +D +   AT P L   + +
Sbjct: 239 FSDAEANKATYPKLLGLDGA 258

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

 Score = 64.6 bits (158), Expect = 4e-12
 Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 1/67 (1%)

Query: 177 FACEKSAML-GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
            +    A+  G    +       Y   +G+AFQ+ DD++D  S ++ +GK   +D +   
Sbjct: 187 ASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANK 246

Query: 236 ATAPVLF 242
           AT P L 
Sbjct: 247 ATYPKLL 253

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

 Score = 75.0 bits (185), Expect = 1e-15
 Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 1/80 (1%)

Query: 104 RKTASLIANCVKASAML-GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
           RKT +LI   V+ + +   G   +  +    Y + +G+AFQ+ DD+LD  S +  +GK  
Sbjct: 186 RKTGALIRASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTR 245

Query: 163 AADLKLGLATAPVLFACEKS 182
             D        P L     +
Sbjct: 246 GKDRDHNKPNYPALLGLSGA 265

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

 Score = 64.2 bits (157), Expect = 5e-12
 Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 1/67 (1%)

Query: 177 FACEKSAML-GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
            +   + +   G   +  +    Y + +G+AFQ+ DD+LD  S +  +GK    D     
Sbjct: 194 ASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNK 253

Query: 236 ATAPVLF 242
              P L 
Sbjct: 254 PNYPALL 260

>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 = 74.6 bits (184), Expect = 1e-15
 Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 1/80 (1%)

Query: 104 RKTASLIANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
            KT +LI   V+  A+  G    +   V  +Y  ++G+AFQ+ DD+LD +  +  +GK  
Sbjct: 180 HKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQ 239

Query: 163 AADLKLGLATAPVLFACEKS 182
            AD +LG +T P L   E++
Sbjct: 240 GADQQLGKSTYPALLGLEQA 259

>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 = 63.8 bits (156), Expect = 5e-12
 Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 1/67 (1%)

Query: 177 FACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
            A    A+  G    +   V  +Y  ++G+AFQ+ DD+LD +  +  +GK   AD +LG 
Sbjct: 188 AAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGK 247

Query: 236 ATAPVLF 242
           +T P L 
Sbjct: 248 STYPALL 254

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

 Score = 74.2 bits (183), Expect = 2e-15
 Identities = 25/80 (31%), Positives = 43/80 (53%), Gaps = 1/80 (1%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFE-YGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
            KT +L+   ++  A+  G   +      + Y   +G+AFQ+ DD+LD IS ++ +GKP 
Sbjct: 186 NKTGALMRCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQ 245

Query: 163 AADLKLGLATAPVLFACEKS 182
            +D +L  +T P L   E +
Sbjct: 246 GSDQELNKSTYPALLGLEGA 265

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

 Score = 64.2 bits (157), Expect = 4e-12
 Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 1/67 (1%)

Query: 177 FACEKSAMLGGADDKLSEVAFE-YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
            A    A+  G   +      + Y   +G+AFQ+ DD+LD IS ++ +GKP  +D +L  
Sbjct: 194 CAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNK 253

Query: 236 ATAPVLF 242
           +T P L 
Sbjct: 254 STYPALL 260

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

 Score = 72.3 bits (178), Expect = 7e-15
 Identities = 26/116 (22%), Positives = 48/116 (41%), Gaps = 8/116 (6%)

Query: 104 RKTASLIANCVKASAMLGGA-DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
            KTA LI+  +    +  G  D++L +    +G  +G+ FQ++DD++D     +  GK T
Sbjct: 187 HKTAKLISASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTT 246

Query: 163 AADLKLGLATAPVLFACEKS-AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 217
             D      +   L   E++          L          L  A+ L+ + L+ +
Sbjct: 247 HLD--SAKNSFVNLLGLERANNYA----QTLKTEVLNDLDALKPAYPLLQENLNAL 296

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

 Score = 59.6 bits (145), Expect = 2e-10
 Identities = 14/55 (25%), Positives = 27/55 (49%), Gaps = 1/55 (1%)

Query: 177 FACEKSAMLGGA-DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 230
            +     +  G  D++L +    +G  +G+ FQ++DD++D     +  GK T  D
Sbjct: 195 ASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD 249

>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 = 70.2 bits (172), Expect = 7e-14
 Identities = 25/144 (17%), Positives = 48/144 (33%), Gaps = 11/144 (7%)

Query: 49  ERFAHYLTKTYRKTASLIANCVKA---IMTDLVQGEFMQLGSKETENERFAHYLTKTYR- 104
           E   + + K Y +      + ++           G+ + L +        +H+  + Y+ 
Sbjct: 150 ESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEERYKA 209

Query: 105 ----KTASL--IANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 158
               KTA          A  M+G    +  E A      +G  FQ+ DD LD        
Sbjct: 210 IVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALT 269

Query: 159 GKPTAADLKLGLATAPVLFACEKS 182
           G     D++    +  V+   ++ 
Sbjct: 270 GA-VGTDIQDNKCSWLVVQCLQRV 292

>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 = 64.4 bits (157), Expect = 5e-12
 Identities = 21/108 (19%), Positives = 36/108 (33%), Gaps = 4/108 (3%)

Query: 183 AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242
            M+G    +  E A      +G  FQ+ DD LD        G     D++    +  V+ 
Sbjct: 229 YMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGA-VGTDIQDNKCSWLVVQ 287

Query: 243 ACEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
             ++  PE   ++   +  +EP  V K  E           +      
Sbjct: 288 CLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESS 335

>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 = 65.6 bits (160), Expect = 2e-12
 Identities = 29/144 (20%), Positives = 51/144 (35%), Gaps = 11/144 (7%)

Query: 49  ERFAHYLTKTYRKTASLIANCVKA---IMTDLVQGEFMQLGSKETENERFAHYLTKTYR- 104
           E   + L K Y +      N ++           G+ + L +    N     +  K Y+ 
Sbjct: 157 EACIYRLLKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKS 216

Query: 105 ----KTASLIANCVKASAML--GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 158
               K+A        A+AM   G   +K    A +    +G  FQ+ DD LD        
Sbjct: 217 IVKYKSAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVT 276

Query: 159 GKPTAADLKLGLATAPVLFACEKS 182
           GK    D++    +  V+   +++
Sbjct: 277 GK-IGTDIQDNKCSWLVVQCLQRA 299

>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 = 56.0 bits (135), Expect = 3e-09
 Identities = 20/116 (17%), Positives = 38/116 (32%), Gaps = 6/116 (5%)

Query: 177 FACEKSAML--GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLG 234
           +    +AM   G   +K    A +    +G  FQ+ DD LD        GK    D++  
Sbjct: 228 YLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGK-IGTDIQDN 286

Query: 235 LATAPVLFACEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
             +  V+   ++  PE   ++   +  +E   V +      +              
Sbjct: 287 KCSWLVVQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDS 342

>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 = 62.9 bits (153), Expect = 1e-11
 Identities = 17/105 (16%), Positives = 33/105 (31%), Gaps = 3/105 (2%)

Query: 80  GEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML--GGADDKLSEVAFEYGRN 137
            E  Q  + +      A Y      KT            +     A      +       
Sbjct: 182 PEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHL 241

Query: 138 LGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
           +G  FQ+ DD++D  +  + +GK    D++    +   +    K+
Sbjct: 242 IGEYFQVQDDVMDCFTPPEQLGK-VGTDIEDAKCSWLAVTFLGKA 285

>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 = 54.0 bits (130), Expect = 1e-08
 Identities = 11/64 (17%), Positives = 24/64 (37%), Gaps = 1/64 (1%)

Query: 183 AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242
            +   A      +       +G  FQ+ DD++D  +  + +GK    D++    +   + 
Sbjct: 222 FVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGK-VGTDIEDAKCSWLAVT 280

Query: 243 ACEK 246
              K
Sbjct: 281 FLGK 284

>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 = 62.2 bits (152), Expect = 2e-11
 Identities = 30/100 (30%), Positives = 49/100 (49%), Gaps = 11/100 (11%)

Query: 74  MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFE 133
           + D+   E + L +   E+ +F H       KTA+L+        ++GG  D+  E   +
Sbjct: 167 VVDI-SSEGLDLNNVGLEHLKFIHLH-----KTAALLEASAVLGGIIGGGSDEEIERLRK 220

Query: 134 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATA 173
           + R +G+ FQ+VDD+LD   SS    K T   L +GL  +
Sbjct: 221 FARCIGLLFQVVDDILDVTKSS----KLTYPKL-MGLEKS 255

>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 = 53.0 bits (128), Expect = 3e-08
 Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 5/62 (8%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
            +     ++GG  D+  E   ++ R +G+ FQ+VDD+LD   SS    K T   L +GL 
Sbjct: 199 ASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS----KLTYPKL-MGLE 253

Query: 237 TA 238
            +
Sbjct: 254 KS 255

>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 = 62.6 bits (152), Expect = 2e-11
 Identities = 17/106 (16%), Positives = 36/106 (33%), Gaps = 3/106 (2%)

Query: 79  QGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML--GGADDKLSEVAFEYGR 136
             +  Q  + +      ++Y      KTA           ++           V  E   
Sbjct: 209 DPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAM 268

Query: 137 NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
            +G  FQ+ DD++D  +  + +GK    D++    +   +    K+
Sbjct: 269 LMGEYFQVQDDVMDCFTPPERLGK-VGTDIQDAKCSWLAVTFLAKA 313

>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 = 53.0 bits (127), Expect = 3e-08
 Identities = 12/64 (18%), Positives = 24/64 (37%), Gaps = 1/64 (1%)

Query: 183 AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242
            +          V  E    +G  FQ+ DD++D  +  + +GK    D++    +   + 
Sbjct: 250 IVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-VGTDIQDAKCSWLAVT 308

Query: 243 ACEK 246
              K
Sbjct: 309 FLAK 312

>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 = 61.5 bits (150), Expect = 3e-11
 Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 1/65 (1%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA-MGKPT 162
           +K  +L A      A+LGG D+   E    +G  +G    L+             + +  
Sbjct: 178 KKEGTLHACGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELA 237

Query: 163 AADLK 167
             +L+
Sbjct: 238 VKELE 242

>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 = 50.4 bits (121), Expect = 1e-07
 Identities = 10/57 (17%), Positives = 19/57 (33%), Gaps = 1/57 (1%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA-MGKPTAADLK 232
                 A+LGG D+   E    +G  +G    L+             + +    +L+
Sbjct: 186 CGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELE 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 = 55.7 bits (135), Expect = 2e-09
 Identities = 18/88 (20%), Positives = 34/88 (38%), Gaps = 14/88 (15%)

Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGI---------AFQLVDDLLDFI-- 152
           +K   + A      A+LGGA ++  +    +G   G          + QL+D+ +     
Sbjct: 177 KKYGEMHACGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLK 236

Query: 153 -SSSDAMGKPT--AADLKLGLATAPVLF 177
             + + +G      A+L   L   P L+
Sbjct: 237 ELALEELGGFHGKNAELMSSLVAEPSLY 264

>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 = 45.7 bits (109), Expect = 5e-06
 Identities = 16/80 (20%), Positives = 30/80 (37%), Gaps = 14/80 (17%)

Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGI---------AFQLVDDLLDFI---SSSDAMG 224
                 A+LGGA ++  +    +G   G          + QL+D+ +       + + +G
Sbjct: 185 CGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELG 244

Query: 225 KPT--AADLKLGLATAPVLF 242
                 A+L   L   P L+
Sbjct: 245 GFHGKNAELMSSLVAEPSLY 264

>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 = 50.2 bits (119), Expect = 2e-07
 Identities = 29/105 (27%), Positives = 44/105 (41%), Gaps = 11/105 (10%)

Query: 77  LVQGEFMQLGSKETENERFAHYLTKTYRK-TASLIANCVKASAMLGGADDKLSEVAFEYG 135
           L+ GE M +  +    E     + + Y   T +L A C  A  +L G D          G
Sbjct: 146 LLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAPFILXGXDH---TXMXLLG 202

Query: 136 RNLGIAFQLVDDLLDFISSSDAMGKPTAADLK-------LGLATA 173
              G+AFQ+ DDL D + S + +GK    D +       +G+  A
Sbjct: 203 EXFGVAFQIYDDLXDILGSFEKVGKDLGKDTEXVTLVXXVGIQXA 247

>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 = 45.6 bits (107), Expect = 6e-06
 Identities = 24/130 (18%), Positives = 44/130 (33%), Gaps = 12/130 (9%)

Query: 116 ASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 175
           A + +    +      F       +  + +D  ++F      + +     +      A  
Sbjct: 123 AFSQISXIGNSXIFEEFSETAYXLLLGEAMD--VEFERRXMEVSQEMVERMYAFXTGALF 180

Query: 176 LFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLK--- 232
            F      +L G D          G   G+AFQ+ DDL D + S + +GK    D +   
Sbjct: 181 AFCFSAPFILXGXDH---TXMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKDTEXVT 237

Query: 233 ----LGLATA 238
               +G+  A
Sbjct: 238 LVXXVGIQXA 247

>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 = 43.3 bits (101), Expect = 6e-05
 Identities = 21/147 (14%), Positives = 45/147 (30%), Gaps = 34/147 (23%)

Query: 9   VACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIAN 68
           ++C+++   R   VT  LS   T  +  +   +             LT    +  SL+  
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT------------LTP--DEVKSLLLK 309

Query: 69  CVKAIMTDL----VQGEFMQLG----SKETENERFAHYLTKTYRKTASLIANCVKASAML 120
            +     DL    +     +L     S       + ++      K  ++I + +     L
Sbjct: 310 YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV---L 366

Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDD 147
             A+ +      +    L + F     
Sbjct: 367 EPAEYR------KMFDRLSV-FP--PS 384

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	287
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
3nf2_A	352	Putative polyprenyl synthetase; isoprenyl diphosph	100.0
3rmg_A	334	Octaprenyl-diphosphate synthase; structural genomi	100.0
3pko_A	334	Geranylgeranyl pyrophosphate synthase; isoprenyl d	100.0
3lmd_A	360	Geranylgeranyl pyrophosphate synthase; isoprenyl d	100.0
3tc1_A	315	Octaprenyl pyrophosphate synthase; all alpha-helic	100.0
4dhd_A	358	Polyprenyl synthetase; isoprenoid synthesis, isopr	100.0
1wy0_A	342	Geranylgeranyl pyrophosphate synthetase; pyrococcu	100.0
3lk5_A	380	Geranylgeranyl pyrophosphate synthase; structural	100.0
3aqb_B	325	Component B of hexaprenyl diphosphate synthase; pr	100.0
1v4e_A	299	Octoprenyl-diphosphate synthase; trans-type prenyl	100.0
2e8v_A	340	Geranylgeranyl pyrophosphate synthetase; prenyltra	100.0
1wmw_A	330	Geranylgeranyl diphosphate synthetase; GGPP, preny	99.98
2q80_A	301	Geranylgeranyl pyrophosphate synthetase; isoprenoi	99.98
1yhl_A	362	Farnesyl pyrophosphate synthase; farnesyl diphosph	99.97
2qis_A	374	Farnesyl pyrophosphate synthetase; trans-prenyltra	99.96
1rtr_A	301	Geranyltranstransferase; 2.50A {Staphylococcus aur	99.96
3p8l_A	302	Geranyltranstransferase; isoprenyl synthase, struc	99.96
3lsn_A	304	Geranyltranstransferase; structural genomics, prot	99.96
4f62_A	317	Geranyltranstransferase; enzyme function initiativ	99.96
3ts7_A	324	Geranyltranstransferase; isoprenoid synthesis, far	99.96
1uby_A	367	FPS, farnesyl diphosphate synthase; transferase, i	99.96
3uca_A	324	Geranyltranstransferase; isoprenoid synthesis, iso	99.96
2h8o_A	335	Geranyltranstransferase; geranyltransferase,agroba	99.96
3dyh_A	390	Farnesyl pyrophosphate synthase; protein-bisphosph	99.96
3p8r_A	302	Geranyltranstransferase; isoprenyl synthase, struc	99.96
3lom_A	313	Geranyltranstransferase; geranyltransferase, struc	99.96
3pde_A	309	Farnesyl-diphosphate synthase; isoprenyl diphospha	99.96
2ihi_A	395	Pyrophosphate synthase; PV092040, structural genom	99.96
3m0g_A	297	Farnesyl diphosphate synthase; structural genomics	99.96
2her_A	368	Fragment, farnesyl pyrophosphate synthase; farnesy	99.96
1rqj_A	299	Geranyltranstransferase; bisphosphonate, isoprenyl	99.96
3mav_A	395	Farnesyl pyrophosphate synthase; PV092040, structu	99.95
3llw_A	311	Geranyltranstransferase (ISPA); structural genomic	99.95
2ftz_A	284	Geranyltranstransferase; TM0161, structural GE joi	99.95
3npk_A	291	Geranyltranstransferase; isoprene biosynthesis, SG	99.95
2q58_A	368	Fragment, farnesyl pyrophosphate synthase; farnesy	99.93
3ipi_A	295	Geranyltranstransferase; isoprene biosynthesis, he	99.93
2j1p_A	293	Geranylgeranyl pyrophosphate synthetase; transfera	99.91
2azj_A	289	Geranylgeranyl pyrophosphate synthetase; hexpps, t	99.89
4fp4_A	285	Polyprenyl synthetase; isoprenoid synthesis, isopr	99.87
3p8l_A	302	Geranyltranstransferase; isoprenyl synthase, struc	99.8
3pde_A	309	Farnesyl-diphosphate synthase; isoprenyl diphospha	99.8
3kra_B	274	Geranyl diphosphate synthase small subunit; prenyl	99.8
4f62_A	317	Geranyltranstransferase; enzyme function initiativ	99.8
3ts7_A	324	Geranyltranstransferase; isoprenoid synthesis, far	99.79
3lsn_A	304	Geranyltranstransferase; structural genomics, prot	99.79
3uca_A	324	Geranyltranstransferase; isoprenoid synthesis, iso	99.79
1rtr_A	301	Geranyltranstransferase; 2.50A {Staphylococcus aur	99.78
3qkc_B	273	Geranyl diphosphate synthase small subunit; struct	99.77
3npk_A	291	Geranyltranstransferase; isoprene biosynthesis, SG	99.77
3p8r_A	302	Geranyltranstransferase; isoprenyl synthase, struc	99.77
3lom_A	313	Geranyltranstransferase; geranyltransferase, struc	99.77
2h8o_A	335	Geranyltranstransferase; geranyltransferase,agroba	99.77
1rqj_A	299	Geranyltranstransferase; bisphosphonate, isoprenyl	99.76
3llw_A	311	Geranyltranstransferase (ISPA); structural genomic	99.74
3m0g_A	297	Farnesyl diphosphate synthase; structural genomics	99.73
2ftz_A	284	Geranyltranstransferase; TM0161, structural GE joi	99.7
3ipi_A	295	Geranyltranstransferase; isoprene biosynthesis, he	99.63
3mav_A	395	Farnesyl pyrophosphate synthase; PV092040, structu	99.48
2azj_A	289	Geranylgeranyl pyrophosphate synthetase; hexpps, t	99.4
2q80_A	301	Geranylgeranyl pyrophosphate synthetase; isoprenoi	99.4
2j1p_A	293	Geranylgeranyl pyrophosphate synthetase; transfera	99.39
4fp4_A	285	Polyprenyl synthetase; isoprenoid synthesis, isopr	99.28
2q58_A	368	Fragment, farnesyl pyrophosphate synthase; farnesy	99.27
1v4e_A	299	Octoprenyl-diphosphate synthase; trans-type prenyl	98.91
3nf2_A	352	Putative polyprenyl synthetase; isoprenyl diphosph	98.84
3aqb_B	325	Component B of hexaprenyl diphosphate synthase; pr	98.84
3apz_A	348	Geranyl diphosphate synthase; prenyltransferase, a	98.8
3mzv_A	341	Decaprenyl diphosphate synthase; transferase, stru	98.79
3oyr_A	345	Trans-isoprenyl diphosphate synthase; isoprenyl sy	98.78
3rmg_A	334	Octaprenyl-diphosphate synthase; structural genomi	98.78
3lmd_A	360	Geranylgeranyl pyrophosphate synthase; isoprenyl d	98.78
4dhd_A	358	Polyprenyl synthetase; isoprenoid synthesis, isopr	98.77
1uby_A	367	FPS, farnesyl diphosphate synthase; transferase, i	98.74
3pko_A	334	Geranylgeranyl pyrophosphate synthase; isoprenyl d	98.71
1wy0_A	342	Geranylgeranyl pyrophosphate synthetase; pyrococcu	98.69
3lk5_A	380	Geranylgeranyl pyrophosphate synthase; structural	98.67
3tc1_A	315	Octaprenyl pyrophosphate synthase; all alpha-helic	98.64
1wmw_A	330	Geranylgeranyl diphosphate synthetase; GGPP, preny	98.63
3dyh_A	390	Farnesyl pyrophosphate synthase; protein-bisphosph	98.62
3kra_B	274	Geranyl diphosphate synthase small subunit; prenyl	98.61
2qis_A	374	Farnesyl pyrophosphate synthetase; trans-prenyltra	98.57
3qkc_B	273	Geranyl diphosphate synthase small subunit; struct	98.56
2her_A	368	Fragment, farnesyl pyrophosphate synthase; farnesy	98.55
1yhl_A	362	Farnesyl pyrophosphate synthase; farnesyl diphosph	98.51
2e8v_A	340	Geranylgeranyl pyrophosphate synthetase; prenyltra	98.35
2ihi_A	395	Pyrophosphate synthase; PV092040, structural genom	98.34
3aqb_A	147	Component A of hexaprenyl diphosphate synthase; pr	87.06

>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=9.6e-35  Score=269.15  Aligned_cols=178  Identities=42%  Similarity=0.740  Sum_probs=152.4

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+||||+++||+++++++++++++.+++++..+++||.+++.+..+                                  
T Consensus       133 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~----------------------------------  178 (348)
T 3apz_A          133 LAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTE----------------------------------  178 (348)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHTCCHH----------------------------------
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHhccC----------------------------------
Confidence            5899999999999999998999999888888888888887755322                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||.+||++|++++|.+++..+.+.+||.++|++|||+||++|++++      
T Consensus       179 ----------~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~gd------  242 (348)
T 3apz_A          179 ----------QRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGT------  242 (348)
T ss_dssp             ----------HHTCHHHHHHHHHHHHTHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT------
T ss_pred             ----------CCCCHHHHHHHHHcchHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHhhccCC------
Confidence                      2467889999999999999999999999999998777777777777777777777777666554      


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                 +..+|||+|+|+++||+|||+
T Consensus       243 -----------------------------------------------------------~~~~GK~~g~Dl~egK~Tlp~  263 (348)
T 3apz_A          243 -----------------------------------------------------------SASLGKGSLSDIRHGVITAPI  263 (348)
T ss_dssp             -----------------------------------------------------------TTCTTCSCCHHHHTTCCCHHH
T ss_pred             -----------------------------------------------------------hhhcCCcchhhHhCCChhHHH
Confidence                                                                       456788889999999999999


Q ss_pred             HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..+++++.+.+...++++++++++++.++|+++++++++++|
T Consensus       264 l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~l~~a~~~~~~~  310 (348)
T 3apz_A          264 LFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEH  310 (348)
T ss_dssp             HHHHHHCTTHHHHHHTTTTCTHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHcCHHHHHHHHhccCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            99999988888888777777889999999999999999999998865

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

Probab=100.00  E-value=5.2e-35  Score=269.75  Aligned_cols=178  Identities=33%  Similarity=0.412  Sum_probs=136.0

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||++||+++++.+++++++.+++++..+++||++++.+..+                                  
T Consensus       131 l~GD~Ll~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~----------------------------------  176 (345)
T 3oyr_A          131 LVGDFLFARAFELMVETNSMKALEILARASRVIAEGEVLQLMRSHD----------------------------------  176 (345)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHTSSC----------------------------------
T ss_pred             HHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHcCCC----------------------------------
Confidence            5899999999999999999999999999988888888888765443                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|+++++     
T Consensus       177 ----------~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~~d~-----  241 (345)
T 3oyr_A          177 ----------LNLSQAVYLEIIQAKTAELFAAASEAGAVSAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGAT-----  241 (345)
T ss_dssp             ----------SSCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHTTC---------
T ss_pred             ----------CCCCHHHHHHHHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCh-----
Confidence                      34678899999999999999999999999999999888889999999999999888888887764     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  ..+|||+|+|+++||+|||+
T Consensus       242 ------------------------------------------------------------~~~GK~~g~Dl~egK~TlP~  261 (345)
T 3oyr_A          242 ------------------------------------------------------------ETLGKNAGDDFREGKATLPL  261 (345)
T ss_dssp             ---------------------------------------------------------------------------CCHHH
T ss_pred             ------------------------------------------------------------hhcCCCccchhhcCchHHHH
Confidence                                                                        45678888999999999999


Q ss_pred             HHhhhhCc-cchHHHHh----hcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFP-ELNPMIMR----RFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~-~~~~~l~~----~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..+ +.++.+.+    ...+++++++++++++++|+++++++++++|
T Consensus       262 i~al~~~~~~~~~~l~~~l~~~~~~~~~~~~v~~~i~~~gale~a~~~a~~~  313 (345)
T 3oyr_A          262 LLAIARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADY  313 (345)
T ss_dssp             HHHHHHSCSHHHHHHHHHCC----CCSSHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCHHHHHHHHHHHH
Confidence            99998754 33344433    3346788999999999999999999999875

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

Probab=100.00  E-value=1.6e-34  Score=266.41  Aligned_cols=178  Identities=30%  Similarity=0.451  Sum_probs=142.5

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||++||+++++.+++++++.+++++..+++||.+++.+..+                                  
T Consensus       119 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~----------------------------------  164 (341)
T 3mzv_A          119 LVGDYLFARSFQLMTDTGNMRVMEILANASAVIAEGEVLQLTAAQN----------------------------------  164 (341)
T ss_dssp             HHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHHHHHHHHHHTTC----------------------------------
T ss_pred             HHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHhccC----------------------------------
Confidence            5899999999999999999999999888888888888887754332                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|+++++     
T Consensus       165 ----------~~~t~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DD~ld~~~d~-----  229 (341)
T 3mzv_A          165 ----------LATTEDIYLRVIRGKTAALFSAATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKS-----  229 (341)
T ss_dssp             ----------TTCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHC---------
T ss_pred             ----------CCCCHHHHHHHHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCh-----
Confidence                      34678999999999999999999999999999988888888888888888888888887776654     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  ..+|||+|+|+++||+|||+
T Consensus       230 ------------------------------------------------------------~~~GK~~g~Dl~egK~Tlp~  249 (341)
T 3mzv_A          230 ------------------------------------------------------------AEIGKNTGDDFRERKLTMPV  249 (341)
T ss_dssp             ------------------------------------------------------------------CCHHHHTTCCCHHH
T ss_pred             ------------------------------------------------------------hhcCCCCCcccccCchhHHH
Confidence                                                                        46778888999999999999


Q ss_pred             HHhhhhCccc-hHHH----HhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPEL-NPMI----MRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~-~~~l----~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..++. +..+    .+...+++++++++++++++|++++|+.++++|
T Consensus       250 i~al~~~~~~~~~~l~~~l~~~~~~~~~~~~i~~~l~~~ga~~~a~~~a~~~  301 (341)
T 3mzv_A          250 IKAVALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGW  301 (341)
T ss_dssp             HHHHHTCCHHHHHHHHHHTTSCCCCTTHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHhCCHhHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCHHHHHHHHHHHH
Confidence            9999987543 2223    233346788999999999999999999999875

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

Probab=100.00  E-value=2.1e-34  Score=266.50  Aligned_cols=178  Identities=27%  Similarity=0.374  Sum_probs=144.9

Q ss_pred             CchhHHHHHHHHHHhcCCCh---HHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDN---DVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDL   77 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~---~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~   77 (287)
                      |+|||||++||+++++.+++   ++++.+++++..+++||++++.+.                                 
T Consensus       120 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~l~~GQ~~dl~~~---------------------------------  166 (352)
T 3nf2_A          120 LVGDALFALANEVLLELGTVEAGRATRRLTKASRSLIDGQAQDISYE---------------------------------  166 (352)
T ss_dssp             HHHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHT---------------------------------
T ss_pred             HHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHcc---------------------------------
Confidence            58999999999999999887   677777777777777777766443                                 


Q ss_pred             hhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccc
Q psy17022         78 VQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA  157 (287)
Q Consensus        78 ~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~  157 (287)
                                 .+..+++++|++|+.+|||+||++||++|+++++.+++.++.+++||.++|++|||+||++|++++   
T Consensus       167 -----------~~~~~t~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~gd---  232 (352)
T 3nf2_A          167 -----------HRDRVSVEECLEMEGNKTGALLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGD---  232 (352)
T ss_dssp             -----------TCSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---
T ss_pred             -----------cCCCCCHHHHHHHHHcccHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCC---
Confidence                       333578899999999999999999999999999998887777887777777777777777776655   


Q ss_pred             cCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCCh
Q psy17022        158 MGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT  237 (287)
Q Consensus       158 ~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~T  237 (287)
                                                                                    +..+|||.|+|+++||+|
T Consensus       233 --------------------------------------------------------------~~~~GK~~g~Dl~egK~T  250 (352)
T 3nf2_A          233 --------------------------------------------------------------PDATGKQTWSDLRQRKKS  250 (352)
T ss_dssp             --------------------------------------------------------------HHHHSSCTTHHHHTTCCC
T ss_pred             --------------------------------------------------------------hhhhCCCcCcccccCCcc
Confidence                                                                          356788889999999999


Q ss_pred             HHHHHhhhhCcc----chHHHHhh-------cCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        238 APVLFACEKFPE----LNPMIMRR-------FQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       238 lp~i~al~~~~~----~~~~l~~~-------~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      ||++++++..++    +.+.+.+.       ..+++++++++++|+++|+++++++++++|
T Consensus       251 lpvi~al~~~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~li~~~g~~~~a~~~a~~~  311 (352)
T 3nf2_A          251 LPVVAALAAGGAASERLGEILTADAKASDFANFSEEEFAARAALIEEAGGREWTADEARRQ  311 (352)
T ss_dssp             HHHHHHHHHCSHHHHHHHHHHHHHHTCTTGGGCCHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCChHHHHHHHHHhccccccccCCCCHHHHHHHHHHHHHCCcHHHHHHHHHHH
Confidence            999999997532    33444433       346788999999999999999999999875

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

Probab=100.00  E-value=4.6e-34  Score=262.74  Aligned_cols=177  Identities=25%  Similarity=0.418  Sum_probs=146.8

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||++||+.+++.+++++++.+++++..++.||++++.|..+                                  
T Consensus       113 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~----------------------------------  158 (334)
T 3rmg_A          113 LAGDYLLATSLVHAEQTNNYEIIRLVSSLGQKLAEGELLQLSNVSN----------------------------------  158 (334)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHCCCC----------------------------------
T ss_pred             HHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHhCCC----------------------------------
Confidence            5899999999999999988899998888888888888887765443                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|+++ +     
T Consensus       159 ----------~~~t~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~-~-----  222 (334)
T 3rmg_A          159 ----------HSFSEEVYFDVIRKKTAALFAACAEAAALSVQVGEEEVAFARLLGEYIGICFQIKDDIFDYFD-S-----  222 (334)
T ss_dssp             ------------CCHHHHHHHHHHTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHTTSC-C-----
T ss_pred             ----------CCCCHHHHHHHHcCChHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCC-h-----
Confidence                      346788999999999999999999999999999998888899999999999999999988873 3     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  +.+|||+|+|+++||+|||+
T Consensus       223 ------------------------------------------------------------~~~GK~~g~Dl~egK~T~p~  242 (334)
T 3rmg_A          223 ------------------------------------------------------------KKIGKPTGNDMLEGKLTLPA  242 (334)
T ss_dssp             ------------------------------------------------------------------CCHHHHTTCCCHHH
T ss_pred             ------------------------------------------------------------hhcCCCchhhhhcCchHHHH
Confidence                                                                        35678888999999999999


Q ss_pred             HHhhhhCcc-----chHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~-----~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..++     +.+.+.+...+++++++++++++++|++++|+.++++|
T Consensus       243 i~al~~~~~~~~~~L~~~l~~~~~~~~~~~~v~~~i~~~g~~~~a~~~~~~~  294 (334)
T 3rmg_A          243 LYALNTTKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQY  294 (334)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHhCChhhHHHHHHHHcCCCCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            999997532     34445555668889999999999999999999999875

>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=5.1e-34  Score=262.46  Aligned_cols=178  Identities=25%  Similarity=0.413  Sum_probs=149.6

Q ss_pred             CchhHHHHHHHHHHhcCCC-hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRD-NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQ   79 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~-~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~   79 (287)
                      |+||||+++||+++++..+ +++++.+++++..++.||.+|+.+..+                                 
T Consensus       122 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~Gq~~dl~~~~~---------------------------------  168 (334)
T 3pko_A          122 YAGDFMFTVYFDQVLKSTTDRSLIQNHIDAMHRILQGELHQMDLNYR---------------------------------  168 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHTTTC---------------------------------
T ss_pred             HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhccC---------------------------------
Confidence            5899999999999999876 788888888888888888887754332                                 


Q ss_pred             hhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccC
Q psy17022         80 GEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMG  159 (287)
Q Consensus        80 GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~G  159 (287)
                                 ..+++++|++|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|+++++    
T Consensus       169 -----------~~~~~~~yl~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~~~~----  233 (334)
T 3pko_A          169 -----------EDITLDAYLNEIAGKTAELFALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDP----  233 (334)
T ss_dssp             -----------TTCCHHHHHHHHHHTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCT----
T ss_pred             -----------CCCCHHHHHHHHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCh----
Confidence                       34678899999999999999999999999999988888888888888888888888888877764    


Q ss_pred             ccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHH
Q psy17022        160 KPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAP  239 (287)
Q Consensus       160 k~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp  239 (287)
                                                                                   ..+|||+|+|+++||+|||
T Consensus       234 -------------------------------------------------------------~~~GK~~g~Dl~egK~Tlp  252 (334)
T 3pko_A          234 -------------------------------------------------------------KRTQKPVLEDLRSGVYSLP  252 (334)
T ss_dssp             -------------------------------------------------------------TSCCHHHHHHHHTTCCCHH
T ss_pred             -------------------------------------------------------------hhcCCCCCCccccCchhHH
Confidence                                                                         4567777899999999999


Q ss_pred             HHHhhhhCc-cchHHHH-hhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        240 VLFACEKFP-ELNPMIM-RRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       240 ~i~al~~~~-~~~~~l~-~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      ++++++..+ ++.+.+. +...+++++++++++++++|+++++++++++|
T Consensus       253 ~i~al~~~~~~l~~~l~~~~~~~~~~~~~i~~li~~~ga~~~a~~~~~~~  302 (334)
T 3pko_A          253 LLLSLSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDY  302 (334)
T ss_dssp             HHHHGGGSHHHHHHHHTTGGGCCHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHhCcHHHHHHHhcCCCCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            999998865 4555553 34557889999999999999999999999875

>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=4.1e-34  Score=264.86  Aligned_cols=176  Identities=26%  Similarity=0.424  Sum_probs=137.4

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||||++||+++++++ +++++.+++++..++.||++++.|..                                   
T Consensus       141 laGD~Ll~~A~~~l~~~~-~~~~~~~~~~~~~~~~GQ~ldl~~~~-----------------------------------  184 (360)
T 3lmd_A          141 LAGDILLAHASGLMSQLG-TDTVAHFAETFGELVTGQMRETVGPR-----------------------------------  184 (360)
T ss_dssp             HHHHHHHHHHHHHHHHHC-HHHHHHHHHHHHHHHHHHHHHHHCCT-----------------------------------
T ss_pred             HHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHHHHHHHhccC-----------------------------------
Confidence            589999999999999986 47777777777777777776665433                                   


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                               +. +++++|++|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|+++++     
T Consensus       185 ---------~~-~t~~~y~~~i~~KTg~L~~~a~~lga~laga~~~~~~~l~~~g~~lG~aFQI~DDilD~~~d~-----  249 (360)
T 3lmd_A          185 ---------DT-DPIEHYTNVIREKTGVLIASAGYLGAMHAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSET-----  249 (360)
T ss_dssp             ---------TS-CHHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------
T ss_pred             ---------CC-CCHHHHHHHHHhhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCh-----
Confidence                     23 677899999999999999999999999999988877778888888777777777777776654     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  ..+|||.|+|+++||+|||+
T Consensus       250 ------------------------------------------------------------~~~GK~~g~Dl~egK~Tlp~  269 (360)
T 3lmd_A          250 ------------------------------------------------------------HESGKTPGTDLREGVFTLPV  269 (360)
T ss_dssp             ------------------------------------------------------------------CCHHHHHTCCCHHH
T ss_pred             ------------------------------------------------------------hhhCCCchhHHhcCCchHHH
Confidence                                                                        46778888999999999999


Q ss_pred             HHhhhhCccc----hHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPEL----NPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~----~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..++.    .+++.+...+++++++++++++++|++++|++++++|
T Consensus       270 l~al~~~~~~~~~L~~~l~~~~~~~~~~~~~~~ll~~~gal~~a~~~a~~~  320 (360)
T 3lmd_A          270 LYALREDTPVGAELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRY  320 (360)
T ss_dssp             HHHHHCCSHHHHHHHHHCSSCCCSHHHHHHHHHHHHHSSHHHHHHHHHHHH
T ss_pred             HHHHHcCCchHHHHHHHHcCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHH
Confidence            9999875433    3333334456788999999999999999999999875

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

Probab=100.00  E-value=2.4e-33  Score=255.89  Aligned_cols=174  Identities=28%  Similarity=0.368  Sum_probs=143.8

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+||||+++||+++++.+ +++++.+++++..++.||++++.+..                                   
T Consensus       103 l~GD~L~~~a~~~l~~~~-~~~~~~~~~~~~~~~~GQ~~dl~~~~-----------------------------------  146 (315)
T 3tc1_A          103 MLGDVFYSKAFFELSKMG-ELIAQALSNAVLRLSRGEIEDVFVGE-----------------------------------  146 (315)
T ss_dssp             HHHHHHHHHHHHHHTTSC-HHHHHHHHHHHHHHHHHHHHHHHHTT-----------------------------------
T ss_pred             HHHHHHHHHHHHHHHHCc-HHHHHHHHHHHHHHHHHHHHHHHcCC-----------------------------------
Confidence            589999999999999987 78888888877777777777664433                                   


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                               +..+++++|++|+.+|||+||++||++|+++++.+   .+.+++||.++|++|||+||++|+++++     
T Consensus       147 ---------~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~---~~~l~~~g~~lG~aFQI~DD~ld~~~d~-----  209 (315)
T 3tc1_A          147 ---------CFNSDKQKYWRILEDKTAHFIEASLKSMAILLNKD---AKIYADFGLNFGMAFQIIDDLLDITQDA-----  209 (315)
T ss_dssp             ---------SCCCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTSC---HHHHHHHHHHHHHHHHHHHHHHTTSCCT-----
T ss_pred             ---------CCCCCHHHHHHHHhcchHHHHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHHHHHHhcccCCH-----
Confidence                     23578899999999999999999999999999987   5678888888888888888888877654     


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                  ..+|||.|+|+++||+|||+
T Consensus       210 ------------------------------------------------------------~~~GK~~g~Dl~egK~T~p~  229 (315)
T 3tc1_A          210 ------------------------------------------------------------KTLGKPNFSDFKEGKTTLPY  229 (315)
T ss_dssp             ------------------------------------------------------------TCCCCCCCCTGGGTCCCHHH
T ss_pred             ------------------------------------------------------------HHhCCChhhHHHcCChhHHH
Confidence                                                                        45678888999999999999


Q ss_pred             HHhhhhCc-cchHHHHhhcC--CchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFP-ELNPMIMRRFQ--EPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~-~~~~~l~~~~~--~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..+ +.++.+.....  +++++++++++++++|++++++.++++|
T Consensus       230 i~al~~~~~~~~~~L~~~l~~~~~~~~~~i~~li~~~ga~~~~~~~~~~~  279 (315)
T 3tc1_A          230 LLLYEKLNQHDQGLLISYFKQDSHEIIEWTKEKFKQYGIIEETLKTAQVY  279 (315)
T ss_dssp             HHHHTTSCHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            99999854 44444543322  6788999999999999999999999875

>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; 1.65A {Pyrobaculum calidifontis} PDB: 4gp1_A* 4gp2_A*

Probab=100.00  E-value=4.2e-33  Score=258.48  Aligned_cols=189  Identities=21%  Similarity=0.291  Sum_probs=145.3

Q ss_pred             CchhHHHHHHHHHHhcCCC-hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRD-NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQ   79 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~-~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~   79 (287)
                      |+||||++.||++++.... .++++.+++++..+++||.+++.|.....-. +.               .          
T Consensus       111 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~~~~d-p~---------------~----------  164 (358)
T 4dhd_A          111 LVGIWYREAIEEAVLDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSD-PY---------------F----------  164 (358)
T ss_dssp             HHHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHHHHHHTBSSCCCC-HH---------------H----------
T ss_pred             HHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHHHHHHHHHHHcccccccc-cc---------------c----------
Confidence            5899999999999987654 5889999999999999999988775211000 00               0          


Q ss_pred             hhhhhccCccch-hhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCcccc
Q psy17022         80 GEFMQLGSKETE-NERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM  158 (287)
Q Consensus        80 GQ~~d~~~~~~~-~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~  158 (287)
                             ..++. .+++++|++|+.+|||+||++||++|+++++.+++..+.+.+||.++|++|||+||++|++++    
T Consensus       165 -------~~~~~~~~t~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DD~lD~~gd----  233 (358)
T 4dhd_A          165 -------VQARWREVTLDDYIKMVSLKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGD----  233 (358)
T ss_dssp             -------HHTCCSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             -------cccCCCCCCHHHHHHHHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC----
Confidence                   00122 578899999999999999999999999999998887777888888777777777777777655    


Q ss_pred             CccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCC-h
Q psy17022        159 GKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA-T  237 (287)
Q Consensus       159 Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~-T  237 (287)
                                                                                   +..+|||+|+|+++||+ |
T Consensus       234 -------------------------------------------------------------~~~~GK~~g~Dl~egK~~T  252 (358)
T 4dhd_A          234 -------------------------------------------------------------PKKFGKEIGKDIKEHKRGN  252 (358)
T ss_dssp             -------------------------------------------------------------------CTTHHHHTTBSCS
T ss_pred             -------------------------------------------------------------hhhcCCCchhhHhcCChhh
Confidence                                                                         35678888999999999 9


Q ss_pred             HHHHHhhhhCcc-----chHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        238 APVLFACEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       238 lp~i~al~~~~~-----~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      ||++++++..++     +.+.+.+...+++++++++++++++|++++|++++++|
T Consensus       253 ~p~i~al~~~~~~~~~~L~~~l~~~~~~~~~~~~i~~li~~~gai~~a~~~a~~~  307 (358)
T 4dhd_A          253 AVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRLAARY  307 (358)
T ss_dssp             HHHHHHHHHSCHHHHHHHHHHHHCSSCCHHHHHHHHHHHHTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCChhhHHHHHHHHcCCCCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            999999998533     33444444557788999999999999999999999875

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

Probab=100.00  E-value=2.6e-33  Score=258.96  Aligned_cols=178  Identities=24%  Similarity=0.420  Sum_probs=141.2

Q ss_pred             CchhHHHHHHHHHHhcC-----CChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhh
Q psy17022          1 MAGDFILAVACQMISRL-----RDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMT   75 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~-----~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~   75 (287)
                      |+||||++.||+++++.     .+.++++.+++++..++.||.+++.|.                               
T Consensus       112 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~-------------------------------  160 (342)
T 1wy0_A          112 LAGDLLFSKAFEAVARAEIPPEKKARVLEVIVKASNELCEGQARDLEFE-------------------------------  160 (342)
T ss_dssp             HHHHHHHHHHHHHHHTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-------------------------------
T ss_pred             HHHHHHHHHHHHHHHHcccCcccHHHHHHHHHHHHHHHHHHHHHHHHcc-------------------------------
Confidence            58999999999999998     445666666666666666666665443                               


Q ss_pred             hhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCc
Q psy17022         76 DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS  155 (287)
Q Consensus        76 ~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~  155 (287)
                                   .+...++++|++|+.+|||+||.+||++|+++++.+++..+.+.+||.++|++|||+||++|+++++
T Consensus       161 -------------~~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DD~lD~~~d~  227 (342)
T 1wy0_A          161 -------------KKSTVTIEEYMEMISGKTGALFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADE  227 (342)
T ss_dssp             -------------TCSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCH
T ss_pred             -------------cCCCCCHHHHHHHHHHhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCh
Confidence                         3334678999999999999999999999999999988877888888888887777777777776653


Q ss_pred             cccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCC
Q psy17022        156 DAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL  235 (287)
Q Consensus       156 ~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk  235 (287)
                                                                                       ..+|||+|+|+++||
T Consensus       228 -----------------------------------------------------------------~~~GK~~g~Dl~egK  242 (342)
T 1wy0_A          228 -----------------------------------------------------------------KKLGKPVGSDIRKGK  242 (342)
T ss_dssp             -----------------------------------------------------------------HHHTSCSCHHHHHTC
T ss_pred             -----------------------------------------------------------------hhhCCCchhHHhCCC
Confidence                                                                             467888889999999


Q ss_pred             ChHHHHHhhhhCcc-chHHHHhhcC---------------CchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        236 ATAPVLFACEKFPE-LNPMIMRRFQ---------------EPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       236 ~Tlp~i~al~~~~~-~~~~l~~~~~---------------~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +|||++++++..++ .++.+.+...               +++++++++++++++|+++++++++++|
T Consensus       243 ~Tlp~i~al~~~~~~~~~~l~~~~~~~~~~~~~~g~~~~~~~~~~~~i~~~l~~~g~~~~~~~~~~~~  310 (342)
T 1wy0_A          243 KTLIVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLKKYGSIDYAAEIAKDM  310 (342)
T ss_dssp             CCHHHHHHHHHCCHHHHHHHHHTSCC-------------CHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHhCCHhHHHHHHHHHcccccccccccccccCCHHHHHHHHHHHHHCCcHHHHHHHHHHH
Confidence            99999999987643 3444444332               2567999999999999999999998865

>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=4.1e-33  Score=260.19  Aligned_cols=182  Identities=24%  Similarity=0.359  Sum_probs=141.6

Q ss_pred             CchhHHHHHHHHHHhcCCCh-HHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDN-DVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQ   79 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~-~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~   79 (287)
                      |+|||||++||+++++.+.+ .....                                        +...+..+..+|+.
T Consensus       150 L~GD~Ll~~A~~~l~~~~~~~~~~~~----------------------------------------~~~~~~~~~~~~~~  189 (380)
T 3lk5_A          150 LAGDMALVWAEDMLQDSGLSAEALAR----------------------------------------TRDAWRGMRTEVIG  189 (380)
T ss_dssp             HHHHHHHHHHHHHHHTSCCCHHHHHH----------------------------------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCHHHHHH----------------------------------------HHHHHHHHHHHHHH
Confidence            58999999999999997643 21111                                        11112233456777


Q ss_pred             hhhhhccCccchhhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCcccc
Q psy17022         80 GEFMQLGSKETENERFAHYLTKTYRKTASL-IANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM  158 (287)
Q Consensus        80 GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~  158 (287)
                      ||++|+.+..+..+++++|++|+.+|||+| |.+||.+|++++|.+++..+.+++||.++|++|||+||++|++++    
T Consensus       190 GQ~lDl~~~~~~~~s~~~y~~ii~~KTa~L~~~~~~~~Ga~laga~~~~~~~l~~~G~~lG~AFQI~DDiLd~~gd----  265 (380)
T 3lk5_A          190 GQLLDIYLESHANESVELADSVNRFKTAAYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGD----  265 (380)
T ss_dssp             HHHHHHHHHHTTCCCHHHHHHHHHHHTHHHHTHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC----
T ss_pred             HHHHHHHhccCCCCCHHHHHHHHHhhchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCC----
Confidence            777777776666778999999999999999 899999999999998887777777777777777777777776655    


Q ss_pred             CccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChH
Q psy17022        159 GKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATA  238 (287)
Q Consensus       159 Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tl  238 (287)
                                                                                   +..+|||+|+|+++||+||
T Consensus       266 -------------------------------------------------------------~~~~GK~~g~Dl~egK~T~  284 (380)
T 3lk5_A          266 -------------------------------------------------------------PAITGKPAGDDIREGKRTV  284 (380)
T ss_dssp             -------------------------------------------------------------HHHHSSCTTHHHHTTCCCH
T ss_pred             -------------------------------------------------------------hhhhCCCchhhHhcCCchH
Confidence                                                                         4567888899999999999


Q ss_pred             HHHHhhhhC----ccchHHHHhh---cCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        239 PVLFACEKF----PELNPMIMRR---FQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       239 p~i~al~~~----~~~~~~l~~~---~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      |++++++.+    |+.++.+...   ..+++++++++++++++|+++++++++++|
T Consensus       285 p~i~al~~~~~~~~~~~~~L~~~l~~~~~~~~~~~v~~li~~~Ga~~~~~~~~~~~  340 (380)
T 3lk5_A          285 LLALALQRADKQSPEAATAIRAGVGKVTSPEDIAVITEHIRATGAEEEVEQRISQL  340 (380)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHTTTCCSHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhCccCChHHHHHHHHHHCCCCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            999999875    3344444433   246788999999999999999999999875

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

Probab=100.00  E-value=7.2e-33  Score=254.30  Aligned_cols=177  Identities=26%  Similarity=0.446  Sum_probs=145.5

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+||||+++||+++++.+++++++.+++++..+++||.+++.|..+                                  
T Consensus       110 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~----------------------------------  155 (325)
T 3aqb_B          110 RTGHFLLARALQNIATINNSKFHQIFSKTILEVCFGEFDQMADRFN----------------------------------  155 (325)
T ss_dssp             HHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHHHHHHHHTTTC----------------------------------
T ss_pred             HHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHHHHcccC----------------------------------
Confidence            5899999999999999998899999888888888888887755433                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||++||++|++++|.+++..+.+.+||.++|++|||+||++|++++      
T Consensus       156 ----------~~~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~ld~~~~------  219 (325)
T 3aqb_B          156 ----------YPVSFTAYLRRINRKTAILIEASCHLGALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSD------  219 (325)
T ss_dssp             ----------CCCCHHHHHHHHHHHTHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC------
T ss_pred             ----------CCCCHHHHHHHHHhhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCC------
Confidence                      2467899999999999999999999999999998887777887777777777777777777655      


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                 +..+|||+|+|+++||+|||+
T Consensus       220 -----------------------------------------------------------~~~~GK~~g~Dl~~gk~T~p~  240 (325)
T 3aqb_B          220 -----------------------------------------------------------EATLGKPVGSDIRNGHITYPL  240 (325)
T ss_dssp             -----------------------------------------------------------HHHHSSCTTHHHHTTCCCHHH
T ss_pred             -----------------------------------------------------------hhhcCCccchHhhCCCccHHH
Confidence                                                                       356788889999999999999


Q ss_pred             HHhhhhCcc-chHHHH---hhcC---CchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPE-LNPMIM---RRFQ---EPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~-~~~~l~---~~~~---~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..++ .++.+.   +...   +++++++++++++++ ++++++..+++|
T Consensus       241 i~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~~~~~-~~~~~~~~~~~~  293 (325)
T 3aqb_B          241 MAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQY-GIEPAELLSRKY  293 (325)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHTCCTTCCHHHHHHHHHHHHHH-THHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence            999987643 333443   3322   257899999999999 999999998764

>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=7.2e-33  Score=251.20  Aligned_cols=168  Identities=24%  Similarity=0.398  Sum_probs=137.1

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+||||++.||+++++.+++++++.+++++..+++||.+++.|..+                                  
T Consensus       107 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~----------------------------------  152 (299)
T 1v4e_A          107 AAGDLVLVSAFHTVEEIGNNKLRRAFLNVIGKMSEAELIEQLSRYK----------------------------------  152 (299)
T ss_dssp             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHTTS----------------------------------
T ss_pred             HHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHhhhHHHHHHccCC----------------------------------
Confidence            5899999999999999988899998888888888888887754332                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                . +++++|++|+.+|||+||++||++|+++++.++   +.+.+||.++|++|||+||++|+++       
T Consensus       153 ----------~-~~~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~---~~l~~~g~~lG~aFQi~DD~lD~~~-------  211 (299)
T 1v4e_A          153 ----------P-ITKEEYLRIVEGKSGALFGLALQLPALLEGELG---EDLYNLGVTIGTIYQMFDDIMDFAG-------  211 (299)
T ss_dssp             ----------C-CCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCC---HHHHHHHHHHHHHHHHHHHHHHHTT-------
T ss_pred             ----------C-CCHHHHHHHHHhccHHHHHHHHHHHHHHcCCCH---HHHHHHHHHHHHHHHHHHHHHHccC-------
Confidence                      2 678899999999999999999999999998865   5666666666666666666666554       


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                + ..+|||+|+|+++||+|||+
T Consensus       212 ----------------------------------------------------------d-~~~GK~~g~Dl~egK~T~p~  232 (299)
T 1v4e_A          212 ----------------------------------------------------------M-EKIGKDGFLDLKNGVASFPL  232 (299)
T ss_dssp             ----------------------------------------------------------C-CSCCTTSSCCCTTTTCCHHH
T ss_pred             ----------------------------------------------------------c-cccCCCcchHhhCCCchHHH
Confidence                                                                      4 46677778999999999999


Q ss_pred             HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..+++.+.+.+     +++++++++++++|+++++++++++|
T Consensus       233 l~al~~~~~l~~~l~~-----~~~~~~~~~l~~~g~~~~~~~~~~~~  274 (299)
T 1v4e_A          233 VTAMEKFPEARQMFEN-----RDWSGLMSFMREKGILKECEETLKVL  274 (299)
T ss_dssp             HHHHHHCHHHHHHHHT-----TCHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHhChHHHHHHhH-----HHHHHHHHHHHHCCcHHHHHHHHHHH
Confidence            9999887664444432     57899999999999999999998865

>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=6.8e-33  Score=255.77  Aligned_cols=180  Identities=17%  Similarity=0.210  Sum_probs=131.7

Q ss_pred             CchhHHHHHHHHHHhcCCChH-----HHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhh
Q psy17022          1 MAGDFILAVACQMISRLRDND-----VTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMT   75 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~-----~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~   75 (287)
                      |+|||||++||+++++.+++.     +++.+++++..+++||++++.|+.+.                            
T Consensus       106 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~~----------------------------  157 (340)
T 2e8v_A          106 NTANYMYFRAMQLVSQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFL----------------------------  157 (340)
T ss_dssp             HHHHHHHHHHHHHGGGGCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHST----------------------------
T ss_pred             HHHHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhhccc----------------------------
Confidence            589999999999999998877     78888888888888888777443211                            


Q ss_pred             hhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCc
Q psy17022         76 DLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS  155 (287)
Q Consensus        76 ~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~  155 (287)
                                   ....+++++|++|+.+|||+||++||++|+++++.++ ..+.+.+||.++|++|||+||++|++++ 
T Consensus       158 -------------~~~~~t~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~-~~~~l~~~g~~lG~aFQi~DD~ld~~~~-  222 (340)
T 2e8v_A          158 -------------PEIIPTQEMYLNMVMNKTGGLFRLTLRLMEALSPSSH-HGHSLVPFINLLGIIYQIRDDYLNLKDF-  222 (340)
T ss_dssp             -------------TSCCCCHHHHHHHHHHHTHHHHHHHHHHHHHHCCC-------CHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             -------------ccCCCCHHHHHHHHHhhhHHHHHHHHHHHHHHcCCcH-HHHHHHHHHHHHHHHHHHHHHHHhccCC-
Confidence                         0024688999999999999999999999999998876 4566666666666666666666666554 


Q ss_pred             cccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCC
Q psy17022        156 DAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL  235 (287)
Q Consensus       156 ~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk  235 (287)
                                                                                      +..+|||+|+|+++||
T Consensus       223 ----------------------------------------------------------------~~~~GK~~g~Dl~egK  238 (340)
T 2e8v_A          223 ----------------------------------------------------------------QMSSEKGFAEDITEGK  238 (340)
T ss_dssp             --------------------------------------------------------------------CCCTTHHHHTTC
T ss_pred             ----------------------------------------------------------------hhhhCCCchhhHhcCC
Confidence                                                                            4567888889999999


Q ss_pred             ChHHHHHhhhhCcc---------chHHHHhhcCCchhHHHHHHHHH-hcChHHHHHHHHHhC
Q psy17022        236 ATAPVLFACEKFPE---------LNPMIMRRFQEPGDVEKAFEFVH-KSQGLEQTKFLARKH  287 (287)
Q Consensus       236 ~Tlp~i~al~~~~~---------~~~~l~~~~~~~~~~~~~~~~i~-~~g~~e~a~~~a~~y  287 (287)
                      +|||++++++..++         +.+.+.....+++..++++++|. ++|+++++++++++|
T Consensus       239 ~Tlp~i~al~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~ga~~~~~~~~~~~  300 (340)
T 2e8v_A          239 LSFPIVHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAYTKNFINQL  300 (340)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred             chHHHHHHHHhCcccccchhHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            99999999987543         33334333333334458999999 999999999999875

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

Probab=99.98  E-value=1e-32  Score=253.70  Aligned_cols=176  Identities=24%  Similarity=0.242  Sum_probs=136.9

Q ss_pred             CchhHHHHHHHHHHhcCCC-----hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhh
Q psy17022          1 MAGDFILAVACQMISRLRD-----NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMT   75 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~-----~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~   75 (287)
                      |+||||+++||+++++..+     +++++.+++++..++.||.+++.|.                               
T Consensus       105 l~GD~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~-------------------------------  153 (330)
T 1wmw_A          105 NAGDAMHAEMWGLLAEGLARGLFPPEVLLEFHEVVRRTAYGQHLDLLWT-------------------------------  153 (330)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHHHHHHHHH-------------------------------
T ss_pred             HHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHHHHHHHHHhc-------------------------------
Confidence            5899999999999998754     5777777777777777777766430                               


Q ss_pred             hhhhhhhhhccCccc-hhhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhcc
Q psy17022         76 DLVQGEFMQLGSKET-ENERFAHYLTKTYRKTASL-IANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFIS  153 (287)
Q Consensus        76 ~~~~GQ~~d~~~~~~-~~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~  153 (287)
                                  ..+ ..+++++|++|+.+|||+| |++||++|+++++.+++..  +.+||.++|++|||+||++|+++
T Consensus       154 ------------~~~~~~~~~~~y~~~i~~KTa~Ls~~~~~~~ga~lag~~~~~~--l~~~g~~lG~aFQi~DD~ld~~~  219 (330)
T 1wmw_A          154 ------------LGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGALLAGKTPPAA--YEEGGLRLGTAFQIVDDVLNLEG  219 (330)
T ss_dssp             ------------HSSSCCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTTCCCCHH--HHHHHHHHHHHHHHHHHHHHHSC
T ss_pred             ------------ccCCCCCCHHHHHHHHHccccHHHHHHHHHHHHHHcCCCHHHH--HHHHHHHHHHHHHHHHccCcccC
Confidence                        222 3578899999999999999 9999999999999876554  67777776666666666666655


Q ss_pred             CccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhh
Q psy17022        154 SSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKL  233 (287)
Q Consensus       154 ~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~  233 (287)
                      +                                                                 +. +|||+|+|+++
T Consensus       220 d-----------------------------------------------------------------~~-~GK~~g~Dl~e  233 (330)
T 1wmw_A          220 G-----------------------------------------------------------------EA-YGKERAGDLYE  233 (330)
T ss_dssp             S-----------------------------------------------------------------CC-CSSSTTHHHHH
T ss_pred             C-----------------------------------------------------------------cc-cCCCcCchhhC
Confidence            4                                                                 45 77888899999


Q ss_pred             CCChHHHHHhhhhCcc-chHHHHhhcC----C--chhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        234 GLATAPVLFACEKFPE-LNPMIMRRFQ----E--PGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       234 gk~Tlp~i~al~~~~~-~~~~l~~~~~----~--~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      ||+|||++++++..++ .++.+.....    +  ++++++++++++++|+++++++++++|
T Consensus       234 gK~T~p~i~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~g~~~~a~~~~~~~  294 (330)
T 1wmw_A          234 GKRTLILLRFLEEAPPEERARALALLALPREAKPEAEVGWLLERLLASRALAWAKAEAKRL  294 (330)
T ss_dssp             TCCCHHHHHHHHHSCHHHHHHHHHHHTSCGGGSCHHHHHHHHHHHHHSHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhCCHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            9999999999988753 3344433322    2  578999999999999999999998875

>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=99.98  E-value=3e-32  Score=247.41  Aligned_cols=175  Identities=16%  Similarity=0.207  Sum_probs=130.2

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+||||+++||+.+++.+++++++.+++++..+++||.+++.|+.+                                  
T Consensus        91 l~GD~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~GQ~~dl~~~~~----------------------------------  136 (301)
T 2q80_A           91 NSANYVYFLGLEKVLTLDHPDAVKLFTRQLLELHQGQGLDIYWRDN----------------------------------  136 (301)
T ss_dssp             HHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHHHHHHHHHHT----------------------------------
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHhccC----------------------------------
Confidence            5899999999999999988889998888888888888887744221                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                               ...+++++|++|+.+|||+||.++|++|+++++.++    .+.+||.++|++|||+||++|          
T Consensus       137 ---------~~~~~~~~y~~~i~~KTa~L~~~~~~~ga~~a~~~~----~l~~~g~~lG~aFQi~DD~ld----------  193 (301)
T 2q80_A          137 ---------YTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKE----DLKPLLNTLGLFFQIRDDYAN----------  193 (301)
T ss_dssp             ---------TCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCS----CCHHHHHHHHHHHHHHHHHHH----------
T ss_pred             ---------CCCCCHHHHHHHHHcccHHHHHHHHHHHHHHCCChH----HHHHHHHHHHHHHHHHHHHhh----------
Confidence                     124678999999999999999999999999988752    245555555555555555555          


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                             +++++..+|||.|+|+++||+|||+
T Consensus       194 -------------------------------------------------------~~~~~~~~GK~~g~Dl~egK~T~p~  218 (301)
T 2q80_A          194 -------------------------------------------------------LHSKEYSENKSFCEDLTEGKFSFPT  218 (301)
T ss_dssp             -------------------------------------------------------HHCC------CTTHHHHHTCCCHHH
T ss_pred             -------------------------------------------------------hcCChhhhCCCccchhhcCCcHHHH
Confidence                                                                   5555567889999999999999999


Q ss_pred             HHhhhhCcc---chHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPE---LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~---~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..++   +.+.+.....+++..++++++++++|+++++++++++|
T Consensus       219 i~al~~~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~g~~~~a~~~~~~~  268 (301)
T 2q80_A          219 IHAIWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKEL  268 (301)
T ss_dssp             HHHHHHSTTCCHHHHHHHHTCCCHHHHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred             HHHHHcCccchHHHHHHhcCCCCHHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            999997654   33334333333333344999999999999999999875

>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=99.97  E-value=5.9e-31  Score=244.96  Aligned_cols=190  Identities=12%  Similarity=0.071  Sum_probs=144.0

Q ss_pred             CchhHHHHHHHHHHhcC-----CChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhh
Q psy17022          1 MAGDFILAVACQMISRL-----RDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMT   75 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~-----~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~   75 (287)
                      ++||||++.||+++++.     .+.++++.+++++..++.||++++.+..+. .++..                      
T Consensus       126 l~Gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~~-~~~~~----------------------  182 (362)
T 1yhl_A          126 NDGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDS-NKLDP----------------------  182 (362)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHHHHHHHTTTBCG-GGCCT----------------------
T ss_pred             HHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHccccc-ccccc----------------------
Confidence            47999999999999987     446888888988888888888888765110 00000                      


Q ss_pred             hhhhhhhhhccCccch---hhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcC-CChHHHHHHHHHHHHHhHHHHhhhhhhh
Q psy17022         76 DLVQGEFMQLGSKETE---NERFAHYLTKTYRKTASL-IANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLD  150 (287)
Q Consensus        76 ~~~~GQ~~d~~~~~~~---~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~-~~~~~~~~l~~~g~~~G~afQi~dD~~d  150 (287)
                              ++...++.   .+++++|++|+.+|||+| |++||++|++++| .+++..+.+.+||.++|++|||+||++|
T Consensus       183 --------~~~~~~~~~~~~~~~~~y~~~~~~KTa~Ls~~~~~~~ga~lag~~~~~~~~~l~~~g~~lG~aFQi~DD~lD  254 (362)
T 1yhl_A          183 --------EVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMD  254 (362)
T ss_dssp             --------TSCCCBCSSCTTCSHHHHHHHHHHHTHHHHTHHHHHHHHHHTTCGGGSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --------ccccccccccccCCHHHHHHHHHhcCcHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                    00000011   478999999999999999 9999999999999 6766666677777777766666666666


Q ss_pred             hccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhh
Q psy17022        151 FISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD  230 (287)
Q Consensus       151 ~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~D  230 (287)
                      ++++                                                                 +..+|| +|+|
T Consensus       255 ~~~d-----------------------------------------------------------------~~~~GK-~g~D  268 (362)
T 1yhl_A          255 CFTP-----------------------------------------------------------------PEQLGK-VGTD  268 (362)
T ss_dssp             HHSC-----------------------------------------------------------------HHHHSS-CCCT
T ss_pred             ccCC-----------------------------------------------------------------hHHhCC-Chhh
Confidence            6554                                                                 456788 7899


Q ss_pred             HhhCCChHHHHHhhhhCcc-chHHHHhhcC--CchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        231 LKLGLATAPVLFACEKFPE-LNPMIMRRFQ--EPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       231 l~~gk~Tlp~i~al~~~~~-~~~~l~~~~~--~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++||+|||++++++..++ .++.+.+...  +++++++++++++++|+++++++++++|
T Consensus       269 l~egK~T~p~l~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~~~~~~~~~~~~  328 (362)
T 1yhl_A          269 IEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEAEV  328 (362)
T ss_dssp             TTTTCCCHHHHHHHTTCCHHHHHHHHHHTTCCCHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HhcCCchHHHHHHHHhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999999999998654 4455554432  4578999999999999999999888764

>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=99.96  E-value=8e-30  Score=237.86  Aligned_cols=182  Identities=14%  Similarity=0.101  Sum_probs=138.6

Q ss_pred             CchhHHHHHHHHHHhcC-----CChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhh
Q psy17022          1 MAGDFILAVACQMISRL-----RDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMT   75 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~-----~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~   75 (287)
                      ++||||++.||+++++.     ...++++++++++..++.||.+++.+..+...                          
T Consensus       151 ~~g~~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~~--------------------------  204 (374)
T 2qis_A          151 NDANLLEACIYRLLKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNV--------------------------  204 (374)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHSCTTCC--------------------------
T ss_pred             HHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHHHHHHHccccccc--------------------------
Confidence            36999999999999875     23466777777776666666666644322100                          


Q ss_pred             hhhhhhhhhccCccchhhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcC-CChHHHHHHHHHHHHHhHHHHhhhhhhhhcc
Q psy17022         76 DLVQGEFMQLGSKETENERFAHYLTKTYRKTASL-IANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFIS  153 (287)
Q Consensus        76 ~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~-~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~  153 (287)
                                   ....+++++|++|+.+|||+| |.+||.+|++++| ++++..+.+.+||.++|++|||+||++|+++
T Consensus       205 -------------d~~~~t~~~y~~i~~~KTa~Lsf~~~~~~ga~lag~a~~~~~~~l~~~g~~lG~aFQI~DDiLD~~g  271 (374)
T 2qis_A          205 -------------DLVRFTEKRYKSIVKYKSAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFG  271 (374)
T ss_dssp             -------------CGGGCCHHHHHHHHHHHTHHHHTHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             -------------ccccCCHHHHHHHHHcCccHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence                         001478899999999999999 9999999999999 8877777777777777777777777777665


Q ss_pred             CccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhh
Q psy17022        154 SSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKL  233 (287)
Q Consensus       154 ~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~  233 (287)
                      +                                                                 ++.+|| +|+|+++
T Consensus       272 d-----------------------------------------------------------------~~~~GK-~g~Dl~~  285 (374)
T 2qis_A          272 D-----------------------------------------------------------------PSVTGK-IGTDIQD  285 (374)
T ss_dssp             C-----------------------------------------------------------------HHHHCS-CCCTTTT
T ss_pred             C-----------------------------------------------------------------hhhcCC-chhHHHc
Confidence            4                                                                 456788 7899999


Q ss_pred             CCChHHHHHhhhhCcc-chHHHHhhcC--CchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        234 GLATAPVLFACEKFPE-LNPMIMRRFQ--EPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       234 gk~Tlp~i~al~~~~~-~~~~l~~~~~--~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      ||+|||++++++.+++ .++.+.....  +++++++++++++++|+.++++.++++|
T Consensus       286 gK~T~p~l~al~~a~~~~~~~l~~~~~~~~~~~~~~v~~li~~~g~~~~~~~~~~~~  342 (374)
T 2qis_A          286 NKCSWLVVQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDS  342 (374)
T ss_dssp             TCCCHHHHHHHHHCCHHHHHHHHHHTTCCCHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHhCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCcHHHHHHHHHHH
Confidence            9999999999998654 4555655543  3678999999999999999888877654

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

Probab=99.96  E-value=6.2e-30  Score=232.12  Aligned_cols=147  Identities=22%  Similarity=0.281  Sum_probs=105.7

Q ss_pred             hhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccC
Q psy17022         75 TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISS  154 (287)
Q Consensus        75 ~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~  154 (287)
                      .+|+.||++|+.+.++ .+++++|++|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|++++
T Consensus       148 ~~~~~GQ~~Dl~~~~~-~~~~~~y~~i~~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~d  226 (301)
T 1rtr_A          148 VGMVGGQMLDMQSEGQ-PIDLETLEMIHKTKTGALLTFAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGD  226 (301)
T ss_dssp             TTHHHHHHHHHHTTTS-CCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHccCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            5677777777777655 688999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhh--chhhHHHHHHHHhhhhccccCC
Q psy17022        155 SDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNL--GIAFQLVDDLLDFISSSDAMGK  225 (287)
Q Consensus       155 ~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~l--G~afQi~DDlld~~~~~~~~gK  225 (287)
                      ++.+||++++|+.+||.|+|++++++.+...+   .+..+.+.+....+  +..-+.+.++.+++.++..-|.
T Consensus       227 ~~~~GK~~g~Dl~~gK~T~p~l~al~~a~~~a---~~~~~~A~~~L~~l~~~~~~~~L~~l~~~i~~R~~~~~  296 (301)
T 1rtr_A          227 EAKLGKKVGSDLENNKSTYVSLLGKDGAEDKL---TYHRDAAVDELTQIDEQFNTKHLLEIVDLFYSRDHKGH  296 (301)
T ss_dssp             HCC-------------CCHHHHHHHHHHHHHH---HHHHHHHHHHHHTSCTTSCCHHHHHHHHHHHCC-----
T ss_pred             HHHhCCCcchHHHcCCCcHHHHHHHHHHHHHH---HHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHhhcccc
Confidence            99999999999999999999999988653332   23344444444444  3345677788888877665554

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

Probab=99.96  E-value=1.5e-29  Score=229.21  Aligned_cols=141  Identities=19%  Similarity=0.272  Sum_probs=101.3

Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhcc
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFIS  153 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~  153 (287)
                      ..+|+.||.+|+.++.. .+++++|.+|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|+++
T Consensus       155 ~~~~~~GQ~lDl~~~~~-~~t~~~y~~i~~~KTg~L~~~~~~~ga~laga~~~~~~~l~~~g~~lGlaFQI~DDilD~~~  233 (302)
T 3p8l_A          155 NQGMVSGQMGDIEGEKV-SLTLEELAAVHEKKTGALIEFALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATS  233 (302)
T ss_dssp             TTTHHHHHHHHHHTTTS-CCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHccCC-CCCHHHHHHHHHcCcHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            35778888888877654 67899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhh-----chhhHHHHHHHHhhh
Q psy17022        154 SSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNL-----GIAFQLVDDLLDFIS  218 (287)
Q Consensus       154 ~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~l-----G~afQi~DDlld~~~  218 (287)
                      +++.+||++++|+.+||.|+|++++++.+...+   .+..+.+.+....+     +..-+.+.++.+|+.
T Consensus       234 d~~~~GK~~g~Dl~egK~T~p~l~~l~~a~~~~---~~~~~~A~~~L~~~~~~~~~~~~~~L~~l~~~~~  300 (302)
T 3p8l_A          234 TEADLGKKVGRDEALNKSTYPALLGIAGAKDAL---THQLAEGSAVLEKIKANVPNFSEEHLANLLTQLQ  300 (302)
T ss_dssp             -----------------CCHHHHHCHHHHHHHH---HHHHHHHHHHHHHHHHHCSSCCHHHHHHHHHHTS
T ss_pred             CHHHhCCChhhHHhcCCCcHHHHHHHHHHHHHH---HHHHHHHHHHHHhcccccCChhHHHHHHHHHHHh
Confidence            999999999999999999999999998764332   23344444444455     555566777777654

>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=99.96  E-value=1.3e-29  Score=230.06  Aligned_cols=147  Identities=24%  Similarity=0.327  Sum_probs=110.9

Q ss_pred             hhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHHhHHHHhhhhhhhhcc
Q psy17022         75 TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGA-DDKLSEVAFEYGRNLGIAFQLVDDLLDFIS  153 (287)
Q Consensus        75 ~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~-~~~~~~~l~~~g~~~G~afQi~dD~~d~~~  153 (287)
                      .+|+.||.+|+.+.++ .+++++|++|+.+|||+||++||++|+++++. +++..+.+++||.++|++|||+||++|+++
T Consensus       152 ~~~~~GQ~lDl~~~~~-~~s~~~y~~i~~~KTg~L~~~~~~~ga~lag~~~~~~~~~l~~~g~~lGlaFQI~DDilD~~~  230 (304)
T 3lsn_A          152 AGMVGGQAIDLGSVGL-KLDQQALEYMHRHKTGALIEASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVES  230 (304)
T ss_dssp             TTHHHHHHHHHHTTTC-CCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHhHhHHHHHHccCC-CCCHHHHHHHHHhhhHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            4677888888877655 48899999999999999999999999999999 888899999999999999999999999999


Q ss_pred             CccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCC
Q psy17022        154 SSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  225 (287)
Q Consensus       154 ~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK  225 (287)
                      +++.+||++++|+.+||.|+|++++++.+...+   .+..+.+.+....++..-+.+.++.+|+.++..-|.
T Consensus       231 ~~~~~GK~~g~Dl~egK~T~p~l~~l~~a~~~a---~~~~~~A~~~L~~l~~~~~~L~~l~~~~~~R~~~~~  299 (304)
T 3lsn_A          231 DTATLGKRQGADIARDKPTYPALLGLAAAKEYA---LELRDQALHALRPFDAAAEPLRELARYIVERRSEGH  299 (304)
T ss_dssp             HHHHC------------CCHHHHHCHHHHHHHH---HHHHHHHHHHTTTSCGGGHHHHHHHHHHHC------
T ss_pred             ChHHhCCCcccHHhcCCccHHHHHHHHHHHHHH---HHHHHHHHHHHHhCchhHHHHHHHHHHHHHhccccc
Confidence            999999999999999999999999998764333   355566666666777667788888888877665443

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

Probab=99.96  E-value=3.5e-29  Score=228.02  Aligned_cols=143  Identities=26%  Similarity=0.380  Sum_probs=105.6

Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHhHHHHhhhhhhhhc
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  152 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~-~~~~~~~~l~~~g~~~G~afQi~dD~~d~~  152 (287)
                      ..+|+.||.+|+.+++. .+++++|++|+.+|||+||++||++|+++++ .+++..+.+++||.++|++|||+||++|++
T Consensus       150 ~~~m~~GQ~lDl~~~~~-~~t~~~y~~i~~~KTg~L~~~a~~~Ga~lag~a~~~~~~~l~~~g~~lGlAFQI~DDiLD~~  228 (317)
T 4f62_A          150 RNGMITGQMIDLSSENK-NISLAELEQMHVHKTGALIKASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLT  228 (317)
T ss_dssp             TTTHHHHHHHHHHTSSS-CCCHHHHHHHHHHHTHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             hhhHHHhHHHHHhccCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            35788888888887654 4889999999999999999999999999999 799999999999999999999999999999


Q ss_pred             cCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhc
Q psy17022        153 SSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS  220 (287)
Q Consensus       153 ~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~  220 (287)
                      ++++.+||++++|+.+||.|+|++++++.+...+   .+..+.+.+....++..-+.+.++.+|+.++
T Consensus       229 gd~~~~GK~~g~Dl~egK~T~p~l~gle~a~~~a---~~~~~~A~~~L~~l~~~~~~L~~l~~~~~~R  293 (317)
T 4f62_A          229 SDTETLGKTQFSDAEANKATYPKLLGLDGAKALV---VRLHEQAIAQISEFGDKSQPLTDLANYIIDR  293 (317)
T ss_dssp             ----------------CCCCHHHHHHHHHHHHHH---HHHHHHHHHHHGGGGGGGHHHHHHHHHHHC-
T ss_pred             CChHhhCCCcchHHhcCCCcHHHHHHHHHHHHHH---HHHHHHHHHHHHhCchhHHHHHHHHHHHHHh
Confidence            9999999999999999999999999998764433   3445555555666666667777888877654

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

Probab=99.96  E-value=2.7e-29  Score=229.42  Aligned_cols=144  Identities=23%  Similarity=0.319  Sum_probs=108.8

Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHhHHHHhhhhhhhhc
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  152 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~-~~~~~~~~l~~~g~~~G~afQi~dD~~d~~  152 (287)
                      ..+|+.||.+|+.++++ .+++++|++|+.+|||+||++||++|+++++ .+++..+.+++||.++|++|||+||++|++
T Consensus       157 ~~~m~~GQ~lDl~~~~~-~~t~~~y~~i~~~KTg~L~~~a~~~Ga~lag~a~~~~~~~l~~~g~~lGlAFQI~DDiLD~~  235 (324)
T 3ts7_A          157 PAGMVGGQAIDLASVGK-KLDLPGLENMHIRKTGALIRASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEE  235 (324)
T ss_dssp             TTTHHHHHHHHHHTTTC-CCCHHHHHHHHHHHTHHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhHHHHhHHHHHHccCC-CCCHHHHHHHHHhhHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            46788888888888765 7899999999999999999999999999999 899999999999999999999999999999


Q ss_pred             cCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhcc
Q psy17022        153 SSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSD  221 (287)
Q Consensus       153 ~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~  221 (287)
                      ++++.+||++++|+.+||.|+|++++++.+...+   .+..+.+......++..-+.+.++.+|+.++.
T Consensus       236 ~d~~~~GK~~g~Dl~egK~T~p~l~gle~a~~~a---~~~~~~A~~~L~~l~~~~~~L~~la~~~~~R~  301 (324)
T 3ts7_A          236 SDTQTLGKTRGKDRDHNKPNYPALLGLSGAKEKA---EEMHEAALESLAGFGPEADLLRELARFIIQRQ  301 (324)
T ss_dssp             CC---------------CCCHHHHHCHHHHHHHH---HHHHHHHHHTTTTCCGGGHHHHHHHHHHHHTS
T ss_pred             CCHHHhCCCccchhhcCCccHHHHHHHHHHHHHH---HHHHHHHHHHHHhCCccHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999998764333   34455566666666666677778888776543

>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=99.96  E-value=3.4e-29  Score=233.04  Aligned_cols=181  Identities=15%  Similarity=0.125  Sum_probs=137.4

Q ss_pred             chhHHHHHHHHHHhcC-----CChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhh
Q psy17022          2 AGDFILAVACQMISRL-----RDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTD   76 (287)
Q Consensus         2 ~GD~l~~~a~~~l~~~-----~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~   76 (287)
                      .|||+++.||+++++.     .+.++++++++++..++.||.+++.+..+..                            
T Consensus       145 dg~~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~----------------------------  196 (367)
T 1uby_A          145 DSFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSK----------------------------  196 (367)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHSCTTS----------------------------
T ss_pred             HHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHHhcccccc----------------------------
Confidence            3666778899999886     3356777777777777777777664433210                            


Q ss_pred             hhhhhhhhccCccchhhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcC-CChHHHHHHHHHHHHHhHHHHhhhhhhhhccC
Q psy17022         77 LVQGEFMQLGSKETENERFAHYLTKTYRKTASL-IANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISS  154 (287)
Q Consensus        77 ~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~-~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~  154 (287)
                                 .....+++++|++|+.+|||+| |.+||.+|++++| ++++..+.+++||.++|++|||+||++|++++
T Consensus       197 -----------~d~~~~t~~~y~~ii~~KTa~Lsf~~~~~~ga~lag~~~~~~~~~l~~~g~~lG~aFQI~DD~LD~~gd  265 (367)
T 1uby_A          197 -----------VDLSHFSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGD  265 (367)
T ss_dssp             -----------CCCTTCCHHHHHHHHHHHTHHHHTHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             -----------cccccCCHHHHHHHHHhCchHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence                       0001578899999999999999 9999999999999 78777777777777777777777777776655


Q ss_pred             ccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhC
Q psy17022        155 SDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLG  234 (287)
Q Consensus       155 ~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~g  234 (287)
                                                                                       ++.+|| +|+|+++|
T Consensus       266 -----------------------------------------------------------------~~~~GK-~g~Dl~eg  279 (367)
T 1uby_A          266 -----------------------------------------------------------------PALTGA-VGTDIQDN  279 (367)
T ss_dssp             -----------------------------------------------------------------TTCSSC-CCCCSSSC
T ss_pred             -----------------------------------------------------------------hhhcCC-chhhHHcC
Confidence                                                                             456778 78999999


Q ss_pred             CChHHHHHhhhhCc-cchHHHHhhcC--CchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        235 LATAPVLFACEKFP-ELNPMIMRRFQ--EPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       235 k~Tlp~i~al~~~~-~~~~~l~~~~~--~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      |+|||++++++.++ +.++.+.+...  +++++++++++++++|+.++++.++++|
T Consensus       280 K~T~p~l~al~~~~~~~~~~l~~~~~~~~~~~~~~v~~li~~~g~~~~~~~~~~~~  335 (367)
T 1uby_A          280 KCSWLVVQCLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESS  335 (367)
T ss_dssp             CCCHHHHHHHHHCCHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHhCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence            99999999999854 45556655543  3678999999999999888887877654

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

Probab=99.96  E-value=3.2e-29  Score=228.84  Aligned_cols=144  Identities=19%  Similarity=0.251  Sum_probs=106.1

Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhcc
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFIS  153 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~  153 (287)
                      ..+|+.||.+|+.+..+..+++++|.+|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|+++
T Consensus       179 ~~~m~~GQ~lDl~~~~~~~~t~~~y~~i~~~KTa~L~~~a~~~Ga~laga~~~~~~~l~~~g~~lGlAFQI~DDiLD~~g  258 (324)
T 3uca_A          179 SDGMIGGQIVDIINEDKEEISLKELDYMHLKKTGELIKASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVG  258 (324)
T ss_dssp             TTTHHHHHHHHHHTSSCSSCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HhHHHHhHHHHHHcCCCCCCCHHHHHHHHhcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            46788888889888777678999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhc
Q psy17022        154 SSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS  220 (287)
Q Consensus       154 ~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~  220 (287)
                      +++.+||++++|+.+||.|+|++++++.+...+   .+..+.+.+....++..-+.+.++.+|+.++
T Consensus       259 d~~~~GK~~g~Dl~egK~T~p~l~al~~a~~~a---~~~~~~A~~~L~~l~~~~~~L~~la~~i~~R  322 (324)
T 3uca_A          259 NAKDLGKNVHKDQESNKNNYITIFGLEECKKKC---VNITEECIEILSSIKGNTEPLKVLTMKLLER  322 (324)
T ss_dssp             C-----------------CHHHHHCHHHHHHHH---HHHHHHHHHHHHTSSSCCHHHHHHHHHHHHC
T ss_pred             CHHHhCCCcchHhhcCCccHHHHHHHHHHHHHH---HHHHHHHHHHHHhCCCcHHHHHHHHHHHHhc
Confidence            999999999999999999999999998764333   3444455555555555556777777776553

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

Probab=99.96  E-value=2.6e-29  Score=230.74  Aligned_cols=141  Identities=23%  Similarity=0.274  Sum_probs=98.6

Q ss_pred             hhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccC
Q psy17022         75 TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISS  154 (287)
Q Consensus        75 ~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~  154 (287)
                      .+|+.||++|+.++++ .+++++|++|+.+|||+||++|+++|++++|.+++..+.+.+||.++|++|||+||++|++++
T Consensus       192 ~~~~~GQ~lDl~~~~~-~~~~~~y~~i~~~KTa~L~~~a~~~Ga~laga~~~~~~~l~~~g~~lGlAFQI~DDiLD~~gd  270 (335)
T 2h8o_A          192 GGMAGGQALDLAAEKK-APDEDGIITLQAMKTGALLRFACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTAD  270 (335)
T ss_dssp             TSHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             hHHHHHHHHHHHccCC-CCCHHHHHHHHHhchHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            5667777777766554 678999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhh
Q psy17022        155 SDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISS  219 (287)
Q Consensus       155 ~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~  219 (287)
                      ++.+||++++|+.+||.|+|++++++.+...+   .+..+.+.+....++..-+.+.++.+++.+
T Consensus       271 ~~~~GK~~g~Dl~egK~T~p~l~~le~a~~~a---~~~~~~A~~~L~~l~~~~~~L~~l~~~i~~  332 (335)
T 2h8o_A          271 AATMGKATGKDAARGKGTLVALRGEAWAREKL---QEQVAEASELLAPYGEKAAILIAAARFIAE  332 (335)
T ss_dssp             ---------------CCCHHHHHCHHHHHHHH---HHHHHHHHHHTGGGGGGGHHHHHHHHHHHC
T ss_pred             HHHhCCCcchHHhcCCccHHHHHHHHHHHHHH---HHHHHHHHHHHHhCchhHHHHHHHHHHHHh
Confidence            99999999999999999999999987653332   233444444444454445566666666544

>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=99.96  E-value=4.2e-29  Score=233.94  Aligned_cols=188  Identities=14%  Similarity=0.119  Sum_probs=138.4

Q ss_pred             CchhHHHHHH--HHHHhcC-CC-h---HHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy17022          1 MAGDFILAVA--CQMISRL-RD-N---DVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAI   73 (287)
Q Consensus         1 l~GD~l~~~a--~~~l~~~-~~-~---~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~   73 (287)
                      ++||+|+..+  |+++++. .+ +   ++++++++++..++.||.+++.|......                        
T Consensus       152 l~gD~ll~~a~a~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~e~~~------------------------  207 (390)
T 3dyh_A          152 AINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNRVDYTTAVGQLYDVTSMFDSNK------------------------  207 (390)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHHHHHHHTTTSCGGG------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHhhcccccc------------------------
Confidence            4799999754  7888774 22 2   67788888887777777777765321100                        


Q ss_pred             hhhhhhhhhhhc--cCc---cchhhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcCCChHH-HHHHHHHHHHHhHHHHhhh
Q psy17022         74 MTDLVQGEFMQL--GSK---ETENERFAHYLTKTYRKTASL-IANCVKASAMLGGADDKL-SEVAFEYGRNLGIAFQLVD  146 (287)
Q Consensus        74 ~~~~~~GQ~~d~--~~~---~~~~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~~~~~~-~~~l~~~g~~~G~afQi~d  146 (287)
                               .|.  ...   ....+++++|++|+.+|||+| |.+||++|++++|.+++. .+.+++||.++|++|||+|
T Consensus       208 ---------~d~~~~~~~~~~~~~~t~~~y~~i~~~KTa~L~~~~~~~~ga~laga~~~~~~~~l~~~g~~lGlaFQI~D  278 (390)
T 3dyh_A          208 ---------LDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAMLMGEYFQVQD  278 (390)
T ss_dssp             ---------CCTTSCCCCCSSCTTCCHHHHHHHHHHHTHHHHTHHHHHHHHHHTTCGGGSCHHHHHHHHHHHHHHHHHHH
T ss_pred             ---------cccccccccccccCCCCHHHHHHHHHhhhhHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHHH
Confidence                     000  000   013578999999999999999 999999999999987654 5666666666666666666


Q ss_pred             hhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCC
Q psy17022        147 DLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKP  226 (287)
Q Consensus       147 D~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~  226 (287)
                      |++|+++                                                                 +++.+|| 
T Consensus       279 DiLD~~g-----------------------------------------------------------------d~~~~GK-  292 (390)
T 3dyh_A          279 DVMDCFT-----------------------------------------------------------------PPERLGK-  292 (390)
T ss_dssp             HHHHHHS-----------------------------------------------------------------CHHHHSS-
T ss_pred             HHHhhcC-----------------------------------------------------------------ChHHhCC-
Confidence            6666555                                                                 4456788 


Q ss_pred             chhhHhhCCChHHHHHhhhhC-ccchHHHHhhc--CCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        227 TAADLKLGLATAPVLFACEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       227 ~g~Dl~~gk~Tlp~i~al~~~-~~~~~~l~~~~--~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +|+|+++||+|||++++++.. ++.++.+...+  .+++++++++++++++|++++++.++++|
T Consensus       293 ~g~Dl~egK~T~pvi~al~~~~~~~r~~L~~~~~~~~~~~v~~v~~l~~~~g~~~~~~~~~~~~  356 (390)
T 3dyh_A          293 VGTDIQDAKCSWLAVTFLAKASSAQVAEFKANYGSGDSEKVATVRRLYEEADLQGDYVAYEAAV  356 (390)
T ss_dssp             CCCTTTTTCCCHHHHHHHHHCCHHHHHHHHTTTTCCCHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             CcchhhcCCccHHHHHHHHhCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCcHHHHHHHHHHH
Confidence            899999999999999999985 44555666544  36788999999999999999999988764

>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.50A {Vibrio cholerae} SCOP: a.128.1.1

Probab=99.96  E-value=3.2e-29  Score=227.30  Aligned_cols=142  Identities=21%  Similarity=0.352  Sum_probs=103.9

Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHhHHHHhhhhhhhhc
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  152 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~-~~~~~~~~l~~~g~~~G~afQi~dD~~d~~  152 (287)
                      ..+|+.||.+|+.+.+ ..+++++|++|+.+|||+||++||++|+++++ .+++..+.+++||.++|++|||+||++|++
T Consensus       157 ~~~~~~GQ~lDl~~~~-~~~s~~~y~~i~~~KTa~L~~~~~~~ga~lag~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~  235 (302)
T 3p8r_A          157 AQGMCLGQALDLAAEN-RLISLEELETIHRNKTGALMRCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDII  235 (302)
T ss_dssp             TTTHHHHHHHHHHTTT-SCCCHHHHHHHHHHHTHHHHHHHHHHHHHTTTHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HhHHHHhHHHHHHccC-CCCCHHHHHHHhccCcHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3578888888888764 46889999999999999999999999999999 788888999999999999999999999999


Q ss_pred             cCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhh
Q psy17022        153 SSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISS  219 (287)
Q Consensus       153 ~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~  219 (287)
                      ++++.+||++++|+.+||.|+|++++++.+...+   .+..+.+.+....++..-+.+.++.+|+.+
T Consensus       236 ~~~~~~GK~~g~Dl~egK~T~p~l~~l~~a~~~a---~~~~~~A~~~L~~l~~~~~~L~~l~~~~~~  299 (302)
T 3p8r_A          236 SDTETLGKPQGSDQELNKSTYPALLGLEGAQQKA---HTLLQEALLALEAIPYNTEHLEEFARYVVE  299 (302)
T ss_dssp             TC---------------CCCHHHHHHHHHHHHHH---HHHHHHHHHHHTTCSSCTHHHHHHHHHHHH
T ss_pred             CCHHHhCCCcchHHhcCCchHHHHHHHHHHHHHH---HHHHHHHHHHHHhCCccHHHHHHHHHHHHh
Confidence            9999999999999999999999999998764433   344455555555555555666666666654

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

Probab=99.96  E-value=3.3e-29  Score=228.09  Aligned_cols=145  Identities=19%  Similarity=0.288  Sum_probs=110.6

Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHhHHHHhhhhhhhh
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGG--ADDKLSEVAFEYGRNLGIAFQLVDDLLDF  151 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~--~~~~~~~~l~~~g~~~G~afQi~dD~~d~  151 (287)
                      ..+|+.||.+|+.++++..+++++|++|+.+|||+||++||++ +++++  .+++..+.+++||.++|++|||+||++|+
T Consensus       157 ~~~m~~GQ~lDl~~~~~~~~t~~~y~~i~~~KTg~L~~~a~~~-a~lag~~a~~~~~~~l~~~g~~lGlaFQI~DDilD~  235 (313)
T 3lom_A          157 ISGMVSGQSLDLSELAKSSVTEEQLREIHLLKTGKLILACFEM-VLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDL  235 (313)
T ss_dssp             TTTHHHHHHHHHHTTTSSCCCHHHHHHHHHHHTHHHHHHHHHH-HHTTCSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHhHHHHHHccCCCCCCHHHHHHHHHcCcHHHHHHHHHH-HHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3688889999998887768899999999999999999999999 99999  88999999999999999999999999999


Q ss_pred             ccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccc
Q psy17022        152 ISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA  222 (287)
Q Consensus       152 ~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~  222 (287)
                      +++++.+||++++|+.+||.|+|++++++.+...+   .+..+.+.+....++..-+.+.++.+|+.++..
T Consensus       236 ~gd~~~~GK~~g~Dl~~gK~T~p~l~~l~~a~~~a---~~~~~~A~~~L~~l~~~~~~L~~la~~~~~R~~  303 (313)
T 3lom_A          236 YAPTQILGKGRSSDQANQKTTFATLFNKQQLEEEI---AVHYQIAMDSLRLFGSKAAALIELTKQLQNRSN  303 (313)
T ss_dssp             HCC---------------CCCHHHHSCHHHHHHHH---HHHHHHHHHTTTTTGGGGHHHHHHHHHHHHHHH
T ss_pred             cCCHHhhCCCCcchhhcCCccHHHHHHHHHHHHHH---HHHHHHHHHHHHhCCccHHHHHHHHHHHHhccc
Confidence            99999999999999999999999999998764332   344555666666666666778888888876544

>3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative; HET: IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A*

Probab=99.96  E-value=3.6e-29  Score=227.16  Aligned_cols=144  Identities=26%  Similarity=0.334  Sum_probs=110.0

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHH-Hhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKA-IMTDLVQ   79 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~-~~~~~~~   79 (287)
                      |+||||++.||+++++.+.+.-...                                      .++....++ +..+|+.
T Consensus       118 laGD~Ll~~Af~~l~~~~~~~~~~~--------------------------------------~~~~~l~~a~g~~~m~~  159 (309)
T 3pde_A          118 LAGDGLLTLAFQWLTATDLPATMQA--------------------------------------ALVQALATAAGPSGMVA  159 (309)
T ss_dssp             HHHHHHHHHHHHHHTSSSCCHHHHH--------------------------------------HHHHHHHHHHSTTTHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCChHHHH--------------------------------------HHHHHHHHHhhHhHHHH
Confidence            5899999999999998754321100                                      001111122 2367888


Q ss_pred             hhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccC
Q psy17022         80 GEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMG  159 (287)
Q Consensus        80 GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~G  159 (287)
                      ||.+|+.+++. .+++++|+.|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|++++++.+|
T Consensus       160 GQ~lDl~~~~~-~~t~~~y~~i~~~KTg~L~~~a~~~ga~laga~~~~~~~l~~~g~~lGlaFQI~DDiLD~~gd~~~~G  238 (309)
T 3pde_A          160 GQAKDIQSEHV-NLPLSQLRVLHKEKTGALLHYAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMG  238 (309)
T ss_dssp             HHHHHHHTTTC-CCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCGGGHHHHHHHHHHHHHHHHHHHHHHHHHCC-----
T ss_pred             hHHHHHHccCC-CCCHHHHHHHHHhccHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhC
Confidence            88888887654 67899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccchhhhHhhhhhhhhHhhhhhhh
Q psy17022        160 KPTAADLKLGLATAPVLFACEKSA  183 (287)
Q Consensus       160 k~~~~Di~~~K~t~~~l~a~~~ga  183 (287)
                      |++++|+.+||.|+|++++++.+.
T Consensus       239 K~~g~Dl~egK~T~p~l~al~~a~  262 (309)
T 3pde_A          239 KATQKDADEAKNTYPGKLGLIGAN  262 (309)
T ss_dssp             ------CTTTSSSHHHHHCHHHHH
T ss_pred             CCccchhhcCCccHHHHHHHHHhH
Confidence            999999999999999999998753

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

Probab=99.96  E-value=4.6e-29  Score=225.67  Aligned_cols=177  Identities=23%  Similarity=0.270  Sum_probs=116.0

Q ss_pred             CchhHHHHHHHHHHhcCCC--h----HHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHh
Q psy17022          1 MAGDFILAVACQMISRLRD--N----DVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIM   74 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~--~----~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~   74 (287)
                      |+||||++.||+++++...  +    ++++.+++++                                          +.
T Consensus       109 laGD~Ll~~a~~~l~~~~~~~~~~~~~~~~~l~~~~------------------------------------------g~  146 (297)
T 3m0g_A          109 LAGDALQTLAFELCTDPVLGSAENRVALVAALAQAS------------------------------------------GA  146 (297)
T ss_dssp             HHHHHHHHHHHHHTTCGGGCCHHHHHHHHHHHHHHH------------------------------------------ST
T ss_pred             HHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH------------------------------------------hH
Confidence            5899999999999998752  1    2333333332                                          12


Q ss_pred             hhhhhhhhhhccCcc-chhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhcc
Q psy17022         75 TDLVQGEFMQLGSKE-TENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFIS  153 (287)
Q Consensus        75 ~~~~~GQ~~d~~~~~-~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~  153 (287)
                      .+|+.||.+|+.+.. ...+++++|++|+.+|||+||++||++|+++++.+++   .+++||.++|++|||+||++|+++
T Consensus       147 ~~~~~GQ~lDl~~~~~~~~~~~~~y~~i~~~KTg~L~~~~~~~ga~lag~~~~---~l~~~g~~lG~aFQI~DDilD~~~  223 (297)
T 3m0g_A          147 EGMVYGQALDIAAETAAVPLTLDEIIRLQAGKTGALISFAAQAGAILAGADRG---PLTAYATALGLAFQIADDILDVEG  223 (297)
T ss_dssp             TTHHHHHHHHHHHTTSSSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCCH---HHHHHHHHHHHHHHHHTTCC----
T ss_pred             hHHHHhHHHHHHhhhcCCCCCHHHHHHHHccchHHHHHHHHHHHHHHcCCCHH---HHHHHHHHHHHHHHHHHHHHhccC
Confidence            566666666666652 2367899999999999999999999999999998876   899999999999999999999999


Q ss_pred             CccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCC
Q psy17022        154 SSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  225 (287)
Q Consensus       154 ~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK  225 (287)
                      +++.+||++++|+.+||.|+|++++++.+...+   .+..+.+......++..-+.+.++.+|+.++..-|.
T Consensus       224 ~~~~~GK~~g~Dl~~gK~T~p~l~~l~~a~~~~---~~~~~~A~~~L~~~~~~~~~L~~l~~~~~~R~~~~~  292 (297)
T 3m0g_A          224 NEEAAGKRLGKDAEAHKATFVSLLGLAGAKSRA---ADLVAEAEAALAPYGEAASTLRACARYVIERDKEGH  292 (297)
T ss_dssp             -----------------CCHHHHHCSSHHHHHH---HHHHHHHHHHTGGGGGGGHHHHHHHHHHTC------
T ss_pred             CHHHhCCCccchhhcCCccHHHHHHHHHHHHHH---HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccc
Confidence            999999999999999999999999998764332   344555556666666666788888888877665443

>1rqj_A Geranyltranstransferase; bisphosphonate, isoprenyl synthase; HET: IPR RIS; 1.95A {Escherichia coli} SCOP: a.128.1.1 PDB: 1rqi_A* 2for_A*

Probab=99.96  E-value=7.4e-29  Score=225.01  Aligned_cols=108  Identities=27%  Similarity=0.462  Sum_probs=100.4

Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHh-cCCChHHHHHHHHHHHHHhHHHHhhhhhhhhc
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML-GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  152 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~l-a~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~  152 (287)
                      ..+|+.||++|+.+.++ .+++++|++|+.+|||+||++||++|+++ ++.+++..+.+.+||.++|++|||+||++|++
T Consensus       151 ~~~~~~GQ~~dl~~~~~-~~~~~~y~~i~~~KTa~L~~~~~~~ga~l~ag~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~  229 (299)
T 1rqj_A          151 IAGMCGGQALDLDAEGK-HVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVV  229 (299)
T ss_dssp             TTTHHHHHHHHHHTTTT-CCCHHHHHHHHHHHTHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHhHHHHHhccCC-CCCHHHHHHHHHhhhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            36788888888887665 68899999999999999999999999999 99888889999999999999999999999999


Q ss_pred             cCccccCccchhhhHhhhhhhhhHhhhhhh
Q psy17022        153 SSSDAMGKPTAADLKLGLATAPVLFACEKS  182 (287)
Q Consensus       153 ~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~g  182 (287)
                      ++++.+||++++|+.+||.|+|++++++.+
T Consensus       230 ~~~~~~GK~~g~Dl~~gK~T~p~l~~l~~a  259 (299)
T 1rqj_A          230 GDTATLGKRQGADQQLGKSTYPALLGLEQA  259 (299)
T ss_dssp             SCHHHHSSCTTHHHHHTCCCHHHHHCHHHH
T ss_pred             CCHHHhCCChhhHHHcCCCcHHHHHHHHHH
Confidence            999999999999999999999999998764

>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=99.95  E-value=1.3e-28  Score=231.46  Aligned_cols=193  Identities=16%  Similarity=0.154  Sum_probs=132.7

Q ss_pred             CchhHHH--HHHHHHHhcC-----CChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy17022          1 MAGDFIL--AVACQMISRL-----RDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAI   73 (287)
Q Consensus         1 l~GD~l~--~~a~~~l~~~-----~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~   73 (287)
                      |+|||||  +.+|.+++..     ...++++.+++++..+++||.+++.|..+...+.                      
T Consensus       151 l~GD~ll~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~~~~----------------------  208 (395)
T 3mav_A          151 AVNDVLLLYNSIYKLIEIYLRNESCYVDVIATFRDATLKTIIGQHLDTNIFSDKYSDA----------------------  208 (395)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHCC----------------------
T ss_pred             HhhhHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhH----------------------
Confidence            5799977  5567777653     2247888999999999999999987655432111                      


Q ss_pred             hhhhhhhhhhhccC--------ccchhhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcCCCh--HHHHHHHHHHHHHhHHH
Q psy17022         74 MTDLVQGEFMQLGS--------KETENERFAHYLTKTYRKTASL-IANCVKASAMLGGADD--KLSEVAFEYGRNLGIAF  142 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~--------~~~~~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~~~~--~~~~~l~~~g~~~G~af  142 (287)
                            .|.+++..        .....+++++|++|+.+|||+| |.+|+.+|+++++.+.  ...+.+++||.++|++|
T Consensus       209 ------~~~~~~~~~~~~e~~~~~~~~~t~~~Y~~ii~~KTa~L~~~~~~~~ga~~ag~~~d~~~~~~l~~~g~~lG~aF  282 (395)
T 3mav_A          209 ------HREIDVNNINVPEQPVIDINMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYF  282 (395)
T ss_dssp             -------CCCCSSCSSSCCCCCCCGGGCSHHHHHHHHHHHTHHHHTHHHHHHHHHHTTCCTTCTHHHHHHHHHHHHHHHH
T ss_pred             ------HHHhhhcccccchhcccccccCCHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHHH
Confidence                  11111111        1123679999999999999999 9999999999998742  23445555555555555


Q ss_pred             HhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccc
Q psy17022        143 QLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA  222 (287)
Q Consensus       143 Qi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~  222 (287)
                      ||+||+                                                                 +|++++++.
T Consensus       283 QI~DDi-----------------------------------------------------------------LD~~gd~~~  297 (395)
T 3mav_A          283 QIHDDY-----------------------------------------------------------------LDIFGDSTK  297 (395)
T ss_dssp             HHHHHH-----------------------------------------------------------------HHHC-----
T ss_pred             HHHHHH-----------------------------------------------------------------HHhcCCHhh
Confidence            555555                                                                 555555677


Q ss_pred             cCCCchhhHhhCCChHHHHHhhhhCc-cchHHHHhhc--CCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        223 MGKPTAADLKLGLATAPVLFACEKFP-ELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       223 ~gK~~g~Dl~~gk~Tlp~i~al~~~~-~~~~~l~~~~--~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +|| +|+|+++||+|||++++++.++ +.+..+....  .++++++.++++++++|+.+++++++++|
T Consensus       298 ~GK-~g~Dl~egK~T~p~i~al~~~~~~~r~~L~~~~~~~d~~~~~~v~~l~~~~g~~~~~~~~~~~~  364 (395)
T 3mav_A          298 TGK-VGSDIQNNKLTWPLIKTFELCSEPDKIKIVKNYGKNNLACVKVIDSLYEQYKIRKHYESYEKAQ  364 (395)
T ss_dssp             ----CCCTTTTTCCCHHHHHHHHHSCHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             hcc-cccHHhcCCchHHHHHHHHhCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCcHHHHHHHHHHH
Confidence            889 5999999999999999999864 4555565543  35677899999999999999999988764

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

Probab=99.95  E-value=5.3e-28  Score=219.93  Aligned_cols=142  Identities=16%  Similarity=0.213  Sum_probs=105.8

Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHH-HHHHHHHHHHhHHHHhhhhhhhhc
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLS-EVAFEYGRNLGIAFQLVDDLLDFI  152 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~-~~l~~~g~~~G~afQi~dD~~d~~  152 (287)
                      ..+|+.||.+|+.+++ ..+++++|++|+.+|||+||++||++|+++++.+++.. +.+++||.++|++|||+||++|++
T Consensus       158 ~~~m~~GQ~lDl~~~~-~~~t~~~y~~i~~~KTg~L~~~a~~lga~laga~~~~~~~~l~~~g~~lGlaFQI~DDiLD~~  236 (311)
T 3llw_A          158 IKGMILGQALDCYFEN-TPLNLEQLTFLHEHKTAKLISASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVT  236 (311)
T ss_dssp             TTTHHHHHHHHHHTTT-SCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHhcC-CCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4688888888888763 56889999999999999999999999999999999888 999999999999999999999999


Q ss_pred             cCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhh---hchh-hHHHHHHHHhhhhcc
Q psy17022        153 SSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRN---LGIA-FQLVDDLLDFISSSD  221 (287)
Q Consensus       153 ~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~---lG~a-fQi~DDlld~~~~~~  221 (287)
                      ++++.+||+.++  .+||.|+|++++++.+...   .++..+.+.+....   +|.. .+.+.++.+|+-+++
T Consensus       237 gd~~~~GK~~g~--~~gK~T~p~l~~l~~a~~~---~~~~~~~a~~~l~~~~~~~~~~~~~l~~l~~~~~~r~  304 (311)
T 3llw_A          237 QDEEESGKTTHL--DSAKNSFVNLLGLERANNY---AQTLKTEVLNDLDALKPAYPLLQENLNALLNTLFKGE  304 (311)
T ss_dssp             C---------------CCSCHHHHHCHHHHHHH---HHHHHHHHHHHHTTSTTTCHHHHHHHHHHHHHHHC--
T ss_pred             CChHHHCccccc--ccCcchHHHHHHHHHHHHH---HHHHHHHHHHHhhhccccCccHHHHHHHHHHHHHhcc
Confidence            999999999998  9999999999999876322   13334444444455   5655 567888888877654

>2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MLY; 1.90A {Thermotoga maritima}

Probab=99.95  E-value=5.1e-28  Score=217.56  Aligned_cols=134  Identities=25%  Similarity=0.330  Sum_probs=108.9

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+||||++.||+++++.++.++++.+++++..++.||.+++.+..                                   
T Consensus       114 l~GD~Ll~~a~~~l~~~~~~~~~~~l~~~~~~~~~GQ~ldl~~~~-----------------------------------  158 (284)
T 2ftz_A          114 LAGDGLFFLAFSQISXIGNSXIFEEFSETAYXLLLGEAMDVEFER-----------------------------------  158 (284)
T ss_dssp             HHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHH-----------------------------------
T ss_pred             HHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHhhhhHHHHHhcc-----------------------------------
Confidence            589999999999999997778888888888888888888764322                                   


Q ss_pred             hhhhccCccch-hhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccC
Q psy17022         81 EFMQLGSKETE-NERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMG  159 (287)
Q Consensus        81 Q~~d~~~~~~~-~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~G  159 (287)
                               +. .+++++|++|+.+|||+||++||++|+++++.+++   .+.+||.++|++|||+||++|++++++.+|
T Consensus       159 ---------~~~~~~~~~y~~i~~~KTa~L~~~~~~~ga~lag~~~~---~l~~~g~~lG~aFQI~DD~lD~~~d~~~~G  226 (284)
T 2ftz_A          159 ---------RXMEVSQEMVERMYAFXTGALFAFCFSAPFILXGXDHT---XMXLLGEXFGVAFQIYDDLXDILGSFEKVG  226 (284)
T ss_dssp             ---------SCCCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCCH---HHHHHHHHHHHHHHHHHHHHHHHHHCCCC-
T ss_pred             ---------CcCCCCHHHHHHHHHhhhHHHHHHHHHHHHHHhCCChh---HHHHHHHHHHHHHHHHHhhhhhcCCHHhhC
Confidence                     22 46889999999999999999999999999998777   899999999999999999999999999999


Q ss_pred             ccchhhhHhhhhhhhhHhhhhhhh
Q psy17022        160 KPTAADLKLGLATAPVLFACEKSA  183 (287)
Q Consensus       160 k~~~~Di~~~K~t~~~l~a~~~ga  183 (287)
                      |++++|+.  |.|+|++++++.+.
T Consensus       227 K~~g~Dl~--K~T~p~l~~l~~a~  248 (284)
T 2ftz_A          227 KDLGKDTE--XVTLVXXVGIQXAR  248 (284)
T ss_dssp             ------------CHHHHHCHHHHH
T ss_pred             CCcchhcc--ccchHHHHHHHHHH
Confidence            99999999  99999999987653

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

Probab=99.95  E-value=2.4e-27  Score=213.75  Aligned_cols=138  Identities=22%  Similarity=0.290  Sum_probs=97.7

Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhcc
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFIS  153 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~  153 (287)
                      ..+|+.||.+|+.++. ..+++++|..|+++|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|+++
T Consensus       144 ~~~~~~GQ~lDl~~~~-~~~~~~~y~~i~~~KTg~L~~~a~~~ga~laga~~~~~~~l~~~g~~lGlaFQI~DDiLD~~g  222 (291)
T 3npk_A          144 LNGMVIGQAIDCFFED-KRLSLNELEFLHTHKTARLIAAALKMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTT  222 (291)
T ss_dssp             TTTHHHHHHHHHHTTT-SCCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhccC-CCCCHHHHHHHHHcccHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            5678888888888765 357899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchh-hHHHHHHHHhh
Q psy17022        154 SSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIA-FQLVDDLLDFI  217 (287)
Q Consensus       154 ~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~a-fQi~DDlld~~  217 (287)
                      +++.+||+.+.|  +||.|+|++++++.+...   ..+..+.+......+|.. -+.+.++.+++
T Consensus       223 d~~~~GK~~~~d--~gK~T~p~l~~l~~a~~~---~~~~~~~a~~~l~~~~~~~~~~l~~la~~~  282 (291)
T 3npk_A          223 SQEQSGKPTNND--IHKNSFVNLLGLEQAIKT---KENLLNECEQDLEKLNEKLAQMIQNLIIQY  282 (291)
T ss_dssp             -----------------CCHHHHHCHHHHHHH---HHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             ChHHHCCccchh--cCcchHHHHHHHHHhHHH---HHHHHHHHHHHHHHhchhHHHHHHHHHHHH
Confidence            999999999887  999999999999876321   233444444444555544 44455555544

>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=99.93  E-value=2.1e-26  Score=214.45  Aligned_cols=166  Identities=14%  Similarity=0.065  Sum_probs=112.2

Q ss_pred             CchhHHHHHHHHHHhcCCCh-------HHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy17022          1 MAGDFILAVACQMISRLRDN-------DVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAI   73 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~-------~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~   73 (287)
                      |+||||++.||++++++.+.       +++++++++                                            
T Consensus       141 l~Gd~L~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~--------------------------------------------  176 (368)
T 2q58_A          141 NDIFFLKMLSLSLIFELSSVFGNDIVMKIQKIYNES--------------------------------------------  176 (368)
T ss_dssp             HHHHHHHHHHHHHHTTTHHHHCHHHHHHHHHHHHHH--------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHhccccChHHHHHHHHHHHHH--------------------------------------------
Confidence            57999999999999887542       223333333                                            


Q ss_pred             hhhhhhhhhhhccCcc--chhhhHHHHHHHhhhhHHHH-HHHHHHHHHHhcCC--ChHHHHHHHHHHHHHhHHHHhhhhh
Q psy17022         74 MTDLVQGEFMQLGSKE--TENERFAHYLTKTYRKTASL-IANCVKASAMLGGA--DDKLSEVAFEYGRNLGIAFQLVDDL  148 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~--~~~~~~~~y~~~~~~KTg~L-~~~~~~~g~~la~~--~~~~~~~l~~~g~~~G~afQi~dD~  148 (287)
                      ..+++.||.+|+.+..  ..+.++++|++|+.+|||+| |.+|+.+|+++++.  +++..+.+++||.++|++|||+||+
T Consensus       177 ~~~~~~GQ~lDl~~~~~~~~~~~~e~y~~ii~~KTa~l~~~~~~~~g~~~ag~~~~~~~~~~l~~~g~~lG~aFQI~DDi  256 (368)
T 2q58_A          177 IFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDV  256 (368)
T ss_dssp             HHHHHHHHHHHHCSCCCSSCSSHHHHHHHHHHHHTHHHHTHHHHHHHHHHSCCCCCCSSTTTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhHHHHHHhhhcccCCchHHHHHHHHHHHhccccchHHHHHHHHHhCcccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666666543  33678899999999999999 89999999999874  4444445555555555555555555


Q ss_pred             hhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCch
Q psy17022        149 LDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA  228 (287)
Q Consensus       149 ~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g  228 (287)
                      +|                                                                 +++     |||+|
T Consensus       257 LD-----------------------------------------------------------------~~~-----gK~~g  266 (368)
T 2q58_A          257 SD-----------------------------------------------------------------YLF-----NDSNA  266 (368)
T ss_dssp             HH-----------------------------------------------------------------HHS-----CCCSS
T ss_pred             hh-----------------------------------------------------------------ccc-----CCCCC
Confidence            55                                                                 432     78889


Q ss_pred             hhHhhCCChHHHHHhhhhCc-cchHHHHhhcCCchhHHHHHHHHHhcChHHHHHH
Q psy17022        229 ADLKLGLATAPVLFACEKFP-ELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKF  282 (287)
Q Consensus       229 ~Dl~~gk~Tlp~i~al~~~~-~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~  282 (287)
                      +|+++||+|||++++++.++ +.+..+...+...  ...+.+++...+..+.+.+
T Consensus       267 ~Dl~egK~T~p~i~al~~~~~~~r~~L~~~~~~~--~~~vk~l~~~l~~~~~~~e  319 (368)
T 2q58_A          267 DDICRFKLTWPLQKSFEIADEEMKLKISENYGKN--SSLVKDCYNLLKINEHYLE  319 (368)
T ss_dssp             CTTTSCCCCHHHHSSTTTCCHHHHHHHHHHTTTC--HHHHHHHHHHTTHHHHHHH
T ss_pred             chHhcCCcHHHHHHHHHhCCHHHHHHHHHHhCCC--HHHHHHHHHHHhhHHHHHH
Confidence            99999999999999999864 4556666555432  2334444554554444333

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

Probab=99.93  E-value=1.4e-25  Score=202.66  Aligned_cols=129  Identities=29%  Similarity=0.513  Sum_probs=101.9

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+||||+++||+++++.+ +++++.+++++..++.||.+++.+..+                                  
T Consensus       108 laGD~Ll~~a~~ll~~~~-~~~~~~~~~~~~~~~~GQ~~dl~~~~~----------------------------------  152 (295)
T 3ipi_A          108 LCGDYLIAKSIAFISPYG-EKVIQDFGKAGMDMAEGEVLDLKLEDE----------------------------------  152 (295)
T ss_dssp             HHHHHHHHHHHHHHGGGC-HHHHHHHHHHHHHHHHHHHHHHC--------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHch-HHHHHHHHHHHHHHHccchHHHHccCC----------------------------------
Confidence            589999999999999874 577777777777777777776654322                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                 .+++++|++|+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||++|+++++.  | 
T Consensus       153 -----------~~t~~~y~~~i~~KTg~L~~~a~~~ga~lag~~~~~~~~l~~~g~~lGlaFQI~DDilD~~~~~~--g-  218 (295)
T 3ipi_A          153 -----------SFGENDYFKCIYKKTASLFAISASIGAYTGGAEEELAERFSHFGNALGTAYQIVDDILEFLEVVE--G-  218 (295)
T ss_dssp             --------------CHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--C-
T ss_pred             -----------CCCHHHHHHHHHhhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcc--C-
Confidence                       25668999999999999999999999999999999999999999999999999999999998763  4 


Q ss_pred             cchhhhHhhhhhhhhHhhhhh
Q psy17022        161 PTAADLKLGLATAPVLFACEK  181 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~  181 (287)
                         +|+.+||.|+|++++++.
T Consensus       219 ---kd~~~gk~Tlp~l~al~~  236 (295)
T 3ipi_A          219 ---KESKFTSETLPHIYMKST  236 (295)
T ss_dssp             ----------CCHHHHHTTTS
T ss_pred             ---CCcccCcccHHHHHHHhc
Confidence               567899999999998653

>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=99.91  E-value=9.7e-24  Score=190.78  Aligned_cols=128  Identities=28%  Similarity=0.380  Sum_probs=95.4

Q ss_pred             hhhhhhhhhhhccCccc--hhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhh
Q psy17022         74 MTDLVQGEFMQLGSKET--ENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  151 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~--~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~  151 (287)
                      ..+|+.||.+|+.+.+.  ..+++++|..|+.+|||+||++||++|++++|.+++..+.+++||.++|++|||+||++|+
T Consensus       159 ~~~~~~GQ~~Dl~~~~~~~~~~~~~~y~~i~~~KTa~L~~~a~~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DDiLD~  238 (293)
T 2j1p_A          159 TEGLVAGQVVDISSEGLDLNNVGLEHLKFIHLHKTAALLEASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDV  238 (293)
T ss_dssp             TTTHHHHHHHTTC---CCHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHccCCCCCCCHHHHHHHHHcccHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            36788888888887665  5688999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhc-hhhHHHHHHHHhhh
Q psy17022        152 ISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLG-IAFQLVDDLLDFIS  218 (287)
Q Consensus       152 ~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG-~afQi~DDlld~~~  218 (287)
                      ++++              |.|+|++++++.+...+   ++..+.+.+....++ ..-+.+.++.+++.
T Consensus       239 ~~~~--------------K~T~p~l~gle~a~~~a---~~~~~~A~~~L~~l~~~~~~~L~~l~~~~~  289 (293)
T 2j1p_A          239 TKSS--------------KLTYPKLMGLEKSREFA---EKLNTEARDQLLGFDSDKVAPLLALANYIA  289 (293)
T ss_dssp             HC----------------CCCHHHHHHHHHHHHHH---HHHHHHHHHHTTTSCTTTTHHHHHHHHHHH
T ss_pred             cCCc--------------cccHHHHHHHHHHHHHH---HHHHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            9875              89999999887653332   233333333333332 12344445555543

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

Probab=99.89  E-value=3.7e-23  Score=186.44  Aligned_cols=117  Identities=18%  Similarity=0.291  Sum_probs=102.1

Q ss_pred             CchhHHHHHHHHHH-hcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhh
Q psy17022          1 MAGDFILAVACQMI-SRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQ   79 (287)
Q Consensus         1 l~GD~l~~~a~~~l-~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~   79 (287)
                      |+||||++.||+++ ++.+ +.+++.+++++..+++||.+++.+                                    
T Consensus       115 laGD~Ll~~a~~~l~~~~~-~~~~~~~~~~~~~~~~GQ~~dl~~------------------------------------  157 (289)
T 2azj_A          115 FITNYLIPTALRIIQTSYG-DDALNTSIELWKDTSVGALRDMYD------------------------------------  157 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-HHHHHHHHHHHHHHHHHHHHTTTT------------------------------------
T ss_pred             HHHHHHHHHHHHHHHhcCc-HHHHHHHHHHHHHHHHHHHHHHhh------------------------------------
Confidence            58999999999999 8875 467777777777777777666532                                    


Q ss_pred             hhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccC
Q psy17022         80 GEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMG  159 (287)
Q Consensus        80 GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~G  159 (287)
                                     +++|++|+.+|||+||++||++|++++ .+++..+.+++||.++|++|||+||++|++++    |
T Consensus       158 ---------------~~~y~~~i~~KTa~L~~~a~~~ga~la-~~~~~~~~l~~~g~~lG~aFQi~DDilD~~~~----~  217 (289)
T 2azj_A          158 ---------------NSDYIRTIELKTGSLFKLSTVLSAYAS-KHYNTKQQMLDVGKYLGIIYQVIDDFVDYKTK----K  217 (289)
T ss_dssp             ---------------TSCHHHHHHHHTHHHHHHHHHHHHHHT-TCGGGHHHHHHHHHHHHHHHHHHHHHHHHTTS----C
T ss_pred             ---------------HHHHHHHHHcchHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHHHHHHhhhhhcCC----C
Confidence                           357999999999999999999999999 98899999999999999999999999999986    4


Q ss_pred             ccchhhhHhhhhhhhhHh
Q psy17022        160 KPTAADLKLGLATAPVLF  177 (287)
Q Consensus       160 k~~~~Di~~~K~t~~~l~  177 (287)
                      |+   |+.+||.|+|.++
T Consensus       218 K~---dl~~gk~Tlp~l~  232 (289)
T 2azj_A          218 VE---EIDGSAKQLFKYY  232 (289)
T ss_dssp             TT---TCCTTGGGGHHHH
T ss_pred             Ch---hhhcCcccHHHHH
Confidence            65   7899999999998

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

Probab=99.87  E-value=1.3e-22  Score=181.69  Aligned_cols=138  Identities=24%  Similarity=0.325  Sum_probs=103.9

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+||||++.||+.++++++ ++++.+++++..++.||.+++.|..+                                  
T Consensus       114 laGD~Ll~~A~~~l~~~~~-~~~~~ls~~~~~~~~GQ~lDl~~~~~----------------------------------  158 (285)
T 4fp4_A          114 VASDWLIAESIKMAVNLGA-DVVTYLADVAQRLSVGQALDLEGERD----------------------------------  158 (285)
T ss_dssp             HHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHHHHHHTTCHH----------------------------------
T ss_pred             HHHHHHHHHHHHHHHHhhH-HHHHHHHHHHHHHHHhHHHHHhcccc----------------------------------
Confidence            5899999999999999865 88888888777777777776644221                                  


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                .         |+.+|||+||++||++|+++++.+ +..+.+++||.++|++|||+||++|+.++++ .||
T Consensus       159 ----------~---------~i~~KTg~Lf~~a~~lGa~lag~~-~~~~~l~~~G~~lGlAFQI~DDiLD~~~d~~-~~k  217 (285)
T 4fp4_A          159 ----------K---------AAEFKTAPLIEAALVMPLVILGRR-ELIETAKKLGTKLGILYQYSDDYSDENVERP-ETK  217 (285)
T ss_dssp             ----------H---------HHHHHTHHHHHHHHHHHHHHHTCG-GGHHHHHHHHHHHHHHTTCC---------CH-HHH
T ss_pred             ----------c---------hhhcCcHHHHHHHHHHHHHHcCCh-HHHHHHHHHHHHHHHHHHHHHHHhccCCCcc-ccC
Confidence                      0         889999999999999999999999 8889999999999999999999999998765 689


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhc
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS  220 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~  220 (287)
                      ++++||+++                          +..+....|..+.-+..+.|+.-+.
T Consensus       218 ~~g~DI~e~--------------------------l~~~~~~~~~~~~~~~~~~~~~~~~  251 (285)
T 4fp4_A          218 SIANEIGRY--------------------------LLKIKEHVGDAIAPFERLIKYLIGK  251 (285)
T ss_dssp             HHHHHHHHH--------------------------HHHHHHHHGGGGHHHHHHHHHHHHH
T ss_pred             ccHHHHHHH--------------------------HHHHHHHhcchhhhHHHHHHHHHHH
Confidence            999998866                          3334445566666677777776543

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

Probab=99.80  E-value=1.6e-19  Score=163.49  Aligned_cols=144  Identities=17%  Similarity=0.188  Sum_probs=92.9

Q ss_pred             HHHHHHHHHHhcCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCC
Q psy17022        110 IANCVKASAMLGGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGA  188 (287)
Q Consensus       110 ~~~~~~~g~~la~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~  188 (287)
                      +..++...+.. +.++ ...+.+..++..+|..--+...++|+..............+..+|++.++..+|+.|++++++
T Consensus       125 l~~A~~~l~~~-~~~~~~~~~~~~~l~~a~g~~~~~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~~~~~ga~laga  203 (302)
T 3p8l_A          125 LTGAFQLLSLS-QLGLSEKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELAAVHEKKTGALIEFALIAGGVLANQ  203 (302)
T ss_dssp             HHHHHHHHHTS-SCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhc-CCChHHHHHHHHHHHHHhhhhHHHHHHHHHHHccCCCCCHHHHHHHHHcCcHHHHHHHHHHHHHHcCC
Confidence            45555544432 2233 334667777777654333334444444433223334456678999999999999999999999


Q ss_pred             ChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchHHH
Q psy17022        189 DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMI  254 (287)
Q Consensus       189 ~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~~l  254 (287)
                      +++..+.+.+||.++|++|||+||++|+++++..+|||+|+|+++||+|||++++++.+.+..+.+
T Consensus       204 ~~~~~~~l~~~g~~lGlaFQI~DDilD~~~d~~~~GK~~g~Dl~egK~T~p~l~~l~~a~~~~~~~  269 (302)
T 3p8l_A          204 TEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTYPALLGIAGAKDALTHQ  269 (302)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-----------------CCHHHHHCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCChhhHHhcCCCcHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999876544443

>3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative; HET: IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A*

Probab=99.80  E-value=9.4e-20  Score=165.28  Aligned_cols=128  Identities=20%  Similarity=0.198  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchh
Q psy17022        127 LSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIA  206 (287)
Q Consensus       127 ~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~a  206 (287)
                      ..+.+..++..+|..--+...++|+..............+..+|++.++..+|+.|+++++++++..+.+.+||.++|++
T Consensus       141 ~~~~~~~l~~a~g~~~m~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~a~~~ga~laga~~~~~~~l~~~g~~lGla  220 (309)
T 3pde_A          141 QAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHKEKTGALLHYAVQAGLILGQAPEAQWPAYLQFADAFGLA  220 (309)
T ss_dssp             HHHHHHHHHHHHSTTTHHHHHHHHHHTTTCCCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHhHHHHhHHHHHHccCCCCCHHHHHHHHHhccHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            34667777777654333444445554443333344566788999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchHHH
Q psy17022        207 FQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMI  254 (287)
Q Consensus       207 fQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~~l  254 (287)
                      |||+||++|+++++..+|||+|+|+++||+|||++++++.+.+..+.+
T Consensus       221 FQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~p~l~al~~a~~~~~~~  268 (309)
T 3pde_A          221 FQIYDDILDVVSSPAEMGKATQKDADEAKNTYPGKLGLIGANQALIDT  268 (309)
T ss_dssp             HHHHHHHHHHHCC-----------CTTTSSSHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCHHHhCCCccchhhcCCccHHHHHHHHHhHHHHHHH
Confidence            999999999999999999999999999999999999999876544443

>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=99.80  E-value=2.1e-19  Score=160.78  Aligned_cols=111  Identities=15%  Similarity=0.155  Sum_probs=90.0

Q ss_pred             CchhHHHHHHHHHHhcCCChH---HHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHH-Hhhh
Q psy17022          1 MAGDFILAVACQMISRLRDND---VTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKA-IMTD   76 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~---~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~-~~~~   76 (287)
                      |+||||++.||+++++..++.   ....+.                                    .++....++ +..+
T Consensus       107 laGD~Ll~~Af~~l~~~~~~~~~~~~~~~~------------------------------------~~~~~l~~a~G~~~  150 (274)
T 3kra_B          107 LTGDGIVPFGFELLAGSVDPARTDDPDRIL------------------------------------RVIIEISRAGGPEG  150 (274)
T ss_dssp             HHHHHHHHHHHHHHHHTCCTTCTTHHHHHH------------------------------------HHHHHHHHHTSTTT
T ss_pred             HHHHHHHHHHHHHHHhcCCccccccHHHHH------------------------------------HHHHHHHHHHhHHH
Confidence            589999999999999987641   000000                                    012222222 2368


Q ss_pred             hhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhh
Q psy17022         77 LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDL  148 (287)
Q Consensus        77 ~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~  148 (287)
                      |+.||++|+.+..+ .+++++|++|+.+|||+||++||++|+++++++++.++.+++||.++|++|||+||.
T Consensus       151 ~~~GQ~lDl~~~~~-~~t~~~y~~~i~~KTa~L~~~a~~lGailaga~~~~~~~l~~~G~~lG~aFQI~DD~  221 (274)
T 3kra_B          151 MISGLHREEEIVDG-NTSLDFIEYVCKKKYGEMHACGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMK  221 (274)
T ss_dssp             HHHHHHHHTTCCTT-SSCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHhHHHHHhccCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            89999999998766 689999999999999999999999999999999999999999999999999999998

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

Probab=99.80  E-value=2.1e-19  Score=163.49  Aligned_cols=142  Identities=18%  Similarity=0.207  Sum_probs=93.1

Q ss_pred             HHHHHHHHHHhcCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccC-
Q psy17022        110 IANCVKASAMLGGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGG-  187 (287)
Q Consensus       110 ~~~~~~~g~~la~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~-  187 (287)
                      +..++.+.+...+.++ ...+.+..++..+|...-+...++|+..............+..+|++.++..+|+.|+++++ 
T Consensus       119 l~~Af~~l~~~~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~a~~~Ga~lag~  198 (317)
T 4f62_A          119 QTFAFELLSNPTSAQPELAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHVHKTGALIKASVRMGALSTGQ  198 (317)
T ss_dssp             HHHHHHHHTCTTCCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTSSSCCCHHHHHHHHHHHTHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhhhHHHhHHHHHhccCCCCCHHHHHHHHHhchHHHHHHHHHHHHHHcCC
Confidence            4444444433322233 24567778887776433334444444443323344556778899999999999999999999 


Q ss_pred             CChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccch
Q psy17022        188 ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELN  251 (287)
Q Consensus       188 ~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~  251 (287)
                      ++++..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||+|||++++++.+.+..
T Consensus       199 a~~~~~~~l~~~g~~lGlAFQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~p~l~gle~a~~~a  262 (317)
T 4f62_A          199 VKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPKLLGLDGAKALV  262 (317)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHTC----------------CCCCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHhhCCCcchHHhcCCCcHHHHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999999999999999999999999865533

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

Probab=99.79  E-value=2.4e-19  Score=163.64  Aligned_cols=144  Identities=17%  Similarity=0.174  Sum_probs=99.1

Q ss_pred             HHHHHHHHHHHhc--CCChH-HHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhc
Q psy17022        109 LIANCVKASAMLG--GADDK-LSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAML  185 (287)
Q Consensus       109 L~~~~~~~g~~la--~~~~~-~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~l  185 (287)
                      |+..++.+.+...  +.+++ ..+.+..++...|+.--+...++|+..............+..+|++.++..+|+.|+++
T Consensus       123 L~~~Af~~l~~~~~~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~a~~~Ga~l  202 (324)
T 3ts7_A          123 LQALAFHVLAQDPSIAVPAENRIAMIETLAKASGPAGMVGGQAIDLASVGKKLDLPGLENMHIRKTGALIRASVRLACLA  202 (324)
T ss_dssp             HHHHHHHHHHHCTTSCCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTCCCCHHHHHHHHHHHTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccccCCCHHHHHHHHHHHHHHHhhhHHHHhHHHHHHccCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            3566666666553  33343 45677777777665444455555555543333445566789999999999999999999


Q ss_pred             cC-CChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchH
Q psy17022        186 GG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNP  252 (287)
Q Consensus       186 a~-~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~  252 (287)
                      ++ ++++..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||.|||++++++.+.+..+
T Consensus       203 ag~a~~~~~~~l~~~g~~lGlAFQI~DDiLD~~~d~~~~GK~~g~Dl~egK~T~p~l~gle~a~~~a~  270 (324)
T 3ts7_A          203 RPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNKPNYPALLGLSGAKEKAE  270 (324)
T ss_dssp             STTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTCC---------------CCCHHHHHCHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCCccchhhcCCccHHHHHHHHHHHHHHH
Confidence            99 89999999999999999999999999999999999999999999999999999999998755433

>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=99.79  E-value=2.6e-19  Score=162.33  Aligned_cols=143  Identities=19%  Similarity=0.177  Sum_probs=97.9

Q ss_pred             HHHHHHHHHHhc--CCChH-HHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhcc
Q psy17022        110 IANCVKASAMLG--GADDK-LSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLG  186 (287)
Q Consensus       110 ~~~~~~~g~~la--~~~~~-~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la  186 (287)
                      +..++.+.+...  +.+++ ..+.+..++..+|...-+...++|+..............+..+|++.++..+|+.|++++
T Consensus       118 l~~a~~~l~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~GQ~lDl~~~~~~~s~~~y~~i~~~KTg~L~~~~~~~ga~la  197 (304)
T 3lsn_A          118 QSLAFSALLDPALSDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLGSVGLKLDQQALEYMHRHKTGALIEASVILGALAS  197 (304)
T ss_dssp             HHHHHHHHHCTTSCCCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTCCCCHHHHHHHHHHHTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccCCChHHHHHHHHHHHHHHchhhHhHhHHHHHHccCCCCCHHHHHHHHHhhhHHHHHHHHHHHHHHc
Confidence            555555544433  22333 456677777776543333444444444332333445667899999999999999999999


Q ss_pred             CC-ChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchH
Q psy17022        187 GA-DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNP  252 (287)
Q Consensus       187 ~~-~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~  252 (287)
                      ++ +++..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||+|||++++++.+.+..+
T Consensus       198 g~~~~~~~~~l~~~g~~lGlaFQI~DDilD~~~~~~~~GK~~g~Dl~egK~T~p~l~~l~~a~~~a~  264 (304)
T 3lsn_A          198 GRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALLGLAAAKEYAL  264 (304)
T ss_dssp             TCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC------------CCHHHHHCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHhCCCcccHHhcCCccHHHHHHHHHHHHHHH
Confidence            99 8889999999999999999999999999999999999999999999999999999998755433

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

Probab=99.79  E-value=1.4e-19  Score=165.26  Aligned_cols=125  Identities=18%  Similarity=0.214  Sum_probs=84.8

Q ss_pred             HHHHHHHHHHHhHHHHhhhhhhhhccCcc-ccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchh
Q psy17022        128 SEVAFEYGRNLGIAFQLVDDLLDFISSSD-AMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIA  206 (287)
Q Consensus       128 ~~~l~~~g~~~G~afQi~dD~~d~~~~~~-~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~a  206 (287)
                      .+.+..++...|+.--+...++|+..... .........+..+|++.++..+|+.|+++++++++..+.+.+||.++|++
T Consensus       167 ~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~~t~~~y~~i~~~KTa~L~~~a~~~Ga~laga~~~~~~~l~~~g~~lGlA  246 (324)
T 3uca_A          167 LKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHLKKTGELIKASIMSGAVLAEASEGDIKKLEGFGYKLGLA  246 (324)
T ss_dssp             HHHHHHHHHHHSTTTHHHHHHHHHHTSSCSSCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHhHHHHhHHHHHHcCCCCCCCHHHHHHHHhcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            45667777766543333444444444332 23344567789999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchH
Q psy17022        207 FQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNP  252 (287)
Q Consensus       207 fQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~  252 (287)
                      |||+||++|+++++..+|||+|+|+++||+|||++++++.+.+..+
T Consensus       247 FQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~p~l~al~~a~~~a~  292 (324)
T 3uca_A          247 FQIKDDILDVVGNAKDLGKNVHKDQESNKNNYITIFGLEECKKKCV  292 (324)
T ss_dssp             HHHHHHHHHHCCC-----------------CHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHhccCCHHHhCCCcchHhhcCCccHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998755433

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

Probab=99.78  E-value=5e-19  Score=160.40  Aligned_cols=140  Identities=21%  Similarity=0.224  Sum_probs=96.7

Q ss_pred             HHHHHHHHHHhcCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCC
Q psy17022        110 IANCVKASAMLGGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGA  188 (287)
Q Consensus       110 ~~~~~~~g~~la~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~  188 (287)
                      +..++.+.+...+.++ ...+.+..++..+|..--+...++|+..............+..+|++.++..+|+.|++++++
T Consensus       116 l~~A~~~l~~~~~~~~~~~~~~~~~ls~~~g~~~~~~GQ~~Dl~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~ga~lag~  195 (301)
T 1rtr_A          116 LTKAFELISSDDRLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTFAVMSAADIANV  195 (301)
T ss_dssp             HHHHHHHHHTCTTSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhccCCchHHHHHHHHHHHHHhHhHHHHHHHHHHHccCCCCCHHHHHHHHHhchHHHHHHHHHHHHHHcCC
Confidence            5555555554422233 345667777777765444444444554433233344567789999999999999999999999


Q ss_pred             ChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCcc
Q psy17022        189 DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE  249 (287)
Q Consensus       189 ~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~  249 (287)
                      +++..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||+|||++++++.+.+
T Consensus       196 ~~~~~~~l~~~g~~lG~aFQI~DDilD~~~d~~~~GK~~g~Dl~~gK~T~p~l~al~~a~~  256 (301)
T 1rtr_A          196 DDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLLGKDGAED  256 (301)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-------------CCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHhCCCcchHHHcCCCcHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999987644

>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus}

Probab=99.77  E-value=9.7e-19  Score=156.46  Aligned_cols=107  Identities=21%  Similarity=0.345  Sum_probs=84.7

Q ss_pred             CchhHHHHHHHHHHhcCCCh------HHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHH-
Q psy17022          1 MAGDFILAVACQMISRLRDN------DVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAI-   73 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~------~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~-   73 (287)
                      |+||||++.||+++++..++      .+++.                                        +....+++ 
T Consensus       110 laGD~Ll~~Af~~l~~~~~~~~~~~~~~~~~----------------------------------------~~~l~~a~g  149 (273)
T 3qkc_B          110 LTGDGIIPFGLELMARSMDPTRNNPDRILRA----------------------------------------IIELTRVMG  149 (273)
T ss_dssp             HHHHHHHHHHHHHHHHHSCSSCCCHHHHHHH----------------------------------------HHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHcCCcccccHHHHHHH----------------------------------------HHHHHHHhc
Confidence            58999999999999987642      22221                                        22222222 


Q ss_pred             hhhhhhhhhhhccCccchhhhHHHHHH-HhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhh
Q psy17022         74 MTDLVQGEFMQLGSKETENERFAHYLT-KTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLD  150 (287)
Q Consensus        74 ~~~~~~GQ~~d~~~~~~~~~~~~~y~~-~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d  150 (287)
                      ..+|+.||++|+.+..  ..+ ++|++ |+.+|||+||++||++|+++++.+++..+.+++||.++|++|||+||+.+
T Consensus       150 ~~~~~~GQ~lDl~~~~--~~~-~eyl~~I~~~KTa~L~~~a~~lGailaga~~~~~~~l~~~G~~lGlaFQI~DD~~~  224 (273)
T 3qkc_B          150 SEGIVEGQYHELGLNQ--LND-LELIEYVCKKKEGTLHACGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRS  224 (273)
T ss_dssp             TTTHHHHHHHHTTCCS--SCC-HHHHHHHHHHTHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHTTCCS
T ss_pred             hhHHHHHHHHHHhcCC--CCC-HHHHHHHHHhhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            4788889999988832  234 46665 67999999999999999999999999999999999999999999999974

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

Probab=99.77  E-value=1.6e-18  Score=156.22  Aligned_cols=142  Identities=16%  Similarity=0.188  Sum_probs=92.9

Q ss_pred             HHHHHHHHHHhcCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCC
Q psy17022        110 IANCVKASAMLGGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGA  188 (287)
Q Consensus       110 ~~~~~~~g~~la~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~  188 (287)
                      +..++.+.+.. +.++ ...+.+..+....|+.--+...++|+..............++.+|++.++..+|+.|++++++
T Consensus       114 l~~A~~~l~~~-~~~~~~~~~~~~~l~~~~g~~~~~~GQ~lDl~~~~~~~~~~~y~~i~~~KTg~L~~~a~~~ga~laga  192 (291)
T 3npk_A          114 NTEAFLVLSHA-HLKDEIKIKLIKTLAFNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHTHKTARLIAAALKMGCEICEL  192 (291)
T ss_dssp             HHHHHHHHHTS-SSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhc-CCChHHHHHHHHHHHHHHhHHHHHHHHHHHHhccCCCCCHHHHHHHHHcccHHHHHHHHHHHHHHcCC
Confidence            44455444332 2233 344566777776555444455566665443333334456778999999999999999999999


Q ss_pred             ChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchHHH
Q psy17022        189 DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNPMI  254 (287)
Q Consensus       189 ~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~~l  254 (287)
                      +++..+.+.+||.++|++|||+||++|++++++.+|||.+.|  +||+|||++++++.+.+..+.+
T Consensus       193 ~~~~~~~l~~~g~~lGlaFQI~DDiLD~~gd~~~~GK~~~~d--~gK~T~p~l~~l~~a~~~~~~~  256 (291)
T 3npk_A          193 NNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNND--IHKNSFVNLLGLEQAIKTKENL  256 (291)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHC------------------CCHHHHHCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHHCCccchh--cCcchHHHHHHHHHhHHHHHHH
Confidence            999999999999999999999999999999999999999876  9999999999999876544443

>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.50A {Vibrio cholerae} SCOP: a.128.1.1

Probab=99.77  E-value=7.5e-19  Score=159.21  Aligned_cols=143  Identities=20%  Similarity=0.234  Sum_probs=92.5

Q ss_pred             HHHHHHHHHHhcCC--Ch-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhcc
Q psy17022        110 IANCVKASAMLGGA--DD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLG  186 (287)
Q Consensus       110 ~~~~~~~g~~la~~--~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la  186 (287)
                      +..++.+.+.....  ++ ...+.+..++...|..--+...++|+..............+..+|++.++..+|+.|++++
T Consensus       124 ~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~a~g~~~~~~GQ~lDl~~~~~~~s~~~y~~i~~~KTa~L~~~~~~~ga~la  203 (302)
T 3p8r_A          124 QTLAFTILAEGDLSAAGETQRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELETIHRNKTGALMRCAIRLGALAA  203 (302)
T ss_dssp             HHHHHHHHHHSCCCHHHHTTHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccccCCCHHHHHHHHHHHHHHHhHhHHHHhHHHHHHccCCCCCHHHHHHHhccCcHHHHHHHHHHHHHHc
Confidence            45555555443211  12 1345667777766533333334444443322233445667789999999999999999999


Q ss_pred             C-CChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchH
Q psy17022        187 G-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNP  252 (287)
Q Consensus       187 ~-~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~  252 (287)
                      + ++++..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||+|||++++++.+.+..+
T Consensus       204 g~~~~~~~~~l~~~g~~lG~aFQI~DDilD~~~~~~~~GK~~g~Dl~egK~T~p~l~~l~~a~~~a~  270 (302)
T 3p8r_A          204 GEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYPALLGLEGAQQKAH  270 (302)
T ss_dssp             THHHHTTHHHHHHHHHHHHHHHHHHHHHHHHTTC---------------CCCHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCCcchHHhcCCchHHHHHHHHHHHHHHH
Confidence            9 78888999999999999999999999999999999999999999999999999999998655433

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

Probab=99.77  E-value=9.1e-19  Score=159.25  Aligned_cols=143  Identities=17%  Similarity=0.236  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHHhc-CCC--hHHHHHHHHHHHHHhHHHHhhhhhhhhccCcc-ccCccchhhhHhhhhhhhhHhhhhhhhh
Q psy17022        109 LIANCVKASAMLG-GAD--DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSD-AMGKPTAADLKLGLATAPVLFACEKSAM  184 (287)
Q Consensus       109 L~~~~~~~g~~la-~~~--~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~-~~Gk~~~~Di~~~K~t~~~l~a~~~ga~  184 (287)
                      |+..++.+.+... +.+  ....+.+..++...|..--+...++|+..... .........++.+|++.++..+|+. ++
T Consensus       123 Ll~~a~~~l~~~~~~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~~t~~~y~~i~~~KTg~L~~~a~~~-a~  201 (313)
T 3lom_A          123 MQALAIEVLLMRLSPLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHLLKTGKLILACFEM-VL  201 (313)
T ss_dssp             HHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSSCCCHHHHHHHHHHHTHHHHHHHHHH-HH
T ss_pred             HHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHhHhHHHHhHHHHHHccCCCCCCHHHHHHHHHcCcHHHHHHHHHH-HH
Confidence            3556666655543 332  34566778888777643334444444444322 3334456778899999999999999 99


Q ss_pred             ccC--CChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchH
Q psy17022        185 LGG--ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNP  252 (287)
Q Consensus       185 la~--~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~  252 (287)
                      +++  ++++..+.+.+||.++|++|||+||++|+++++..+|||+|+|+++||+|||++++++.+.+..+
T Consensus       202 lag~~a~~~~~~~l~~~g~~lGlaFQI~DDilD~~gd~~~~GK~~g~Dl~~gK~T~p~l~~l~~a~~~a~  271 (313)
T 3lom_A          202 AAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQKTTFATLFNKQQLEEEIA  271 (313)
T ss_dssp             TTCSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---------------CCCHHHHSCHHHHHHHHH
T ss_pred             HhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHhhCCCCcchhhcCCccHHHHHHHHHHHHHHH
Confidence            999  89999999999999999999999999999999999999999999999999999999998755433

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

Probab=99.77  E-value=7.7e-19  Score=161.13  Aligned_cols=142  Identities=24%  Similarity=0.285  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHhc-CCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccC
Q psy17022        110 IANCVKASAMLG-GADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGG  187 (287)
Q Consensus       110 ~~~~~~~g~~la-~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~  187 (287)
                      +..++.+.+... +.++ ...+.+..++..+|..--+...++|+..............++.+|++.++..+|+.|+++++
T Consensus       159 l~~A~~~l~~~~~~~~~~~~~~~~~~ls~a~g~~~~~~GQ~lDl~~~~~~~~~~~y~~i~~~KTa~L~~~a~~~Ga~lag  238 (335)
T 2h8o_A          159 LTLAFDIIASDDNPLAAERKAALVISLARAAGIGGMAGGQALDLAAEKKAPDEDGIITLQAMKTGALLRFACEAGAIIAG  238 (335)
T ss_dssp             HHHHHHHHHSTTSCSCHHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccCCchHHHHHHHHHHHHhhhhHHHHHHHHHHHccCCCCCHHHHHHHHHhchHHHHHHHHHHHHHHhC
Confidence            555555554431 2233 34466677776665433333333343332222334456778999999999999999999999


Q ss_pred             CChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccch
Q psy17022        188 ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELN  251 (287)
Q Consensus       188 ~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~  251 (287)
                      ++++..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||.|||++++++.+.+..
T Consensus       239 a~~~~~~~l~~~g~~lGlAFQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~p~l~~le~a~~~a  302 (335)
T 2h8o_A          239 SNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVALRGEAWAREKL  302 (335)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----------------CCCHHHHHCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHhCCCcchHHhcCCccHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999998765433

>1rqj_A Geranyltranstransferase; bisphosphonate, isoprenyl synthase; HET: IPR RIS; 1.95A {Escherichia coli} SCOP: a.128.1.1 PDB: 1rqi_A* 2for_A*

Probab=99.76  E-value=1.3e-18  Score=157.67  Aligned_cols=140  Identities=22%  Similarity=0.254  Sum_probs=107.4

Q ss_pred             HHHHHHHHHHh--cCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhc-
Q psy17022        110 IANCVKASAML--GGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAML-  185 (287)
Q Consensus       110 ~~~~~~~g~~l--a~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~l-  185 (287)
                      +..++.+.+..  .+.++ ...+.+..++..+|..--+...++|+..............++.+|++.++..+|+.|+++ 
T Consensus       118 ~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~GQ~~dl~~~~~~~~~~~y~~i~~~KTa~L~~~~~~~ga~l~  197 (299)
T 1rqj_A          118 QTLAFSILSDADMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRAAVRLGALSA  197 (299)
T ss_dssp             HHHHHHHHHHSCCTTCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTTCCCHHHHHHHHHHHTHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhhcccCChHHHHHHHHHHHHHhhhhHHHHhHHHHHhccCCCCCHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            55566655553  23333 334667777776653333333344443332223334467788999999999999999999 


Q ss_pred             cCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCcc
Q psy17022        186 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE  249 (287)
Q Consensus       186 a~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~  249 (287)
                      ++++++..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||+|||++++++.+.+
T Consensus       198 ag~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~~~~~~~GK~~g~Dl~~gK~T~p~l~~l~~a~~  261 (299)
T 1rqj_A          198 GDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARK  261 (299)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSSCTTHHHHHTCCCHHHHHCHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHhCCChhhHHHcCCCcHHHHHHHHHHHH
Confidence            9888899999999999999999999999999999999999999999999999999999987544

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

Probab=99.74  E-value=8e-18  Score=152.89  Aligned_cols=140  Identities=15%  Similarity=0.145  Sum_probs=95.5

Q ss_pred             HHHHHHHHHHhcCCCh-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCC
Q psy17022        110 IANCVKASAMLGGADD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGA  188 (287)
Q Consensus       110 ~~~~~~~g~~la~~~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~  188 (287)
                      +..++.+.+. ...++ ...+.+..++...|+.--+...++|+..............++.+|++.++..+|+.|++++++
T Consensus       128 l~~Af~~l~~-~~~~~~~~~~~i~~la~a~g~~~m~~GQ~lDl~~~~~~~t~~~y~~i~~~KTg~L~~~a~~lga~laga  206 (311)
T 3llw_A          128 NTYSFELLSN-ALLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHEHKTAKLISASLIMGLVASGI  206 (311)
T ss_dssp             HHHHHHHHHH-SCSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHh-cCCChHHHHHHHHHHHHHHHHHHHHHhHHHHHHhcCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHcCC
Confidence            4445544443 22333 345667777777665444444555555443333344567789999999999999999999999


Q ss_pred             ChHHH-HHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchH
Q psy17022        189 DDKLS-EVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNP  252 (287)
Q Consensus       189 ~~~~~-~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~  252 (287)
                      +++.. +.+.+||.++|++|||+||++|++++++.+|||.++  ++||+|||++++++.+.+..+
T Consensus       207 ~~~~~~~~l~~~g~~lGlaFQI~DDiLD~~gd~~~~GK~~g~--~~gK~T~p~l~~l~~a~~~~~  269 (311)
T 3llw_A          207 KDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHL--DSAKNSFVNLLGLERANNYAQ  269 (311)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---------------CCSCHHHHHCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHHCccccc--ccCcchHHHHHHHHHHHHHHH
Confidence            99988 999999999999999999999999999999999987  999999999999998755433

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

Probab=99.73  E-value=1.1e-18  Score=157.58  Aligned_cols=121  Identities=25%  Similarity=0.294  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHHHhHHHHhhhhhhhhccC--ccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhc
Q psy17022        127 LSEVAFEYGRNLGIAFQLVDDLLDFISS--SDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLG  204 (287)
Q Consensus       127 ~~~~l~~~g~~~G~afQi~dD~~d~~~~--~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG  204 (287)
                      ..+.+..++..+|..--+...++|+...  ...........+..+|++.++..+|+.|+++++++++   .+.+||.++|
T Consensus       133 ~~~~~~~l~~~~g~~~~~~GQ~lDl~~~~~~~~~~~~~y~~i~~~KTg~L~~~~~~~ga~lag~~~~---~l~~~g~~lG  209 (297)
T 3m0g_A          133 RVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQAGKTGALISFAAQAGAILAGADRG---PLTAYATALG  209 (297)
T ss_dssp             HHHHHHHHHHHHSTTTHHHHHHHHHHHTTSSSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCCH---HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHhHHHHhHHHHHHhhhcCCCCCHHHHHHHHccchHHHHHHHHHHHHHHcCCCHH---HHHHHHHHHH
Confidence            4566777777776533444444444433  2223344566778999999999999999999998877   8999999999


Q ss_pred             hhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccc
Q psy17022        205 IAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPEL  250 (287)
Q Consensus       205 ~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~  250 (287)
                      ++|||+||++|++++++.+|||+|+|+++||+|||++++++.+.+.
T Consensus       210 ~aFQI~DDilD~~~~~~~~GK~~g~Dl~~gK~T~p~l~~l~~a~~~  255 (297)
T 3m0g_A          210 LAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLLGLAGAKSR  255 (297)
T ss_dssp             HHHHHHTTCC---------------------CCHHHHHCSSHHHHH
T ss_pred             HHHHHHHHHHhccCCHHHhCCCccchhhcCCccHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999986553

>2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MLY; 1.90A {Thermotoga maritima}

Probab=99.70  E-value=2.9e-17  Score=147.50  Aligned_cols=87  Identities=23%  Similarity=0.313  Sum_probs=67.7

Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                      .....+...|++.++..+|+.|+++++++++   .+.+||.++|++|||+||++|++++++.+|||+|+|++  |+|||+
T Consensus       166 ~~y~~i~~~KTa~L~~~~~~~ga~lag~~~~---~l~~~g~~lG~aFQI~DD~lD~~~d~~~~GK~~g~Dl~--K~T~p~  240 (284)
T 2ftz_A          166 EMVERMYAFXTGALFAFCFSAPFILXGXDHT---XMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKDTE--XVTLVX  240 (284)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHHHHHTCCCH---HHHHHHHHHHHHHHHHHHHHHHHHHCCCC-------------CHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHhCCChh---HHHHHHHHHHHHHHHHHhhhhhcCCHHhhCCCcchhcc--ccchHH
Confidence            3456678999999999999999999998877   89999999999999999999999999999999999999  999999


Q ss_pred             HHhhhhCccchH
Q psy17022        241 LFACEKFPELNP  252 (287)
Q Consensus       241 i~al~~~~~~~~  252 (287)
                      +++++.+.+..+
T Consensus       241 l~~l~~a~~~a~  252 (284)
T 2ftz_A          241 XVGIQXAREMAD  252 (284)
T ss_dssp             HHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999987654333

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

Probab=99.63  E-value=4.6e-16  Score=140.40  Aligned_cols=79  Identities=27%  Similarity=0.437  Sum_probs=65.8

Q ss_pred             hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHH
Q psy17022        163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF  242 (287)
Q Consensus       163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~  242 (287)
                      ...+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|+++++.  ||    |+.+||.|||+++
T Consensus       159 y~~~i~~KTg~L~~~a~~~ga~lag~~~~~~~~l~~~g~~lGlaFQI~DDilD~~~~~~--gk----d~~~gk~Tlp~l~  232 (295)
T 3ipi_A          159 YFKCIYKKTASLFAISASIGAYTGGAEEELAERFSHFGNALGTAYQIVDDILEFLEVVE--GK----ESKFTSETLPHIY  232 (295)
T ss_dssp             HHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--C-----------CCHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcc--CC----CcccCcccHHHHH
Confidence            45678899999999999999999999999999999999999999999999999999874  54    6789999999999


Q ss_pred             hhhhC
Q psy17022        243 ACEKF  247 (287)
Q Consensus       243 al~~~  247 (287)
                      +++..
T Consensus       233 al~~~  237 (295)
T 3ipi_A          233 MKSTS  237 (295)
T ss_dssp             TTTSC
T ss_pred             HHhcC
Confidence            97654

>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=99.48  E-value=1.2e-13  Score=129.58  Aligned_cols=93  Identities=20%  Similarity=0.201  Sum_probs=50.1

Q ss_pred             hhHHHHHHHHHHHHHhHHH-HHHHHHHHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCCh
Q psy17022         47 ENERFAHYLTKTYRKTASL-IANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADD  125 (287)
Q Consensus        47 ~~~~~~~~~~~~~~kt~~l-~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~  125 (287)
                      ...++++|+.++..|||+| |..++..+.  +..|-..|-    ...                                .
T Consensus       228 ~~~t~~~Y~~ii~~KTa~L~~~~~~~~ga--~~ag~~~d~----~~~--------------------------------~  269 (395)
T 3mav_A          228 NMINFGVYKNIVIHKTAYYSFFLPIVCGM--LLAGIAVDN----LIY--------------------------------K  269 (395)
T ss_dssp             GGCSHHHHHHHHHHHTHHHHTHHHHHHHH--HHTTCCTTC----THH--------------------------------H
T ss_pred             ccCCHHHHHHHHHHhhhHHHHHHHHHHHH--HhcCCcchh----HHH--------------------------------H
Confidence            4458899999999999999 665555321  111111110    000                                0


Q ss_pred             HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhh
Q psy17022        126 KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS  182 (287)
Q Consensus       126 ~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~g  182 (287)
                      ...+....+|..|-+.=-+.|=    +++++.+|| +|+|+.+||.|+|++++++.+
T Consensus       270 ~l~~~g~~lG~aFQI~DDiLD~----~gd~~~~GK-~g~Dl~egK~T~p~i~al~~~  321 (395)
T 3mav_A          270 KIEDISMLMGEYFQIHDDYLDI----FGDSTKTGK-VGSDIQNNKLTWPLIKTFELC  321 (395)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH----C---------CCCTTTTTCCCHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh----cCCHhhhcc-cccHHhcCCchHHHHHHHHhC
Confidence            0112233344444444444443    345678899 699999999999999999864

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

Probab=99.40  E-value=8.6e-13  Score=118.68  Aligned_cols=73  Identities=14%  Similarity=0.161  Sum_probs=67.1

Q ss_pred             chhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHH
Q psy17022        162 TAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVL  241 (287)
Q Consensus       162 ~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i  241 (287)
                      ....+..+|++.++..+|+.|++++ ++++..+.+.+||.++|++|||+||++|++++    ||+   |+++||.|+|++
T Consensus       160 ~y~~~i~~KTa~L~~~a~~~ga~la-~~~~~~~~l~~~g~~lG~aFQi~DDilD~~~~----~K~---dl~~gk~Tlp~l  231 (289)
T 2azj_A          160 DYIRTIELKTGSLFKLSTVLSAYAS-KHYNTKQQMLDVGKYLGIIYQVIDDFVDYKTK----KVE---EIDGSAKQLFKY  231 (289)
T ss_dssp             CHHHHHHHHTHHHHHHHHHHHHHHT-TCGGGHHHHHHHHHHHHHHHHHHHHHHHHTTS----CTT---TCCTTGGGGHHH
T ss_pred             HHHHHHHcchHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHHHHHHhhhhhcCC----CCh---hhhcCcccHHHH
Confidence            3456789999999999999999999 99999999999999999999999999999985    465   899999999999


Q ss_pred             H
Q psy17022        242 F  242 (287)
Q Consensus       242 ~  242 (287)
                      +
T Consensus       232 ~  232 (289)
T 2azj_A          232 Y  232 (289)
T ss_dssp             H
T ss_pred             H
Confidence            9

>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=99.40  E-value=1.8e-13  Score=123.94  Aligned_cols=84  Identities=15%  Similarity=0.083  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHH
Q psy17022         50 RFAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSE  129 (287)
Q Consensus        50 ~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~  129 (287)
                      +.++|+..+..|||+||..+++.+.  +..|.-        .  .        ..+-|..++.++++             
T Consensus       141 ~~~~y~~~i~~KTa~L~~~~~~~ga--~~a~~~--------~--~--------l~~~g~~lG~aFQi-------------  187 (301)
T 2q80_A          141 TEEEYKAMVLQKTGGLFGLAVGLMQ--LFSDYK--------E--D--------LKPLLNTLGLFFQI-------------  187 (301)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHH--HTCCCC--------S--C--------CHHHHHHHHHHHHH-------------
T ss_pred             CHHHHHHHHHcccHHHHHHHHHHHH--HHCCCh--------H--H--------HHHHHHHHHHHHHH-------------
Confidence            4688999999999999998887531  122210        0  0        11223334333333             


Q ss_pred             HHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhh
Q psy17022        130 VAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK  181 (287)
Q Consensus       130 ~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~  181 (287)
                                 .=-+.|=+-|    ++.+||++++|+.+||.|+|++++++.
T Consensus       188 -----------~DD~ld~~~~----~~~~GK~~g~Dl~egK~T~p~i~al~~  224 (301)
T 2q80_A          188 -----------RDDYANLHSK----EYSENKSFCEDLTEGKFSFPTIHAIWS  224 (301)
T ss_dssp             -----------HHHHHHHHCC----------CTTHHHHHTCCCHHHHHHHHH
T ss_pred             -----------HHHHhhhcCC----hhhhCCCccchhhcCCcHHHHHHHHHc
Confidence                       2233322222    456799999999999999999999975

>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=99.39  E-value=1e-12  Score=118.46  Aligned_cols=129  Identities=22%  Similarity=0.280  Sum_probs=89.3

Q ss_pred             HHHHHHHHHHhcC--C-ChHHHHHHHHHHHHHhHHHHhhhhhhhhccCcc---ccCccchhhhHhhhhhhhhHhhhhhhh
Q psy17022        110 IANCVKASAMLGG--A-DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSD---AMGKPTAADLKLGLATAPVLFACEKSA  183 (287)
Q Consensus       110 ~~~~~~~g~~la~--~-~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~---~~Gk~~~~Di~~~K~t~~~l~a~~~ga  183 (287)
                      +..++...+....  . +....+.+..+...+|..--+...++|+.....   .........+..+|++.++..+|+.|+
T Consensus       126 l~~A~~~l~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~GQ~~Dl~~~~~~~~~~~~~~y~~i~~~KTa~L~~~a~~~ga  205 (293)
T 2j1p_A          126 LSFAFEHLASATSSEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHLHKTAALLEASAVLGG  205 (293)
T ss_dssp             HHHHHHHHHHHSCTTSCHHHHHHHHHHHHHHHSTTTHHHHHHHTTC---CCHHHHHHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCChHHHHHHHHHHHHHHhHhHHHHHHHHHHHHccCCCCCCCHHHHHHHHHcccHHHHHHHHHHHH
Confidence            5556665555432  1 234456667777666532222333333332211   111233456789999999999999999


Q ss_pred             hccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCccchH
Q psy17022        184 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPELNP  252 (287)
Q Consensus       184 ~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~~~~  252 (287)
                      ++++++++..+.+.+||.++|++|||+||++|+++++              |.|+|++++++.+.+..+
T Consensus       206 ~lag~~~~~~~~l~~~g~~lG~aFQI~DDiLD~~~~~--------------K~T~p~l~gle~a~~~a~  260 (293)
T 2j1p_A          206 IIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS--------------KLTYPKLMGLEKSREFAE  260 (293)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC----------------CCCHHHHHHHHHHHHHHH
T ss_pred             HHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCCc--------------cccHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999875              899999999997655433

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

Probab=99.28  E-value=7.9e-13  Score=118.33  Aligned_cols=67  Identities=22%  Similarity=0.134  Sum_probs=54.8

Q ss_pred             hHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhC
Q psy17022        166 LKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLG  234 (287)
Q Consensus       166 i~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~g  234 (287)
                      +..+|++.++..+|+.|+++++++ +..+.+.+||.++|++|||+||++|++++++ .||++|+||+++
T Consensus       160 ~i~~KTg~Lf~~a~~lGa~lag~~-~~~~~l~~~G~~lGlAFQI~DDiLD~~~d~~-~~k~~g~DI~e~  226 (285)
T 4fp4_A          160 AAEFKTAPLIEAALVMPLVILGRR-ELIETAKKLGTKLGILYQYSDDYSDENVERP-ETKSIANEIGRY  226 (285)
T ss_dssp             HHHHHTHHHHHHHHHHHHHHHTCG-GGHHHHHHHHHHHHHHTTCC---------CH-HHHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHHHHcCCh-HHHHHHHHHHHHHHHHHHHHHHHhccCCCcc-ccCccHHHHHHH
Confidence            889999999999999999999998 8889999999999999999999999998765 689999999998

>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=99.27  E-value=4e-12  Score=118.11  Aligned_cols=101  Identities=18%  Similarity=0.186  Sum_probs=62.2

Q ss_pred             hhhhhhhhcCCC--chhHHHHHHHHHHHHHhHHHH-HHHHHHHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHH
Q psy17022         34 VQGEFMQLGSKE--TENERFAHYLTKTYRKTASLI-ANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLI  110 (287)
Q Consensus        34 ~~Ge~~~~~~~~--~~~~~~~~~~~~~~~kt~~l~-~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~  110 (287)
                      +.||.+++.|..  ..+.+.++|+..+..||++++ ..++..   +++.+..                            
T Consensus       181 ~~GQ~lDl~~~~~~~~~~~~e~y~~ii~~KTa~l~~~~~~~~---g~~~ag~----------------------------  229 (368)
T 2q58_A          181 VLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFF---GLTLSEI----------------------------  229 (368)
T ss_dssp             HHHHHHHHCSCCCSSCSSHHHHHHHHHHHHTHHHHTHHHHHH---HHHHSCC----------------------------
T ss_pred             hhhHHHHHHhhhcccCCchHHHHHHHHHHHhccccchHHHHH---HHHHhCc----------------------------
Confidence            569999998764  445578999999999999985 433332   1111110                            


Q ss_pred             HHHHHHHHHhcCCC-hHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhh
Q psy17022        111 ANCVKASAMLGGAD-DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS  182 (287)
Q Consensus       111 ~~~~~~g~~la~~~-~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~g  182 (287)
                              -..... ....+....+|..|-+.=-+.|-..         ||+.|+|+.+||.|+|++++++.+
T Consensus       230 --------~~~~~~~~~l~~~g~~lG~aFQI~DDiLD~~~---------gK~~g~Dl~egK~T~p~i~al~~~  285 (368)
T 2q58_A          230 --------QVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF---------NDSNADDICRFKLTWPLQKSFEIA  285 (368)
T ss_dssp             --------CCCCSSTTTHHHHHHHHHHHHHHHHHHHHHHS---------CCCSSCTTTSCCCCHHHHSSTTTC
T ss_pred             --------ccchHHHHHHHHHHHHHHHHHHHHHHHhhccc---------CCCCCchHhcCCcHHHHHHHHHhC
Confidence                    000000 0111223334444444444444333         799999999999999999999853

>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=98.91  E-value=1.1e-09  Score=98.98  Aligned_cols=50  Identities=26%  Similarity=0.387  Sum_probs=46.1

Q ss_pred             hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHH
Q psy17022        163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLD  215 (287)
Q Consensus       163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld  215 (287)
                      ...+..+|++.++..+|+.|++++++++   +.+.+||.++|++|||+||++|
T Consensus       159 y~~~i~~KTa~L~~~~~~~ga~lag~~~---~~l~~~g~~lG~aFQi~DD~lD  208 (299)
T 1v4e_A          159 YLRIVEGKSGALFGLALQLPALLEGELG---EDLYNLGVTIGTIYQMFDDIMD  208 (299)
T ss_dssp             HHHHHHHHTHHHHHHHHHHHHHHHTCCC---HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHcCCCH---HHHHHHHHHHHHHHHHHHHHHH
Confidence            4557889999999999999999999877   8899999999999999999998

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

Probab=98.84  E-value=3.6e-09  Score=97.59  Aligned_cols=55  Identities=36%  Similarity=0.561  Sum_probs=51.5

Q ss_pred             chhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        162 TAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       162 ~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      ....+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|+
T Consensus       175 ~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~  229 (352)
T 3nf2_A          175 ECLEMEGNKTGALLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGI  229 (352)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3456789999999999999999999999999999999999999999999999997

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

Probab=98.84  E-value=4.7e-09  Score=95.89  Aligned_cols=55  Identities=18%  Similarity=0.362  Sum_probs=51.3

Q ss_pred             chhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        162 TAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       162 ~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      ....+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|+
T Consensus       162 ~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~afQi~DD~ld~  216 (325)
T 3aqb_B          162 AYLRRINRKTAILIEASCHLGALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDY  216 (325)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3456788999999999999999999999999999999999999999999999997

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

Probab=98.80  E-value=5.2e-09  Score=96.43  Aligned_cols=54  Identities=41%  Similarity=0.701  Sum_probs=50.3

Q ss_pred             hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      ...+..+|++.++..+|+.|+++++.+++..+.+.+||.++|++|||+||++|+
T Consensus       186 y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~lD~  239 (348)
T 3apz_A          186 YMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDF  239 (348)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcchHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            345678999999999999999999999999999999999999999999999997

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

Probab=98.79  E-value=6.1e-09  Score=95.66  Aligned_cols=56  Identities=39%  Similarity=0.595  Sum_probs=51.3

Q ss_pred             chhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        162 TAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       162 ~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      ....+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|++
T Consensus       171 ~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DD~ld~~  226 (341)
T 3mzv_A          171 IYLRVIRGKTAALFSAATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYG  226 (341)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            34557899999999999999999999999999999999999999999999999985

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

Probab=98.78  E-value=5.3e-09  Score=96.16  Aligned_cols=56  Identities=36%  Similarity=0.442  Sum_probs=51.6

Q ss_pred             chhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        162 TAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       162 ~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      ....+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|++
T Consensus       183 ~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~  238 (345)
T 3oyr_A          183 VYLEIIQAKTAELFAAASEAGAVSAGVDVAKSEALRDYGLNLGLAFQLADDALDYG  238 (345)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            34567899999999999999999999999999999999999999999999999985

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

Probab=98.78  E-value=6.4e-09  Score=95.25  Aligned_cols=56  Identities=23%  Similarity=0.282  Sum_probs=51.9

Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      .....+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|+
T Consensus       164 ~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~  219 (334)
T 3rmg_A          164 EVYFDVIRKKTAALFAACAEAAALSVQVGEEEVAFARLLGEYIGICFQIKDDIFDY  219 (334)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            34556789999999999999999999999999999999999999999999999996

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

Probab=98.78  E-value=7e-09  Score=95.78  Aligned_cols=55  Identities=24%  Similarity=0.341  Sum_probs=51.5

Q ss_pred             hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      ...+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|++
T Consensus       192 y~~~i~~KTg~L~~~a~~lga~laga~~~~~~~l~~~g~~lG~aFQI~DDilD~~  246 (360)
T 3lmd_A          192 YTNVIREKTGVLIASAGYLGAMHAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIF  246 (360)
T ss_dssp             HHHHHHHHTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            4456889999999999999999999999999999999999999999999999985

>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; 1.65A {Pyrobaculum calidifontis} PDB: 4gp1_A* 4gp2_A*

Probab=98.77  E-value=8.3e-09  Score=95.36  Aligned_cols=54  Identities=28%  Similarity=0.396  Sum_probs=50.5

Q ss_pred             hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      ...+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|+
T Consensus       177 y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DD~lD~  230 (358)
T 4dhd_A          177 YIKMVSLKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDI  230 (358)
T ss_dssp             HHHHHHHHTHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345678999999999999999999999999999999999999999999999997

>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=98.74  E-value=9.7e-09  Score=95.23  Aligned_cols=55  Identities=18%  Similarity=0.121  Sum_probs=51.0

Q ss_pred             chhhhHhhhhhhh-hHhhhhhhhhccC-CChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        162 TAADLKLGLATAP-VLFACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       162 ~~~Di~~~K~t~~-~l~a~~~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      ....+..+|++++ +..+|..|+++++ ++++..+.+.+||.++|++|||+||++|+
T Consensus       206 ~y~~ii~~KTa~Lsf~~~~~~ga~lag~~~~~~~~~l~~~g~~lG~aFQI~DD~LD~  262 (367)
T 1uby_A          206 RYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDC  262 (367)
T ss_dssp             HHHHHHHHHTHHHHTHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCchHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3456789999999 9999999999999 89999999999999999999999999996

>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=98.71  E-value=1.9e-08  Score=92.15  Aligned_cols=53  Identities=26%  Similarity=0.502  Sum_probs=49.7

Q ss_pred             hhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        165 DLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       165 Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      .+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|++
T Consensus       178 ~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQi~DD~ld~~  230 (334)
T 3pko_A          178 NEIAGKTAELFALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYA  230 (334)
T ss_dssp             HHHHHTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHcchHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            34589999999999999999999999999999999999999999999999984

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

Probab=98.69  E-value=4.8e-08  Score=89.78  Aligned_cols=58  Identities=28%  Similarity=0.454  Sum_probs=53.7

Q ss_pred             ccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        160 KPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       160 k~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      ......+..+|++.++..+|+.|+++++++++..+.+.+||.++|++|||+||++|++
T Consensus       167 ~~~y~~~i~~KTa~L~~~~~~~ga~lag~~~~~~~~l~~~g~~lG~aFQI~DD~lD~~  224 (342)
T 1wy0_A          167 IEEYMEMISGKTGALFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLI  224 (342)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4455677899999999999999999999999999999999999999999999999985

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

Probab=98.67  E-value=7e-08  Score=89.76  Aligned_cols=119  Identities=17%  Similarity=0.130  Sum_probs=79.5

Q ss_pred             hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHH-HHHHHHHHhhhhhhhhhhhccCccchhhhHHHH
Q psy17022         20 NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASL-IANCVKAIMTDLVQGEFMQLGSKETENERFAHY   98 (287)
Q Consensus        20 ~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l-~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y   98 (287)
                      ..+++.++..+..++.||++++.+..+...+.++|+..+..|||++ |..+++.+.  ++.|.-            .+. 
T Consensus       174 ~~~~~~~~~~~~~~~~GQ~lDl~~~~~~~~s~~~y~~ii~~KTa~L~~~~~~~~Ga--~laga~------------~~~-  238 (380)
T 3lk5_A          174 ARTRDAWRGMRTEVIGGQLLDIYLESHANESVELADSVNRFKTAAYTIARPLHLGA--SIAGGS------------PQL-  238 (380)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHTHHHHTHHHHHHHH--HHTTCC------------HHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHhhchHHHHHHHHHHHH--HHcCCC------------HHH-
Confidence            4577788888899999999999988777778999999999999999 787777431  112210            000 


Q ss_pred             HHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhh
Q psy17022         99 LTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA  178 (287)
Q Consensus        99 ~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a  178 (287)
                       .-...+-|..+..++++                        .=-+.|=+-|-..    +|||+++|+.+||.|+|++++
T Consensus       239 -~~~l~~~G~~lG~AFQI------------------------~DDiLd~~gd~~~----~GK~~g~Dl~egK~T~p~i~a  289 (380)
T 3lk5_A          239 -IDALLHYGHDIGIAFQL------------------------RDDLLGVFGDPAI----TGKPAGDDIREGKRTVLLALA  289 (380)
T ss_dssp             -HHHHHHHHHHHHHHHHH------------------------HHHHHHHHSCHHH----HSSCTTHHHHTTCCCHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHHH------------------------HHHHHhccCChhh----hCCCchhhHhcCCchHHHHHH
Confidence             00112233334444333                        3233322222222    289999999999999999999


Q ss_pred             hhhh
Q psy17022        179 CEKS  182 (287)
Q Consensus       179 ~~~g  182 (287)
                      ++.+
T Consensus       290 l~~~  293 (380)
T 3lk5_A          290 LQRA  293 (380)
T ss_dssp             HHHH
T ss_pred             HHhC
Confidence            9864

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

Probab=98.64  E-value=2.3e-08  Score=90.82  Aligned_cols=52  Identities=27%  Similarity=0.396  Sum_probs=47.3

Q ss_pred             hhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        163 AADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       163 ~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      ...+..+|++.++..+|+.|+.+++++   .+.+.+||.++|++|||+||++|++
T Consensus       155 y~~~i~~KTa~L~~~~~~~ga~lag~~---~~~l~~~g~~lG~aFQI~DD~ld~~  206 (315)
T 3tc1_A          155 YWRILEDKTAHFIEASLKSMAILLNKD---AKIYADFGLNFGMAFQIIDDLLDIT  206 (315)
T ss_dssp             HHHHHHHHTHHHHHHHHHHHHHHTTSC---HHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHcCCC---HHHHHHHHHHHHHHHHHHHHHhccc
Confidence            445689999999999999999999987   6789999999999999999999984

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

Probab=98.63  E-value=2.4e-08  Score=91.40  Aligned_cols=52  Identities=29%  Similarity=0.301  Sum_probs=47.5

Q ss_pred             hhhhHhhhhhhh-hHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        163 AADLKLGLATAP-VLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       163 ~~Di~~~K~t~~-~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      ...+..+|++.+ +..+|+.|+++++++++..  +.+||.++|++|||+||++|+
T Consensus       165 y~~~i~~KTa~Ls~~~~~~~ga~lag~~~~~~--l~~~g~~lG~aFQi~DD~ld~  217 (330)
T 1wmw_A          165 YFRMVAHKAAYYTAVAPLRLGALLAGKTPPAA--YEEGGLRLGTAFQIVDDVLNL  217 (330)
T ss_dssp             HHHHHHHHTHHHHHHHHHHHHHHHTTCCCCHH--HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccccHHHHHHHHHHHHHHcCCCHHHH--HHHHHHHHHHHHHHHHccCcc
Confidence            445688999999 9999999999999888776  999999999999999999997

>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=98.62  E-value=4.1e-08  Score=91.70  Aligned_cols=54  Identities=19%  Similarity=0.126  Sum_probs=48.9

Q ss_pred             chhhhHhhhhhhh-hHhhhhhhhhccCCChHH-HHHHHHhhhhhchhhHHHHHHHH
Q psy17022        162 TAADLKLGLATAP-VLFACEKSAMLGGADDKL-SEVAFEYGRNLGIAFQLVDDLLD  215 (287)
Q Consensus       162 ~~~Di~~~K~t~~-~l~a~~~ga~la~~~~~~-~~~l~~~g~~lG~afQi~DDlld  215 (287)
                      ....+...|++.+ +..+|+.|+++++++++. .+.+.+||.++|++|||+||++|
T Consensus       227 ~y~~i~~~KTa~L~~~~~~~~ga~laga~~~~~~~~l~~~g~~lGlaFQI~DDiLD  282 (390)
T 3dyh_A          227 NYKRIVKYKTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMD  282 (390)
T ss_dssp             HHHHHHHHHTHHHHTHHHHHHHHHHTTCGGGSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4556789999998 889999999999998875 78999999999999999999998

>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=98.61  E-value=1.1e-07  Score=84.78  Aligned_cols=105  Identities=12%  Similarity=-0.011  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHhcCC----Ch-HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhh
Q psy17022        109 LIANCVKASAMLGGA----DD-KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSA  183 (287)
Q Consensus       109 L~~~~~~~g~~la~~----~~-~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga  183 (287)
                      |+..++.+.+.....    +. ...+.+..+...+|..-.+...++|+..............+..+|++.++..+|+.|+
T Consensus       112 Ll~~Af~~l~~~~~~~~~~~~~~~~~~~~~l~~a~G~~~~~~GQ~lDl~~~~~~~t~~~y~~~i~~KTa~L~~~a~~lGa  191 (274)
T 3kra_B          112 IVPFGFELLAGSVDPARTDDPDRILRVIIEISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCKKKYGEMHACGAACGA  191 (274)
T ss_dssp             HHHHHHHHHHHTCCTTCTTHHHHHHHHHHHHHHHTSTTTHHHHHHHHTTCCTTSSCHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCccccccHHHHHHHHHHHHHHHhHHHHHHhHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466666666555432    12 3456677788877765566666666665433223334556789999999999999999


Q ss_pred             hccCCChHHHHHHHHhhhhhchhhHHHHHH
Q psy17022        184 MLGGADDKLSEVAFEYGRNLGIAFQLVDDL  213 (287)
Q Consensus       184 ~la~~~~~~~~~l~~~g~~lG~afQi~DDl  213 (287)
                      ++++++++..+.+.+||.++|++||++||.
T Consensus       192 ilaga~~~~~~~l~~~G~~lG~aFQI~DD~  221 (274)
T 3kra_B          192 ILGGAAEEEIQKLRNFGLYQGTLRGMMEMK  221 (274)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999997

>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=98.57  E-value=1.9e-07  Score=86.78  Aligned_cols=58  Identities=17%  Similarity=0.159  Sum_probs=53.3

Q ss_pred             CccchhhhHhhhhhhh-hHhhhhhhhhccC-CChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        159 GKPTAADLKLGLATAP-VLFACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       159 Gk~~~~Di~~~K~t~~-~l~a~~~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      .......+..+|++++ +..+|..|+++++ ++++..+.+.+||.++|++|||+||++|+
T Consensus       210 t~~~y~~i~~~KTa~Lsf~~~~~~ga~lag~a~~~~~~~l~~~g~~lG~aFQI~DDiLD~  269 (374)
T 2qis_A          210 TEKRYKSIVKYKSAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDL  269 (374)
T ss_dssp             CHHHHHHHHHHHTHHHHTHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHcCccHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3445668899999999 9999999999999 99999999999999999999999999996

>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus}

Probab=98.56  E-value=1.2e-07  Score=84.34  Aligned_cols=105  Identities=14%  Similarity=0.083  Sum_probs=74.3

Q ss_pred             HHHHHHHHHHHhcCC---C-hHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhh
Q psy17022        109 LIANCVKASAMLGGA---D-DKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAM  184 (287)
Q Consensus       109 L~~~~~~~g~~la~~---~-~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~  184 (287)
                      |+..++.+.+.....   + ...++.+..+...+|..--+...++|+.... .....-...+..+|++.++..+|+.|++
T Consensus       115 Ll~~Af~~l~~~~~~~~~~~~~~~~~~~~l~~a~g~~~~~~GQ~lDl~~~~-~~~~eyl~~I~~~KTa~L~~~a~~lGai  193 (273)
T 3qkc_B          115 IIPFGLELMARSMDPTRNNPDRILRAIIELTRVMGSEGIVEGQYHELGLNQ-LNDLELIEYVCKKKEGTLHACGAACGAI  193 (273)
T ss_dssp             HHHHHHHHHHHHSCSSCCCHHHHHHHHHHHHHHHTTTTHHHHHHHHTTCCS-SCCHHHHHHHHHHTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcccccHHHHHHHHHHHHHHhchhHHHHHHHHHHhcCC-CCCHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            355666665555432   2 2345677777777754333444444444421 1222334456799999999999999999


Q ss_pred             ccCCChHHHHHHHHhhhhhchhhHHHHHHH
Q psy17022        185 LGGADDKLSEVAFEYGRNLGIAFQLVDDLL  214 (287)
Q Consensus       185 la~~~~~~~~~l~~~g~~lG~afQi~DDll  214 (287)
                      +++++++..+.+.+||.++|++|||+||+.
T Consensus       194 laga~~~~~~~l~~~G~~lGlaFQI~DD~~  223 (273)
T 3qkc_B          194 LGGCDEDKIEKLRRFGLYVGTVQGLLGKNR  223 (273)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HcCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999996

>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=98.51  E-value=3e-07  Score=85.09  Aligned_cols=56  Identities=16%  Similarity=0.094  Sum_probs=51.7

Q ss_pred             cchhhhHhhhhhhh-hHhhhhhhhhccC-CChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        161 PTAADLKLGLATAP-VLFACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       161 ~~~~Di~~~K~t~~-~l~a~~~ga~la~-~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      .....+..+|++.+ +..+|+.|+++++ ++++..+.+.+||.++|++|||+||++|+
T Consensus       198 ~~y~~~~~~KTa~Ls~~~~~~~ga~lag~~~~~~~~~l~~~g~~lG~aFQi~DD~lD~  255 (362)
T 1yhl_A          198 AIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDC  255 (362)
T ss_dssp             HHHHHHHHHHTHHHHTHHHHHHHHHHTTCGGGSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44567799999999 9999999999999 88889999999999999999999999997

>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=98.35  E-value=5.3e-07  Score=82.71  Aligned_cols=55  Identities=15%  Similarity=0.195  Sum_probs=45.1

Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      .....+..+|++.++..+|+.|+.+++.++ ..+.+.+||.++|++|||+||++|+
T Consensus       165 ~~y~~~i~~KTa~L~~~~~~~ga~lag~~~-~~~~l~~~g~~lG~aFQi~DD~ld~  219 (340)
T 2e8v_A          165 EMYLNMVMNKTGGLFRLTLRLMEALSPSSH-HGHSLVPFINLLGIIYQIRDDYLNL  219 (340)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHHHHCCC-------CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHcCCcH-HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            345667899999999999999999999887 5788999999999999999999997

>3aqb_A Component A of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_A*

Probab=87.06  E-value=0.42  Score=37.28  Aligned_cols=43  Identities=12%  Similarity=0.107  Sum_probs=38.6

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcC
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGS   43 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~   43 (287)
                      |+|||+=+..+.++|+.+....++.||+++..+.+--...+.-
T Consensus        74 LaGD~~Sa~fY~lLa~~~~~~~i~~lS~aI~eVNE~K~sl~~~  116 (147)
T 3aqb_A           74 LSTDVLSALFYKYLSQPFYQHDFLVLTDCVSRINELKSIRATI  116 (147)
T ss_dssp             HHHHHHHHHHHHHTBTTBCHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             eehHHHHHHHHHHHcChhhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            6899999999999999999999999999999999887775543

---

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	287
d1v4ea_	280	a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Th	5e-10
d1v4ea_	280	a.128.1.1 (A:) Octoprenyl-diphosphate synthase {Th	2e-08
d1rqja_	299	a.128.1.1 (A:) Farnesyl diphosphate synthase (gera	1e-07
d1rqja_	299	a.128.1.1 (A:) Farnesyl diphosphate synthase (gera	0.002
d1rtra_	290	a.128.1.1 (A:) Farnesyl diphosphate synthase (gera	3e-04

>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 = 57.0 bits (136), Expect = 5e-10
 Identities = 27/110 (24%), Positives = 46/110 (41%), Gaps = 7/110 (6%)

Query: 179 CEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLAT 237
              +  L    + +L E  +  G  +G  +Q+ DD++DF             DLK G+A+
Sbjct: 163 FGLALQLPALLEGELGEDLYNLGVTIGTIYQMFDDIMDFAGMEKIGKDGF-LDLKNGVAS 221

Query: 238 APVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
            P++ A EKFPE   M   R     D      F+ +   L++ +   +  
Sbjct: 222 FPLVTAMEKFPEARQMFENR-----DWSGLMSFMREKGILKECEETLKVL 266

>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 = 52.0 bits (123), Expect = 2e-08
 Identities = 25/121 (20%), Positives = 47/121 (38%), Gaps = 7/121 (5%)

Query: 97  HYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSD 156
            YL     K+ +L    ++  A+L G      E  +  G  +G  +Q+ DD++DF     
Sbjct: 150 EYLRIVEGKSGALFGLALQLPALLEGELG---EDLYNLGVTIGTIYQMFDDIMDFAGMEK 206

Query: 157 AMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF 216
                   DLK G+A+ P++ A EK      A        +    +      ++ +  + 
Sbjct: 207 IGKDGF-LDLKNGVASFPLVTAMEKFP---EARQMFENRDWSGLMSFMREKGILKECEET 262

Query: 217 I 217
           +
Sbjct: 263 L 263

>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 = 50.0 bits (118), Expect = 1e-07
 Identities = 37/211 (17%), Positives = 76/211 (36%), Gaps = 18/211 (8%)

Query: 11  CQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCV 70
                        +     +  L           E  +      +++    +        
Sbjct: 98  LPTCHVKFGEANAILAGDALQTLAFSILSDADMPEVSDRDRISMISELASASG------- 150

Query: 71  KAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEV 130
              +  +  G+ + L + E ++            KT +LI   V+  A+  G   + +  
Sbjct: 151 ---IAGMCGGQALDLDA-EGKHVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALP 206

Query: 131 AF-EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGAD 189
              +Y  ++G+AFQ+ DD+LD +  +  +GK   AD +LG +T P L   E++       
Sbjct: 207 VLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQAR---KKA 263

Query: 190 DKLSEVAFEYGRNLG---IAFQLVDDLLDFI 217
             L + A +  + L    +    ++ L D+I
Sbjct: 264 RDLIDDARQSLKQLAEQSLDTSALEALADYI 294

>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 = 36.9 bits (84), Expect = 0.002
 Identities = 35/173 (20%), Positives = 64/173 (36%), Gaps = 9/173 (5%)

Query: 83  MQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNL---- 138
           +     +           K     A L  + ++  A    +D  + EV+     ++    
Sbjct: 86  LPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDADMPEVSDRDRISMISEL 145

Query: 139 ----GIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSE 194
               GIA       LD  +    +       +      A +  A    A+  G   + + 
Sbjct: 146 ASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRAL 205

Query: 195 VAF-EYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 246
               +Y  ++G+AFQ+ DD+LD +  +  +GK   AD +LG +T P L   E+
Sbjct: 206 PVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQ 258

>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 = 39.3 bits (90), Expect = 3e-04
 Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 1/108 (0%)

Query: 75  TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEY 134
             +V G+ + +   E +             KT +L+   V ++A +   DD   E    Y
Sbjct: 147 VGMVGGQMLDM-QSEGQPIDLETLEMIHKTKTGALLTFAVMSAADIANVDDTTKEHLESY 205

Query: 135 GRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
             +LG+ FQ+ DDLLD       +GK   +DL+   +T   L   + +
Sbjct: 206 SYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLLGKDGA 253

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	287
d2q80a1	291	Geranylgeranyl pyrophosphate synthetase {Human (Ho	99.97
d1v4ea_	280	Octoprenyl-diphosphate synthase {Thermotoga mariti	99.96
d1fpsa_	348	Farnesyl diphosphate synthase (geranyltranstransfe	99.94
d1rqja_	299	Farnesyl diphosphate synthase (geranyltranstransfe	99.92
d1rtra_	290	Farnesyl diphosphate synthase (geranyltranstransfe	99.92
d1rtra_	290	Farnesyl diphosphate synthase (geranyltranstransfe	99.74
d1rqja_	299	Farnesyl diphosphate synthase (geranyltranstransfe	99.68
d2q80a1	291	Geranylgeranyl pyrophosphate synthetase {Human (Ho	99.46
d1fpsa_	348	Farnesyl diphosphate synthase (geranyltranstransfe	98.35
d1v4ea_	280	Octoprenyl-diphosphate synthase {Thermotoga mariti	98.1
d1ezfa_	333	Squalene synthase {Human (Homo sapiens) [TaxId: 96	81.73

>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=99.97  E-value=9e-32  Score=241.44  Aligned_cols=175  Identities=16%  Similarity=0.212  Sum_probs=136.7

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      ++||||++.|++.+++..++.++..+++++..+++||.+++.+..+.                                 
T Consensus        85 l~gd~l~~~a~~~l~~~~~~~~~~~~~~~~~~~~~gq~~d~~~~~~~---------------------------------  131 (291)
T d2q80a1          85 NSANYVYFLGLEKVLTLDHPDAVKLFTRQLLELHQGQGLDIYWRDNY---------------------------------  131 (291)
T ss_dssp             HHHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHHHHHHHHHHHTT---------------------------------
T ss_pred             hHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhHhcccccccccccc---------------------------------
Confidence            57999999999999999999999999999999999999977432221                                 


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||++||.+|+++++.+++    +++||++                       
T Consensus       132 ----------~~~s~~~y~~ii~~KT~~Lf~~~~~~ga~~~~~~~~----l~~~g~~-----------------------  174 (291)
T d2q80a1         132 ----------TCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKED----LKPLLNT-----------------------  174 (291)
T ss_dssp             ----------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCSC----CHHHHHH-----------------------
T ss_pred             ----------ccCCHHHHHHHHHhccchhhHhhhhhhhhhcccchh----hHHHHHH-----------------------
Confidence                      246788999999999999999999999999887532    3444444                       


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                +|++||+.||++|+++++..+|||+|+|+++||+|||+
T Consensus       175 ------------------------------------------lG~afQi~DD~ld~~~~~~~~GK~~g~Dl~~gK~Tlpv  212 (291)
T d2q80a1         175 ------------------------------------------LGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPT  212 (291)
T ss_dssp             ------------------------------------------HHHHHHHHHHHHHHHCC------CTTHHHHHTCCCHHH
T ss_pred             ------------------------------------------HHHHHHHHHHhhhhccchhhccccccchhccCCCcHHH
Confidence                                                      45555555555555555667889999999999999999


Q ss_pred             HHhhhhCcc---chHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        241 LFACEKFPE---LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       241 i~al~~~~~---~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +++++..++   +.+++.....+++.+++++++++++|++++|+.++++|
T Consensus       213 i~al~~~~~~~~l~~il~~~~~~~~~~~~i~~~l~~~ga~~~a~~~~~~~  262 (291)
T d2q80a1         213 IHAIWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKEL  262 (291)
T ss_dssp             HHHHHHSTTCCHHHHHHHHTCCCHHHHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred             HHHHHhcccHHHHHHHHhcccCCHHHHHHHHHHHHHcCHHHHHHHHHHHH
Confidence            999997654   34455566667788999999999999999999998765

>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=99.96  E-value=1.7e-29  Score=225.31  Aligned_cols=167  Identities=24%  Similarity=0.393  Sum_probs=137.0

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      ++||||++.++..++...++.++..+++++..+++||.+++.+..                                   
T Consensus        99 l~gd~l~~~a~~~l~~~~~~~~~~~l~~~~~~~~~Gq~~d~~~~~-----------------------------------  143 (280)
T d1v4ea_          99 AAGDLVLVSAFHTVEEIGNNKLRRAFLNVIGKMSEAELIEQLSRY-----------------------------------  143 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHTT-----------------------------------
T ss_pred             hhHHHHHHhhhhcccccccccccccchhhcccchhHHHHHHHhcc-----------------------------------
Confidence            479999999999999999999999999999999999888763322                                   


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                                ..+++++|++|+.+|||+||.+|+.+|+++++...+   .+++||.++|++|||+||++|+.++      
T Consensus       144 ----------~~~t~~~y~~~i~~KT~~lf~~~~~~ga~l~g~~~~---~l~~~g~~lG~afQi~DD~ld~~~~------  204 (280)
T d1v4ea_         144 ----------KPITKEEYLRIVEGKSGALFGLALQLPALLEGELGE---DLYNLGVTIGTIYQMFDDIMDFAGM------  204 (280)
T ss_dssp             ----------SCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCCH---HHHHHHHHHHHHHHHHHHHHHHTTC------
T ss_pred             ----------CCCCHHHHHHHHHhccccHHHHHHHHHHHHccccHH---HHHHHHHHHHHHHHHHHhhccccch------
Confidence                      236788999999999999999999999999986443   3566666666666666666665543      


Q ss_pred             cchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHH
Q psy17022        161 PTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV  240 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~  240 (287)
                                                                                 + .+|||.|+|+++||+|||+
T Consensus       205 -----------------------------------------------------------~-~~GK~~g~Dl~~gK~T~p~  224 (280)
T d1v4ea_         205 -----------------------------------------------------------E-KIGKDGFLDLKNGVASFPL  224 (280)
T ss_dssp             -----------------------------------------------------------C-SCCTTSSCCCTTTTCCHHH
T ss_pred             -----------------------------------------------------------h-hhcccchhhHhCCCccHHH
Confidence                                                                       2 4688889999999999999


Q ss_pred             HHhhhhCccchHHHHhhcCCchhHHHHHHHHHhcChHHHHHHHHHh
Q psy17022        241 LFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARK  286 (287)
Q Consensus       241 i~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~~e~a~~~a~~  286 (287)
                      +++++..++..+.+.     ++++..+.++++++|+++++++.++.
T Consensus       225 i~al~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (280)
T d1v4ea_         225 VTAMEKFPEARQMFE-----NRDWSGLMSFMREKGILKECEETLKV  265 (280)
T ss_dssp             HHHHHHCHHHHHHHH-----TTCHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHH-----HHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence            999999877666653     35688999999999999999998765

>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=99.94  E-value=3.6e-27  Score=216.21  Aligned_cols=182  Identities=17%  Similarity=0.173  Sum_probs=131.3

Q ss_pred             CchhHHHHHHH-HHHhcCCC-----hHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHh
Q psy17022          1 MAGDFILAVAC-QMISRLRD-----NDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIM   74 (287)
Q Consensus         1 l~GD~l~~~a~-~~l~~~~~-----~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~   74 (287)
                      ++|||||+.++ .++.....     ..+++.+++++..+++||.+++.+......                         
T Consensus       124 l~gd~ll~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~ldl~~~~~~~~-------------------------  178 (348)
T d1fpsa_         124 INDSFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKV-------------------------  178 (348)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHSCTTTC-------------------------
T ss_pred             HHHHHHHHHHHHHHHHhhccchHHHHHHHHhhhhhhhHHHHHHHHHHhhhccccc-------------------------
Confidence            47999998775 44443321     357777777777777777777644322110                         


Q ss_pred             hhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHH--HHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhc
Q psy17022         75 TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASL--IANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  152 (287)
Q Consensus        75 ~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L--~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~  152 (287)
                                    ....+++++|++|+.+|||+|  |..++..++++++.+++..+.++.||.++|++|||+||++|++
T Consensus       179 --------------~~~~~t~~~Y~~~i~~KTa~l~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~lGiaFQI~DDilD~~  244 (348)
T d1fpsa_         179 --------------DLSHFSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCF  244 (348)
T ss_dssp             --------------CSSSCCHHHHHHHHHHHTHHHHTHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             --------------cccccCHHHHHHHHHHHhhhhhHHHHHHHHHHhhhhccccchhhccccccccchHHHHHHHHhhhh
Confidence                          112468899999999999998  4445555556666677777777777777777777777777766


Q ss_pred             cCccccCccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHh
Q psy17022        153 SSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLK  232 (287)
Q Consensus       153 ~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~  232 (287)
                      +++                                                                 +.+|| +|+||+
T Consensus       245 gd~-----------------------------------------------------------------~~~GK-~g~Dl~  258 (348)
T d1fpsa_         245 GDP-----------------------------------------------------------------ALTGK-VGTDIQ  258 (348)
T ss_dssp             CCS-----------------------------------------------------------------SCCSS-CSCCCS
T ss_pred             cch-----------------------------------------------------------------hccCc-cccccc
Confidence            554                                                                 56677 589999


Q ss_pred             hCCChHHHHHhhhhCc-cchHHHHhhc--CCchhHHHHHHHHHhcChHHHHHHHHHhC
Q psy17022        233 LGLATAPVLFACEKFP-ELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH  287 (287)
Q Consensus       233 ~gk~Tlp~i~al~~~~-~~~~~l~~~~--~~~~~~~~~~~~i~~~g~~e~a~~~a~~y  287 (287)
                      +||+|||++++++..+ +.++.+....  .+++++++++++++++|+++++++++++|
T Consensus       259 egK~Tlpii~al~~~~~~~r~~l~~~~~~~~~e~i~~v~~~i~~~g~~~~~~~~~~~~  316 (348)
T d1fpsa_         259 DNKCSWLVVQCLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESS  316 (348)
T ss_dssp             SCCCCHHHHHHHHTCCHHHHHHHHHHSSSSCHHHHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHhCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHCChHHHHHHHHHHH
Confidence            9999999999999864 4455555443  35677999999999999999999988764

>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=99.92  E-value=1.1e-25  Score=202.16  Aligned_cols=146  Identities=25%  Similarity=0.418  Sum_probs=119.3

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHH-HHHhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCV-KAIMTDLVQ   79 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~-~~~~~~~~~   79 (287)
                      |+||||++.||+.+++++++.....           ..+                        .++.... ..+..+|+.
T Consensus       112 l~Gd~l~~~a~~~l~~~~~~~~~~~-----------~~~------------------------~~~~~l~~~~~~~~l~~  156 (299)
T d1rqja_         112 LAGDALQTLAFSILSDADMPEVSDR-----------DRI------------------------SMISELASASGIAGMCG  156 (299)
T ss_dssp             HHHHHHHHHHHHHHHHSCCTTCCHH-----------HHH------------------------HHHHHHHHHHSTTTHHH
T ss_pred             hhcchHHHHHHHHHHhCCCccccHH-----------HHH------------------------HHHHHHHHHhhHHHHHH
Confidence            5899999999999999987543221           000                        0111111 234578899


Q ss_pred             hhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHHhHHHHhhhhhhhhccCcccc
Q psy17022         80 GEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGA-DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM  158 (287)
Q Consensus        80 GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~-~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~  158 (287)
                      ||.+|+.++.. ..++++|.+|+.+|||+||.+++.+++.+.+. +++..+.+++||.++|++|||+||++|+.++++.+
T Consensus       157 GQ~ldl~~~~~-~~~~~~~~~i~~~KT~~l~~~~~~~~a~~~~~~~~~~~~~l~~~g~~lGiaFQi~DD~lD~~~~~~~~  235 (299)
T d1rqja_         157 GQALDLDAEGK-HVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATL  235 (299)
T ss_dssp             HHHHHHHTTTT-CCCHHHHHHHHHHHTHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHH
T ss_pred             HHHHHHHhccC-cccHHHHHHHHHHHHhhHHHHHHHhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhc
Confidence            99999987654 57889999999999999999999998876554 55666889999999999999999999999999999


Q ss_pred             CccchhhhHhhhhhhhhHhhhhhh
Q psy17022        159 GKPTAADLKLGLATAPVLFACEKS  182 (287)
Q Consensus       159 Gk~~~~Di~~~K~t~~~l~a~~~g  182 (287)
                      ||+.++|+.+||.|+|++++++.+
T Consensus       236 GK~~g~Dl~egK~Tlp~i~~le~a  259 (299)
T d1rqja_         236 GKRQGADQQLGKSTYPALLGLEQA  259 (299)
T ss_dssp             SSCTTHHHHHTCCCHHHHHCHHHH
T ss_pred             CCchhhHHHCCChhHHHHHHHHHH
Confidence            999999999999999999999865

>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=99.92  E-value=5.8e-25  Score=196.64  Aligned_cols=145  Identities=23%  Similarity=0.321  Sum_probs=108.8

Q ss_pred             CchhHHHHHHHHHHhcCCChHHHHHHHHHHHhhhhhhhhhhcCCCchhHHHHHHHHHHHHHhHHHHHHHHHHHhhhhhhh
Q psy17022          1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKAIMTDLVQG   80 (287)
Q Consensus         1 l~GD~l~~~a~~~l~~~~~~~~~~~~s~~~~~l~~Ge~~~~~~~~~~~~~~~~~~~~~~~kt~~l~~~~~~~~~~~~~~G   80 (287)
                      |+|||+++.|+.+++...+....... ..+                                   .......+..+++.|
T Consensus       109 l~Gd~l~~~a~~l~~~~~~~~~~~~~-~~~-----------------------------------~~l~~~~~~~~~~~G  152 (290)
T d1rtra_         109 LAGDALLTKAFELISSDDRLTDEVKI-KVL-----------------------------------QRLSIASGHVGMVGG  152 (290)
T ss_dssp             HHHHHHHHHHHHHHHTCTTSCHHHHH-HHH-----------------------------------HHHHHHHSTTTHHHH
T ss_pred             HcCcchhHHHHHHHHhCCCcchhhHh-HHH-----------------------------------HHHHHHHhHHHHHHh
Confidence            57999999999999998754332210 000                                   000112334678899


Q ss_pred             hhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCc
Q psy17022         81 EFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK  160 (287)
Q Consensus        81 Q~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk  160 (287)
                      |++|+.+... ..+++.|..|+.+|||+||.+++.+|+++++.+++..+.+.+||.++|++|||+||++|++++++.+||
T Consensus       153 Q~~Dl~~~~~-~~~~~~~~~i~~~KT~~l~~~~~~~~a~~~~~~~~~~~~l~~~g~~lG~aFQi~DD~lD~~g~~~~~GK  231 (290)
T d1rtra_         153 QMLDMQSEGQ-PIDLETLEMIHKTKTGALLTFAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGK  231 (290)
T ss_dssp             HHHHHHTTTS-CCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---
T ss_pred             HHHHHHhccc-CCCHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhcc
Confidence            9999987643 568899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cchhhhHhhhhhhhhHhhhhhh
Q psy17022        161 PTAADLKLGLATAPVLFACEKS  182 (287)
Q Consensus       161 ~~~~Di~~~K~t~~~l~a~~~g  182 (287)
                      +.++|+.+||.|+|++++++.+
T Consensus       232 ~~g~Di~~gK~T~p~i~a~~~a  253 (290)
T d1rtra_         232 KVGSDLENNKSTYVSLLGKDGA  253 (290)
T ss_dssp             ----------CCHHHHHHHHHH
T ss_pred             CcccHhhcCCccHHHHHHHHHH
Confidence            9999999999999999998764

>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=99.74  E-value=4.1e-18  Score=151.67  Aligned_cols=140  Identities=21%  Similarity=0.240  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHhcCCChHH-HHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhccCC
Q psy17022        110 IANCVKASAMLGGADDKL-SEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGA  188 (287)
Q Consensus       110 ~~~~~~~g~~la~~~~~~-~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~la~~  188 (287)
                      +..++.+.+......... ......+....|..-++...++|+..............+...|+++++.+++..++.+++.
T Consensus       115 ~~~a~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~GQ~~Dl~~~~~~~~~~~~~~i~~~KT~~l~~~~~~~~a~~~~~  194 (290)
T d1rtra_         115 LTKAFELISSDDRLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTFAVMSAADIANV  194 (290)
T ss_dssp             HHHHHHHHHTCTTSCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTSCCCHHHHHHHHHHHTHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHhCCCcchhhHhHHHHHHHHHHhHHHHHHhHHHHHHhcccCCCHHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Confidence            455555555544444433 3344444455444444445555555544445556677888999999999999999999999


Q ss_pred             ChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCcc
Q psy17022        189 DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE  249 (287)
Q Consensus       189 ~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~  249 (287)
                      +++..+.+.+||.++|++||++||++|++++++.+|||+|+|+++||+|||++++++.+.+
T Consensus       195 ~~~~~~~l~~~g~~lG~aFQi~DD~lD~~g~~~~~GK~~g~Di~~gK~T~p~i~a~~~a~~  255 (290)
T d1rtra_         195 DDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLLGKDGAED  255 (290)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-------------CCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhccCcccHhhcCCccHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999998644

>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=99.68  E-value=4.3e-17  Score=145.57  Aligned_cols=140  Identities=21%  Similarity=0.239  Sum_probs=100.2

Q ss_pred             HHHHHHHHHHhcCCCh---HHHHHHHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhhhhhc-
Q psy17022        110 IANCVKASAMLGGADD---KLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAML-  185 (287)
Q Consensus       110 ~~~~~~~g~~la~~~~---~~~~~l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~ga~l-  185 (287)
                      +..++...+.+.....   ..+..+..+....|+.--+...++|+..............+...|+++++.+++..++.+ 
T Consensus       118 ~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~GQ~ldl~~~~~~~~~~~~~~i~~~KT~~l~~~~~~~~a~~~  197 (299)
T d1rqja_         118 QTLAFSILSDADMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRAAVRLGALSA  197 (299)
T ss_dssp             HHHHHHHHHHSCCTTCCHHHHHHHHHHHHHHHSTTTHHHHHHHHHHTTTTCCCHHHHHHHHHHHTHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCCCccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhccCcccHHHHHHHHHHHHhhHHHHHHHhhhhhh
Confidence            5555555555544322   223444555555443322223333333322333345567778999999999999887755 


Q ss_pred             cCCChHHHHHHHHhhhhhchhhHHHHHHHHhhhhccccCCCchhhHhhCCChHHHHHhhhhCcc
Q psy17022        186 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKFPE  249 (287)
Q Consensus       186 a~~~~~~~~~l~~~g~~lG~afQi~DDlld~~~~~~~~gK~~g~Dl~~gk~Tlp~i~al~~~~~  249 (287)
                      ++.+++..+.+.+||.++|++|||+||++|++++++.+|||+|+|+++||+|||++++++++.+
T Consensus       198 ~~~~~~~~~~l~~~g~~lGiaFQi~DD~lD~~~~~~~~GK~~g~Dl~egK~Tlp~i~~le~a~~  261 (299)
T d1rqja_         198 GDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARK  261 (299)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSSCTTHHHHHTCCCHHHHHCHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhcCCchhhHHHCCChhHHHHHHHHHHHH
Confidence            4566667788999999999999999999999999999999999999999999999999998644

>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=99.46  E-value=5.1e-14  Score=124.87  Aligned_cols=83  Identities=23%  Similarity=0.207  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHH
Q psy17022         51 FAHYLTKTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEV  130 (287)
Q Consensus        51 ~~~~~~~~~~kt~~l~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~  130 (287)
                      +++|+..+..||++||..++..+  .+..|..-++          .+|                                
T Consensus       136 ~~~y~~ii~~KT~~Lf~~~~~~g--a~~~~~~~~l----------~~~--------------------------------  171 (291)
T d2q80a1         136 EEEYKAMVLQKTGGLFGLAVGLM--QLFSDYKEDL----------KPL--------------------------------  171 (291)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH--HHTCCCCSCC----------HHH--------------------------------
T ss_pred             HHHHHHHHHhccchhhHhhhhhh--hhhcccchhh----------HHH--------------------------------
Confidence            57899999999999999887643  1222221111          111                                


Q ss_pred             HHHHHHHHhHHHHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhhh
Q psy17022        131 AFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK  181 (287)
Q Consensus       131 l~~~g~~~G~afQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~~  181 (287)
                      ...+|.    +|||+||++|+++++..+|||+++|+.+||.|+|++++++.
T Consensus       172 g~~lG~----afQi~DD~ld~~~~~~~~GK~~g~Dl~~gK~Tlpvi~al~~  218 (291)
T d2q80a1         172 LNTLGL----FFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWS  218 (291)
T ss_dssp             HHHHHH----HHHHHHHHHHHHCC------CTTHHHHHTCCCHHHHHHHHH
T ss_pred             HHHHHH----HHHHHHHhhhhccchhhccccccchhccCCCcHHHHHHHHh
Confidence            112333    69999999999999999999999999999999999999875

>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=98.35  E-value=3.1e-07  Score=82.29  Aligned_cols=54  Identities=20%  Similarity=0.106  Sum_probs=43.3

Q ss_pred             hhhHhhhhhhhhH--hhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        164 ADLKLGLATAPVL--FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       164 ~Di~~~K~t~~~l--~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      -.+...|++.++.  .++..+++.++.+++..+.+.+||.++|++|||.||++|++
T Consensus       189 ~~~i~~KTa~l~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~lGiaFQI~DDilD~~  244 (348)
T d1fpsa_         189 KAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCF  244 (348)
T ss_dssp             HHHHHHHTHHHHTHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHhhhhccccchhhccccccccchHHHHHHHHhhhh
Confidence            3456788887733  34445666677888999999999999999999999999985

>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=98.10  E-value=2.8e-06  Score=73.67  Aligned_cols=54  Identities=26%  Similarity=0.403  Sum_probs=46.7

Q ss_pred             ccchhhhHhhhhhhhhHhhhhhhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHh
Q psy17022        160 KPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDF  216 (287)
Q Consensus       160 k~~~~Di~~~K~t~~~l~a~~~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~  216 (287)
                      ......+...|++.++.++++.|+++++...+   .+.+||.++|++|||.||++|+
T Consensus       148 ~~~y~~~i~~KT~~lf~~~~~~ga~l~g~~~~---~l~~~g~~lG~afQi~DD~ld~  201 (280)
T d1v4ea_         148 KEEYLRIVEGKSGALFGLALQLPALLEGELGE---DLYNLGVTIGTIYQMFDDIMDF  201 (280)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHHHHHTCCCH---HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHccccHH---HHHHHHHHHHHHHHHHHhhccc
Confidence            44566778999999999999999999885543   5789999999999999999995

>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=81.73  E-value=13  Score=30.97  Aligned_cols=160  Identities=12%  Similarity=0.070  Sum_probs=93.9

Q ss_pred             hHHHHHHHHHHHhhhhhhhhhhhccCccchhhhHHHHHHHhhhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhHH
Q psy17022         62 TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIA  141 (287)
Q Consensus        62 t~~l~~~~~~~~~~~~~~GQ~~d~~~~~~~~~~~~~y~~~~~~KTg~L~~~~~~~g~~la~~~~~~~~~l~~~g~~~G~a  141 (287)
                      +..............|..|+..++..   .-.|++++..=+++=.|..-.+.+.+-..- +......+....++.++|++
T Consensus        98 l~~~~~~~i~~~~~~m~~gm~d~~~~---~~~t~~dL~~Ycy~VAG~VG~~l~~l~~~~-~~~~~~~~~~~~~A~~lG~A  173 (333)
T d1ezfa_          98 LAEKYQTVIADICRRMGIGMAEFLDK---HVTSEQEWDKYCHYVAGLVGIGLSRLFSAS-EFEDPLVGEDTERANSMGLF  173 (333)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHTS---CCCSHHHHHHHHHHHTHHHHHHHHHHHHHH-TSSCHHHHHCHHHHHHHHHH
T ss_pred             HHHHhccchHHHHHHHhccHHHHccC---cCCCHHHHHHHHHHHHHHHHHHHHHHhCcC-CCccccHHHHHHHHHHHHHH
Confidence            33334444455667777888777643   345667776666666777666666654443 22333444567889999999


Q ss_pred             HHhhhhhhhhccCccccCccchhhhHhhhhhhhhHhhhh----hhhhccCCChHHHHHHHHhhhhhchhhHHHHHHHHhh
Q psy17022        142 FQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE----KSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI  217 (287)
Q Consensus       142 fQi~dD~~d~~~~~~~~Gk~~~~Di~~~K~t~~~l~a~~----~ga~la~~~~~~~~~l~~~g~~lG~afQi~DDlld~~  217 (287)
                      +|+.|=+.|+           .+|...|..-+|.-.-.+    ...+..+...+..  ..-+-.-+..+-+.+++.+.|+
T Consensus       174 lQltNIlRDi-----------~eD~~~gR~YlP~e~l~~~g~~~~dl~~~~~~~~~--~~~~~~l~~~A~~~~~~a~~y~  240 (333)
T d1ezfa_         174 LQKTNIIRDY-----------LEDQQGGREFWPQEVWSRYVKKLGDFAKPENIDLA--VQCLNELITNALHHIPDVITYL  240 (333)
T ss_dssp             HHHHHHHHTH-----------HHHHHHTCCCSCHHHHTTTCSSGGGGGSGGGHHHH--HHHHHHHHHHHHTTHHHHHHHH
T ss_pred             HHHHHHHHhh-----------HHHHhCCcEECCHHHHHHcCCCHHHHHhccchHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999886           567777777777654332    2222222222111  1122345566667777777776


Q ss_pred             hhccccCCCchhhHhhCCChHHHHHhhh
Q psy17022        218 SSSDAMGKPTAADLKLGLATAPVLFACE  245 (287)
Q Consensus       218 ~~~~~~gK~~g~Dl~~gk~Tlp~i~al~  245 (287)
                      ..-.   +   .. ...-+.+|.+++.-
T Consensus       241 ~~lp---~---~~-~~~~~~~~~~~a~~  261 (333)
T d1ezfa_         241 SRLR---N---QS-VFNFCAIPQVMAIA  261 (333)
T ss_dssp             HTCC---C---HH-HHHHHHHHHHHHHH
T ss_pred             HHCC---c---hh-HHHHHHHHHHHHHH
Confidence            5422   1   11 22456677777655