BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 039084
(87 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PYA|A Chain A, Crystal Structure Of Ent-Copalyl Diphosphate Synthase
From Arabidopsis Thaliana In Complex With
(S)-15-Aza-14,15-Dihydrogeranylgeranyl
Thiolodiphosphate
pdb|3PYB|A Chain A, Crystal Structure Of Ent-Copalyl Diphosphate Synthase
From Arabidopsis Thaliana In Complex With
13-Aza-13,14-Dihydrocopalyl Diphosphate
pdb|3PYB|B Chain B, Crystal Structure Of Ent-Copalyl Diphosphate Synthase
From Arabidopsis Thaliana In Complex With
13-Aza-13,14-Dihydrocopalyl Diphosphate
pdb|3PYB|C Chain C, Crystal Structure Of Ent-Copalyl Diphosphate Synthase
From Arabidopsis Thaliana In Complex With
13-Aza-13,14-Dihydrocopalyl Diphosphate
Length = 727
Score = 107 bits (266), Expect = 2e-24, Method: Composition-based stats.
Identities = 51/82 (62%), Positives = 62/82 (75%), Gaps = 4/82 (4%)
Query: 2 IKLMLGSMGDGELGISAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDK 61
+K +L ++ DGE+ ISAYDTAWVALI D D P FPS +KWIA+NQL GSWGD
Sbjct: 18 VKTILRNLTDGEITISAYDTAWVALI---DAGD-KTPAFPSAVKWIAENQLSDGSWGDAY 73
Query: 62 VFLAHDRLINTLACIVALKSWD 83
+F HDRLINTLAC+VAL+SW+
Sbjct: 74 LFSYHDRLINTLACVVALRSWN 95
>pdb|3S9V|A Chain A, Abietadiene Synthase From Abies Grandis
pdb|3S9V|B Chain B, Abietadiene Synthase From Abies Grandis
pdb|3S9V|C Chain C, Abietadiene Synthase From Abies Grandis
pdb|3S9V|D Chain D, Abietadiene Synthase From Abies Grandis
Length = 785
Score = 94.0 bits (232), Expect = 2e-20, Method: Composition-based stats.
Identities = 45/81 (55%), Positives = 53/81 (65%), Gaps = 2/81 (2%)
Query: 2 IKLMLGSMGDGELGISAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDK 61
IK M MG GE SAYDTAWVA I +DGSD P FP ++WI NQL GSWG+
Sbjct: 40 IKNMFRCMGYGETNPSAYDTAWVARIPAVDGSD--NPHFPETVEWILQNQLKDGSWGEGF 97
Query: 62 VFLAHDRLINTLACIVALKSW 82
FLA+DR++ TLACI+ L W
Sbjct: 98 YFLAYDRILATLACIITLTLW 118
>pdb|3SAE|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDQ|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDR|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDT|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDU|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
pdb|3SDV|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A
Prospective Target For Advanced Biofuels Production
Length = 817
Score = 82.8 bits (203), Expect = 4e-17, Method: Composition-based stats.
Identities = 45/86 (52%), Positives = 52/86 (60%), Gaps = 6/86 (6%)
Query: 2 IKLMLGS--MGDGELGI--SAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSW 57
IK ML GDGE I SAYDTAWVA + IDGS PQFP + WI NQL GSW
Sbjct: 63 IKAMLNPAITGDGESMITPSAYDTAWVARVPAIDGS--ARPQFPQTVDWILKNQLKDGSW 120
Query: 58 GDDKVFLAHDRLINTLACIVALKSWD 83
G FL DRL+ TL+C++ L W+
Sbjct: 121 GIQSHFLLSDRLLATLSCVLVLLKWN 146
>pdb|3P5P|A Chain A, Crystal Structure Of Taxadiene Synthase From Pacific Yew
(Taxus Brevifolia) In Complex With Mg2+ And
13-Aza-13,14-Dihydrocopalyl Diphosphate
pdb|3P5R|A Chain A, Crystal Structure Of Taxadiene Synthase From Pacific Yew
(Taxus Brevifolia) In Complex With Mg2+ And
2-Fluorogeranylgeranyl Diphosphate
pdb|3P5R|B Chain B, Crystal Structure Of Taxadiene Synthase From Pacific Yew
(Taxus Brevifolia) In Complex With Mg2+ And
2-Fluorogeranylgeranyl Diphosphate
Length = 764
Score = 82.4 bits (202), Expect = 5e-17, Method: Composition-based stats.
Identities = 37/81 (45%), Positives = 49/81 (60%)
Query: 2 IKLMLGSMGDGELGISAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDK 61
IK M ++GDG++ SAYDTAWVA + I P+FP L W+ +NQL GSWG +
Sbjct: 17 IKDMFNALGDGDISPSAYDTAWVARLATISSDGSEKPRFPQALNWVFNNQLQDGSWGIES 76
Query: 62 VFLAHDRLINTLACIVALKSW 82
F DRL+NT ++AL W
Sbjct: 77 HFSLCDRLLNTTNSVIALSVW 97
>pdb|3SQC|A Chain A, Squalene-Hopene Cyclase
pdb|3SQC|B Chain B, Squalene-Hopene Cyclase
pdb|3SQC|C Chain C, Squalene-Hopene Cyclase
Length = 631
Score = 30.0 bits (66), Expect = 0.34, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 17/42 (40%)
Query: 19 YDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDD 60
Y T V G D P L W+ +Q P G WG+D
Sbjct: 495 YGTGAVVSALKAVGIDTREPYIQKALDWVEQHQNPDGGWGED 536
>pdb|2SQC|A Chain A, Squalene-Hopene Cyclase From Alicyclobacillus
Acidocaldarius
pdb|2SQC|B Chain B, Squalene-Hopene Cyclase From Alicyclobacillus
Acidocaldarius
Length = 631
Score = 30.0 bits (66), Expect = 0.34, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 17/42 (40%)
Query: 19 YDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDD 60
Y T V G D P L W+ +Q P G WG+D
Sbjct: 495 YGTGAVVSALKAVGIDTREPYIQKALDWVEQHQNPDGGWGED 536
>pdb|1GSZ|A Chain A, Crystal Structure Of A Squalene Cyclase In Complex With
The Potential Anticholesteremic Drug Ro48-8071
pdb|1GSZ|B Chain B, Crystal Structure Of A Squalene Cyclase In Complex With
The Potential Anticholesteremic Drug Ro48-8071
pdb|1GSZ|C Chain C, Crystal Structure Of A Squalene Cyclase In Complex With
The Potential Anticholesteremic Drug Ro48-8071
pdb|1H35|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H35|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H35|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H36|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H36|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H36|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H37|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H37|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H37|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H39|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H39|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H39|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3A|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3A|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3A|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3B|A Chain A, Squalene-Hopene Cyclase
pdb|1H3B|B Chain B, Squalene-Hopene Cyclase
pdb|1H3B|C Chain C, Squalene-Hopene Cyclase
pdb|1H3C|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3C|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1H3C|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6H|A Chain A, Squalene-Hopene Cyclase
pdb|1O6H|B Chain B, Squalene-Hopene Cyclase
pdb|1O6H|C Chain C, Squalene-Hopene Cyclase
pdb|1O6Q|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6Q|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6Q|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6R|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6R|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O6R|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O79|A Chain A, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O79|B Chain B, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1O79|C Chain C, Structures Of Human Oxidosqualene Cyclase Inhibitors Bound
To A Homolgous Enzyme
pdb|1UMP|A Chain A, Geometry Of Triterpene Conversion To Pentacarbocyclic
Hopene
pdb|1UMP|B Chain B, Geometry Of Triterpene Conversion To Pentacarbocyclic
Hopene
pdb|1UMP|C Chain C, Geometry Of Triterpene Conversion To Pentacarbocyclic
Hopene
pdb|1SQC|A Chain A, Squalene-Hopene-Cyclase From Alicyclobacillus
Acidocaldarius
Length = 631
Score = 30.0 bits (66), Expect = 0.35, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 17/42 (40%)
Query: 19 YDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDD 60
Y T V G D P L W+ +Q P G WG+D
Sbjct: 495 YGTGAVVSALKAVGIDTREPYIQKALDWVEQHQNPDGGWGED 536
>pdb|2E74|B Chain B, Crystal Structure Of The Cytochrome B6f Complex From
M.Laminosus
pdb|2E75|B Chain B, Crystal Structure Of The Cytochrome B6f Complex With
2-nonyl-4- Hydroxyquinoline N-oxide (nqno) From
M.laminosus
pdb|2E76|B Chain B, Crystal Structure Of The Cytochrome B6f Complex With
Tridecyl- Stigmatellin (Tds) From M.Laminosus
pdb|4H0L|B Chain B, Cytochrome B6f Complex Crystal Structure From
Mastigocladus Laminosus With N-side Inhibitor Nqno
pdb|4H13|B Chain B, Crystal Structure Of The Cytochrome B6f Complex From
Mastigocladus Laminosus With Tds
Length = 160
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 27 IKNIDGSDINAPQFPSCL-KWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSWDAH 85
+ + D++ P+ + L K + N +W +D +++ ++ T ACIVAL D
Sbjct: 1 MATLKKPDLSDPKLRAKLAKGMGHNYYGEPAWPNDLLYVFPVVIMGTFACIVALSVLDPA 60
Query: 86 L 86
+
Sbjct: 61 M 61
>pdb|1VF5|B Chain B, Crystal Structure Of Cytochrome B6f Complex From
M.Laminosus
pdb|1VF5|O Chain O, Crystal Structure Of Cytochrome B6f Complex From
M.Laminosus
pdb|2D2C|B Chain B, Crystal Structure Of Cytochrome B6f Complex With Dbmib
From M. Laminosus
pdb|2D2C|O Chain O, Crystal Structure Of Cytochrome B6f Complex With Dbmib
From M. Laminosus
Length = 160
Score = 25.8 bits (55), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 27 IKNIDGSDINAPQFPSCL-KWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSWDAH 85
+ + D++ P+ + L K + N +W +D +++ ++ T ACIVAL D
Sbjct: 1 MATLKKPDLSDPKLRAKLAKGMGHNYYGEPAWPNDLLYVFPVVIMGTFACIVALSVLDPA 60
Query: 86 L 86
+
Sbjct: 61 M 61
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.138 0.455
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,022,970
Number of Sequences: 62578
Number of extensions: 112972
Number of successful extensions: 190
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 175
Number of HSP's gapped (non-prelim): 14
length of query: 87
length of database: 14,973,337
effective HSP length: 55
effective length of query: 32
effective length of database: 11,531,547
effective search space: 369009504
effective search space used: 369009504
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)