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= 027637
(221 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 = 191 bits (485), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 92/162 (56%), Positives = 120/162 (74%), Gaps = 2/162 (1%)
Query: 60 SASNEIKKLDHIIKSMLGSMDGGEISTSAYDTAWVALIKDIDGNDAPQFPSCLQWIADNQ 119
S SN K+ +K++L ++ GEI+ SAYDTAWVALI G+ P FPS ++WIA+NQ
Sbjct: 6 SNSNAFKEAVKSVKTILRNLTDGEITISAYDTAWVALIDA--GDKTPAFPSAVKWIAENQ 63
Query: 120 LPDGSWGDDKIFLAHDRLINTLACIVALKSWNIHLDKCEKGISFVKGNLSKLENENEEHT 179
L DGSWGD +F HDRLINTLAC+VAL+SWN+ +C KGI+F + N+ KLE+EN+EH
Sbjct: 64 LSDGSWGDAYLFSYHDRLINTLACVVALRSWNLFPHQCNKGITFFRENIGKLEDENDEHM 123
Query: 180 TCGFEVAFPSLLEIARSLDIEIPDHSHVLQNIYAMRNFKLKR 221
GFEVAFPSLLEIAR ++I++P S VL++IYA + KL R
Sbjct: 124 PIGFEVAFPSLLEIARGINIDVPYDSPVLKDIYAKKELKLTR 165
>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 = 149 bits (376), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 74/166 (44%), Positives = 104/166 (62%), Gaps = 2/166 (1%)
Query: 58 EVSASNE--IKKLDHIIKSMLGSMDGGEISTSAYDTAWVALIKDIDGNDAPQFPSCLQWI 115
+V+AS+E I+ L IK+M M GE + SAYDTAWVA I +DG+D P FP ++WI
Sbjct: 24 KVAASDEKRIETLISEIKNMFRCMGYGETNPSAYDTAWVARIPAVDGSDNPHFPETVEWI 83
Query: 116 ADNQLPDGSWGDDKIFLAHDRLINTLACIVALKSWNIHLDKCEKGISFVKGNLSKLENEN 175
NQL DGSWG+ FLA+DR++ TLACI+ L W + +KGI F + K+E+E
Sbjct: 84 LQNQLKDGSWGEGFYFLAYDRILATLACIITLTLWRTGETQVQKGIEFFRTQAGKMEDEA 143
Query: 176 EEHTTCGFEVAFPSLLEIARSLDIEIPDHSHVLQNIYAMRNFKLKR 221
+ H GFE+ FP++L+ A+ L +++P L+ I R KLKR
Sbjct: 144 DSHRPSGFEIVFPAMLKEAKILGLDLPYDLPFLKQIIEKREAKLKR 189
>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 = 126 bits (316), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 69/158 (43%), Positives = 95/158 (60%), Gaps = 8/158 (5%)
Query: 72 IKSMLGSMDGGE----ISTSAYDTAWVALIKDIDGNDAPQFPSCLQWIADNQLPDGSWGD 127
IK+ML G+ I+ SAYDTAWVA + IDG+ PQFP + WI NQL DGSWG
Sbjct: 63 IKAMLNPAITGDGESMITPSAYDTAWVARVPAIDGSARPQFPQTVDWILKNQLKDGSWGI 122
Query: 128 DKIFLAHDRLINTLACIVALKSWNIHLDKCEKGISFVKGNLSKLENENEEHT-TCGFEVA 186
FL DRL+ TL+C++ L WN+ + E+GI F+K NL +++E ++ + FE+
Sbjct: 123 QSHFLLSDRLLATLSCVLVLLKWNVGDLQVEQGIEFIKSNLELVKDETDQDSLVTDFEII 182
Query: 187 FPSLLEIARSLDIEIP---DHSHVLQNIYAMRNFKLKR 221
FPSLL A+SL + +P + H+LQ R KL R
Sbjct: 183 FPSLLREAQSLRLGLPYDLPYIHLLQTKRQERLAKLSR 220
>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 = 112 bits (280), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 58/150 (38%), Positives = 88/150 (58%), Gaps = 4/150 (2%)
Query: 72 IKSMLGSMDGGEISTSAYDTAWVALIKDI--DGNDAPQFPSCLQWIADNQLPDGSWGDDK 129
IK M ++ G+IS SAYDTAWVA + I DG++ P+FP L W+ +NQL DGSWG +
Sbjct: 17 IKDMFNALGDGDISPSAYDTAWVARLATISSDGSEKPRFPQALNWVFNNQLQDGSWGIES 76
Query: 130 IFLAHDRLINTLACIVALKSWNIHLDKCEKGISFVKGNLSKLENENEEHTTCGFEVAFPS 189
F DRL+NT ++AL W + ++G F+ NL L E+E + F++ FP+
Sbjct: 77 HFSLCDRLLNTTNSVIALSVWKTGHSQVQQGAEFIAENLRLLNEEDE--LSPDFQIIFPA 134
Query: 190 LLEIARSLDIEIPDHSHVLQNIYAMRNFKL 219
LL+ A++L I +P ++ + R +L
Sbjct: 135 LLQKAKALGINLPYDLPFIKYLSTTREARL 164
>pdb|1IHG|A Chain A, Bovine Cyclophilin 40, Monoclinic Form
pdb|1IIP|A Chain A, Bovine Cyclophilin 40, Tetragonal Form
Length = 370
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 8/81 (9%)
Query: 93 WVALIKDIDGNDAPQFPSCLQWIADNQLPDGSWGDDKIFLAHDRLINTLACIVALKSWNI 152
W KD G+ P FP AD L D DKI L + L N ++W +
Sbjct: 190 WGIFPKDGSGDSHPDFPE----DADVDLKD----VDKILLISEDLKNIGNTFFKSQNWEM 241
Query: 153 HLDKCEKGISFVKGNLSKLEN 173
+ K K + +V+G+ + E+
Sbjct: 242 AIKKYTKVLRYVEGSRAAAED 262
>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 = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 106 PQFPSCLQWIADNQLPDGSWGDD 128
P L W+ +Q PDG WG+D
Sbjct: 514 PYIQKALDWVEQHQNPDGGWGED 536
>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 = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 106 PQFPSCLQWIADNQLPDGSWGDD 128
P L W+ +Q PDG WG+D
Sbjct: 514 PYIQKALDWVEQHQNPDGGWGED 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 = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 106 PQFPSCLQWIADNQLPDGSWGDD 128
P L W+ +Q PDG WG+D
Sbjct: 514 PYIQKALDWVEQHQNPDGGWGED 536
>pdb|1M65|A Chain A, Ycdx Protein
pdb|1M68|A Chain A, Ycdx Protein, Trinuclear Zinc Site
pdb|1PB0|A Chain A, Ycdx Protein In Autoinhibited State
pdb|1PB0|B Chain B, Ycdx Protein In Autoinhibited State
pdb|1PB0|C Chain C, Ycdx Protein In Autoinhibited State
Length = 245
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 128 DKIFLAHDRLINTLACIVALKSWNIHL 154
+ +F HD+ NT A I + S N+H+
Sbjct: 102 EPVFAPHDKATNTQAMIATIASGNVHI 128
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
0.318 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,349,693
Number of Sequences: 62578
Number of extensions: 240530
Number of successful extensions: 503
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 475
Number of HSP's gapped (non-prelim): 25
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)