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= 040640
(195 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GP5|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Trans-Dihydroquercetin
pdb|1GP6|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Trans-Dihydroquercetin (With 30 Min Exposure To O2)
Length = 356
Score = 108 bits (269), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 59/198 (29%), Positives = 107/198 (54%), Gaps = 17/198 (8%)
Query: 1 LVNHGVSSSLVEKMRAETQKDFFDLPIEEKNKYWH--RPGDIEGFGQLFIASEEQKLDWG 58
L+NHG+ + L+E+++ + ++FF L +EEK KY + G I+G+G + +L+W
Sbjct: 82 LINHGIPADLMERVK-KAGEEFFSLSVEEKEKYANDQATGKIQGYGSKLANNASGQLEWE 140
Query: 59 YGFTIFTLPIHSRRPHLFPKLPLPFRDTLEVYLTEVKNLTLKMLDQMEKALRMDPNEMKE 118
F P R ++PK P + + Y ++ L K+ + L ++P+ +++
Sbjct: 141 DYFFHLAYPEEKRDLSIWPKTPSDYIEATSEYAKCLRLLATKVFKALSVGLGLEPDRLEK 200
Query: 119 -------------MNYDPPCQQPEQVIGLNSHSDASALTILLQINEMDGLQIKKDGNWVL 165
+NY P C QPE +G+ +H+D SALT +L N + GLQ+ +G WV
Sbjct: 201 EVGGLEELLLQMKINYYPKCPQPELALGVEAHTDVSALTFILH-NMVPGLQLFYEGKWVT 259
Query: 166 VKLLPDAFIINVGDVLDV 183
K +PD+ ++++GD L++
Sbjct: 260 AKCVPDSIVMHIGDTLEI 277
>pdb|2BRT|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Naringenin
Length = 355
Score = 108 bits (269), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 59/198 (29%), Positives = 107/198 (54%), Gaps = 17/198 (8%)
Query: 1 LVNHGVSSSLVEKMRAETQKDFFDLPIEEKNKYWH--RPGDIEGFGQLFIASEEQKLDWG 58
L+NHG+ + L+E+++ + ++FF L +EEK KY + G I+G+G + +L+W
Sbjct: 81 LINHGIPADLMERVK-KAGEEFFSLSVEEKEKYANDQATGKIQGYGSKLANNASGQLEWE 139
Query: 59 YGFTIFTLPIHSRRPHLFPKLPLPFRDTLEVYLTEVKNLTLKMLDQMEKALRMDPNEMKE 118
F P R ++PK P + + Y ++ L K+ + L ++P+ +++
Sbjct: 140 DYFFHLAYPEEKRDLSIWPKTPSDYIEATSEYAKCLRLLATKVFKALSVGLGLEPDRLEK 199
Query: 119 -------------MNYDPPCQQPEQVIGLNSHSDASALTILLQINEMDGLQIKKDGNWVL 165
+NY P C QPE +G+ +H+D SALT +L N + GLQ+ +G WV
Sbjct: 200 EVGGLEELLLQMKINYYPKCPQPELALGVEAHTDVSALTFILH-NMVPGLQLFYEGKWVT 258
Query: 166 VKLLPDAFIINVGDVLDV 183
K +PD+ ++++GD L++
Sbjct: 259 AKCVPDSIVMHIGDTLEI 276
>pdb|1GP4|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana
(Selenomethionine Substituted)
Length = 356
Score = 107 bits (267), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 59/198 (29%), Positives = 105/198 (53%), Gaps = 17/198 (8%)
Query: 1 LVNHGVSSSLVEKMRAETQKDFFDLPIEEKNKYWH--RPGDIEGFGQLFIASEEQKLDWG 58
L+NHG+ + L E+++ + ++FF L +EEK KY + G I+G+G + +L+W
Sbjct: 82 LINHGIPADLXERVK-KAGEEFFSLSVEEKEKYANDQATGKIQGYGSKLANNASGQLEWE 140
Query: 59 YGFTIFTLPIHSRRPHLFPKLPLPFRDTLEVYLTEVKNLTLKMLDQMEKALRMDPNEMKE 118
F P R ++PK P + + Y ++ L K+ + L ++P+ +++
Sbjct: 141 DYFFHLAYPEEKRDLSIWPKTPSDYIEATSEYAKCLRLLATKVFKALSVGLGLEPDRLEK 200
Query: 119 -------------MNYDPPCQQPEQVIGLNSHSDASALTILLQINEMDGLQIKKDGNWVL 165
+NY P C QPE +G+ +H+D SALT +L N + GLQ+ +G WV
Sbjct: 201 EVGGLEELLLQXKINYYPKCPQPELALGVEAHTDVSALTFILH-NXVPGLQLFYEGKWVT 259
Query: 166 VKLLPDAFIINVGDVLDV 183
K +PD+ + ++GD L++
Sbjct: 260 AKCVPDSIVXHIGDTLEI 277
>pdb|1W9Y|A Chain A, The Structure Of Acc Oxidase
pdb|1WA6|X Chain X, The Structure Of Acc Oxidase
Length = 319
Score = 70.9 bits (172), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 51/196 (26%), Positives = 92/196 (46%), Gaps = 21/196 (10%)
Query: 1 LVNHGVSSSLVEKMRAETQKDFFDLPIEEKNKYWHRPGDIEGFGQLFIASEEQKLDWGYG 60
LVNHG+ + + + T K + E++ K +EG + +E DW
Sbjct: 36 LVNHGIPREVXDTVEKXT-KGHYKKCXEQRFKELVASKALEG-----VQAEVTDXDWEST 89
Query: 61 FTIFTLPIHSRRPHLFPKLPLPFRDTLEVYLTEVKNLTLKMLDQMEKALRMDPNEMKEMN 120
F + LPI + P L +R+ + ++ L ++LD + + L ++ +K
Sbjct: 90 FFLKHLPISNISE--VPDLDEEYREVXRDFAKRLEKLAEELLDLLCENLGLEKGYLKNAF 147
Query: 121 YD-------------PPCQQPEQVIGLNSHSDASALTILLQINEMDGLQIKKDGNWVLVK 167
Y PPC +P+ + GL +H+DA + +L Q +++ GLQ+ KDG W+ V
Sbjct: 148 YGSKGPNFGTKVSNYPPCPKPDLIKGLRAHTDAGGIILLFQDDKVSGLQLLKDGQWIDVP 207
Query: 168 LLPDAFIINVGDVLDV 183
+ ++N+GD L+V
Sbjct: 208 PXRHSIVVNLGDQLEV 223
>pdb|3OOX|A Chain A, Crystal Structure Of A Putative 2og-Fe(Ii) Oxygenase
Family Protein (Cc_0200) From Caulobacter Crescentus At
1.44 A Resolution
pdb|3OOX|B Chain B, Crystal Structure Of A Putative 2og-Fe(Ii) Oxygenase
Family Protein (Cc_0200) From Caulobacter Crescentus At
1.44 A Resolution
Length = 312
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 43/187 (22%), Positives = 79/187 (42%), Gaps = 24/187 (12%)
Query: 17 ETQKDFFDLPIEEKNKYWHRPGDIEGFGQLFIASEEQ------KLDWGYGFTIFTLPIHS 70
++ K FF LP+E K +Y G G+ + + + K W G + P H
Sbjct: 53 DSAKAFFALPVETKKQYAGVKGGARGYIPFGVETAKGADHYDLKEFWHXGRDL--PPGHR 110
Query: 71 RRPH----LFPKLPLPFRDTLEVYLTEVKNLTLKMLDQMEKALRM----------DPNEM 116
R H ++P F+ + + K+L+ + L++ D N +
Sbjct: 111 FRAHXADNVWPAEIPAFKHDVSWLYNSLDGXGGKVLEAIATYLKLERDFFKPTVQDGNSV 170
Query: 117 KEMNYDPPCQQPEQVIGLNSHSDASALTILLQINEMDGLQI-KKDGNWVLVKLLPDAFII 175
+ + PP + + +H D + +T+LL E GL++ +DG W+ + P +I
Sbjct: 171 LRLLHYPPIPKDATGVRAGAHGDINTITLLLGAEE-GGLEVLDRDGQWLPINPPPGCLVI 229
Query: 176 NVGDVLD 182
N+GD L+
Sbjct: 230 NIGDXLE 236
>pdb|3ON7|A Chain A, Crystal Structure Of A Putative Oxygenase (So_2589) From
Shewanella Oneidensis At 2.20 A Resolution
pdb|3ON7|B Chain B, Crystal Structure Of A Putative Oxygenase (So_2589) From
Shewanella Oneidensis At 2.20 A Resolution
pdb|3ON7|C Chain C, Crystal Structure Of A Putative Oxygenase (So_2589) From
Shewanella Oneidensis At 2.20 A Resolution
pdb|3ON7|D Chain D, Crystal Structure Of A Putative Oxygenase (So_2589) From
Shewanella Oneidensis At 2.20 A Resolution
Length = 280
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 58/208 (27%), Positives = 90/208 (43%), Gaps = 40/208 (19%)
Query: 1 LVNHGVSSSLVEKMRAETQKDFFDLPIEEKNKYWHRPGDIEGFGQLFIASEEQKLDWGYG 60
L NH + LVE++ E Q FF+ E KN++ +GF I SE K G
Sbjct: 30 LSNHPIDKELVERIYTEWQA-FFNS--EAKNEFXFNRETHDGFFPASI-SETAK-----G 80
Query: 61 FTIFTLPIHSRRPHLFP--KLPLPFRDTLEVYLTEVKNLTLKMLDQMEKALRMDPNEMKE 118
T+ + + H++P ++P R + Y + L ++L+ +E P+E+K
Sbjct: 81 HTVKDIKEYY---HVYPWGRIPDSLRANILAYYEKANTLASELLEWIET---YSPDEIKA 134
Query: 119 --------------------MNYDPPCQQPEQ-VIGLNSHSDASALTILLQINEMDGLQI 157
++Y P E I +H D + +T+L NE GLQ+
Sbjct: 135 KFSIPLPEXIANSHKTLLRILHYPPXTGDEEXGAIRAAAHEDINLITVLPTANE-PGLQV 193
Query: 158 K-KDGNWVLVKLLPDAFIINVGDVLDVA 184
K KDG+W+ V IIN+GD L A
Sbjct: 194 KAKDGSWLDVPSDFGNIIINIGDXLQEA 221
>pdb|1SDD|A Chain A, Crystal Structure Of Bovine Factor Vai
Length = 306
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 130 QVIGLNSHSDASALTILLQINEMDGLQIKKDGNWVLVKLLPDAFIINVGDVLDV 183
QV+ N H SA+T++ + + + +G W + L+P F + +D+
Sbjct: 246 QVLEQNHH-KISAITLVSATSTTANMTVSPEGRWTIASLIPRHFQAGMQAYIDI 298
>pdb|3VJ8|A Chain A, Crystal Structure Of The Human Squalene Synthase
pdb|3VJ9|A Chain A, Crystal Structure Of The Human Squalene Synthase
pdb|3VJA|A Chain A, Crystal Structure Of The Human Squalene Synthase
pdb|3VJA|B Chain B, Crystal Structure Of The Human Squalene Synthase
pdb|3VJB|A Chain A, Crystal Structure Of The Human Squalene Synthase
pdb|3VJB|B Chain B, Crystal Structure Of The Human Squalene Synthase
pdb|3VJB|C Chain C, Crystal Structure Of The Human Squalene Synthase
pdb|3VJB|D Chain D, Crystal Structure Of The Human Squalene Synthase
pdb|3VJB|E Chain E, Crystal Structure Of The Human Squalene Synthase
pdb|3VJB|F Chain F, Crystal Structure Of The Human Squalene Synthase
pdb|3VJC|A Chain A, Crystal Structure Of The Human Squalene Synthase In
Complex With Zaragozic Acid A
pdb|3VJC|B Chain B, Crystal Structure Of The Human Squalene Synthase In
Complex With Zaragozic Acid A
pdb|3VJC|C Chain C, Crystal Structure Of The Human Squalene Synthase In
Complex With Zaragozic Acid A
pdb|3VJC|D Chain D, Crystal Structure Of The Human Squalene Synthase In
Complex With Zaragozic Acid A
pdb|3VJC|E Chain E, Crystal Structure Of The Human Squalene Synthase In
Complex With Zaragozic Acid A
pdb|3VJC|F Chain F, Crystal Structure Of The Human Squalene Synthase In
Complex With Zaragozic Acid A
Length = 343
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 76 FPKLPLPFRDTLEVYLTEVKNLTLKMLDQMEKALRMDPNEMKEMNYDPPCQQPEQVIGL 134
FP + L FR+ E Y T + ++ +M M + L D + E +D C ++G+
Sbjct: 98 FPTISLEFRNLAEKYQTVIADICRRMGIGMAEFL--DKHVTSEQEWDKYCHYVAGLVGI 154
>pdb|1EZF|A Chain A, Crystal Structure Of Human Squalene Synthase
pdb|1EZF|B Chain B, Crystal Structure Of Human Squalene Synthase
pdb|1EZF|C Chain C, Crystal Structure Of Human Squalene Synthase
Length = 340
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 76 FPKLPLPFRDTLEVYLTEVKNLTLKMLDQMEKALRMDPNEMKEMNYDPPCQQPEQVIGL 134
FP + L FR+ E Y T + ++ +M M + L D + E +D C ++G+
Sbjct: 95 FPTISLEFRNLAEKYQTVIADICRRMGIGMAEFL--DKHVTSEQEWDKYCHYVAGLVGI 151
>pdb|3LEE|A Chain A, Crystal Structure Of The Human Squalene Synthase Complexed
With Bph- 652
pdb|3LEE|B Chain B, Crystal Structure Of The Human Squalene Synthase Complexed
With Bph- 652
pdb|3LEE|C Chain C, Crystal Structure Of The Human Squalene Synthase Complexed
With Bph- 652
pdb|3LEE|D Chain D, Crystal Structure Of The Human Squalene Synthase Complexed
With Bph- 652
pdb|3LEE|E Chain E, Crystal Structure Of The Human Squalene Synthase Complexed
With Bph- 652
pdb|3LEE|F Chain F, Crystal Structure Of The Human Squalene Synthase Complexed
With Bph- 652
pdb|3ASX|A Chain A, Human Squalene Synthase In Complex With
1-{4-[{4-Chloro-2-[(2-
Chlorophenyl)(Hydroxy)methyl]phenyl}(2,
2-Dimethylpropyl)amino]-4-
Oxobutanoyl}piperidine-3-Carboxylic Acid
pdb|3Q2Z|A Chain A, Human Squalene Synthase In Complex With
N-[(3r,5s)-7-Chloro-5-(2,3-
Dimethoxyphenyl)-1-Neopentyl-2-Oxo-1,2,3,5-Tetrahydro-4,
1- Benzoxazepine-3-Acetyl]-L-Aspartic Acid
pdb|3Q30|A Chain A, Human Squalene Synthase In Complex With
(2r,3r)-2-Carboxymethoxy-3-[5-
(2-Naphthalenyl)pentyl]aminocarbonyl-3-[5-(2-
Naphthalenyl) Pentyloxy]propionic Acid
pdb|3V66|A Chain A, Human Squalene Synthase In Complex With
2-(1-{2-[(4r,6s)-8-Chloro-6-
(2,3-Dimethoxyphenyl)-4h,6h-Pyrrolo[1,2-A][4,
1]benzoxazepin-4- Yl]acetyl}-4-Piperidinyl)acetic Acid
Length = 340
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 76 FPKLPLPFRDTLEVYLTEVKNLTLKMLDQMEKALRMDPNEMKEMNYDPPCQQPEQVIGL 134
FP + L FR+ E Y T + ++ +M M + L D + E +D C ++G+
Sbjct: 95 FPTISLEFRNLAEKYQTVIADICRRMGIGMAEFL--DKHVTSEQEWDKYCHYVAGLVGI 151
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 0.141 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,900,095
Number of Sequences: 62578
Number of extensions: 237411
Number of successful extensions: 738
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 717
Number of HSP's gapped (non-prelim): 11
length of query: 195
length of database: 14,973,337
effective HSP length: 94
effective length of query: 101
effective length of database: 9,091,005
effective search space: 918191505
effective search space used: 918191505
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: 49 (23.5 bits)