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= 022527
(295 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 248 bits (634), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 123/249 (49%), Positives = 167/249 (67%), Gaps = 6/249 (2%)
Query: 1 MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGL 60
++ F +S F L + YQ I DI +RMG GMA+F+ K V S ++D+YC+YVAGLVG+
Sbjct: 95 LEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGI 154
Query: 61 GLSKLFYASGTED--LAPDS-LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSK 117
GLS+LF AS ED + D+ +NSMGLFLQKTNIIRDYLED R FWP+E+WS+
Sbjct: 155 GLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQ---GGREFWPQEVWSR 211
Query: 118 YVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIG 177
YV KL D EN D AVQCLN+++TNAL H+ D + Y+S LR+ ++F FCAIPQ+MAI
Sbjct: 212 YVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSRLRNQSVFNFCAIPQVMAIA 271
Query: 178 TLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATK 237
TLA CYNN +VF+G VK+R+G ++ NM V Y + + +I +DP+++K
Sbjct: 272 TLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIYQYMEEIYHRIPDSDPSSSK 331
Query: 238 TLSRVEAIQ 246
T + I+
Sbjct: 332 TRQIISTIR 340
>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 = 248 bits (634), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 123/249 (49%), Positives = 167/249 (67%), Gaps = 6/249 (2%)
Query: 1 MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGL 60
++ F +S F L + YQ I DI +RMG GMA+F+ K V S ++D+YC+YVAGLVG+
Sbjct: 92 LEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGI 151
Query: 61 GLSKLFYASGTED--LAPDS-LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSK 117
GLS+LF AS ED + D+ +NSMGLFLQKTNIIRDYLED R FWP+E+WS+
Sbjct: 152 GLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQ---GGREFWPQEVWSR 208
Query: 118 YVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIG 177
YV KL D EN D AVQCLN+++TNAL H+ D + Y+S LR+ ++F FCAIPQ+MAI
Sbjct: 209 YVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSRLRNQSVFNFCAIPQVMAIA 268
Query: 178 TLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATK 237
TLA CYNN +VF+G VK+R+G ++ NM V Y + + +I +DP+++K
Sbjct: 269 TLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIYQYMEEIYHRIPDSDPSSSK 328
Query: 238 TLSRVEAIQ 246
T + I+
Sbjct: 329 TRQIISTIR 337
>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 = 248 bits (634), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 123/249 (49%), Positives = 167/249 (67%), Gaps = 6/249 (2%)
Query: 1 MDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEVESIDDYDEYCYYVAGLVGL 60
++ F +S F L + YQ I DI +RMG GMA+F+ K V S ++D+YC+YVAGLVG+
Sbjct: 92 LEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGI 151
Query: 61 GLSKLFYASGTED--LAPDS-LSNSMGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSK 117
GLS+LF AS ED + D+ +NSMGLFLQKTNIIRDYLED R FWP+E+WS+
Sbjct: 152 GLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQ---GGREFWPQEVWSR 208
Query: 118 YVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIG 177
YV KL D EN D AVQCLN+++TNAL H+ D + Y+S LR+ ++F FCAIPQ+MAI
Sbjct: 209 YVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSRLRNQSVFNFCAIPQVMAIA 268
Query: 178 TLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATK 237
TLA CYNN +VF+G VK+R+G ++ NM V Y + + +I +DP+++K
Sbjct: 269 TLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIYQYMEEIYHRIPDSDPSSSK 328
Query: 238 TLSRVEAIQ 246
T + I+
Sbjct: 329 TRQIISTIR 337
>pdb|3AE0|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Geranylgeranyl Thiopyrophosphate
pdb|3AE0|B Chain B, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Geranylgeranyl Thiopyrophosphate
Length = 293
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 7/70 (10%)
Query: 50 YCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDI-NEIPKCRM 108
YCY VAG VG L+ + S E ++ +G LQ NI+RD ED NE R+
Sbjct: 135 YCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRDVGEDFENE----RI 188
Query: 109 FWPREIWSKY 118
++ ++ +Y
Sbjct: 189 YFSKQRLKQY 198
>pdb|3VJD|A Chain A, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid
Dehydrosqualene Synthase From Staphylococcus Aureus
pdb|3VJE|A Chain A, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid
Dehydrosqualene Synthase From Staphylococcus Aureus In
Complex With Zaragozic Acid A
pdb|3VJE|B Chain B, Crystal Structure Of The Y248a Mutant Of C(30) Carotenoid
Dehydrosqualene Synthase From Staphylococcus Aureus In
Complex With Zaragozic Acid A
Length = 293
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 7/70 (10%)
Query: 50 YCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDI-NEIPKCRM 108
YCY VAG VG L+ + S E ++ +G LQ NI+RD ED NE R+
Sbjct: 135 YCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRDVGEDFENE----RI 188
Query: 109 FWPREIWSKY 118
++ ++ +Y
Sbjct: 189 YFSKQRLKQY 198
>pdb|2ZCO|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus
pdb|2ZCP|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Farnesyl Thiopyrophosphate
pdb|2ZCP|B Chain B, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Farnesyl Thiopyrophosphate
pdb|2ZCQ|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bisphosphonate Bph-652
pdb|2ZCR|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bisphosphonate Bph-698
pdb|2ZCS|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bisphosphonate Bph-700
pdb|2ZY1|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bisphosphonate Bph-830
pdb|3ACW|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bph-651
pdb|3ACX|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bph-673
pdb|3ACY|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Bph-702
pdb|3NPR|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From S. Aureus Complexed With Presqualene
Diphosphate (Pspp)
pdb|3NRI|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From S. Aureus Complexed With Dehydrosqualene
(Dhs)
pdb|3TFN|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1183
pdb|3TFP|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1162
pdb|3TFV|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1154
Length = 293
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 7/70 (10%)
Query: 50 YCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDI-NEIPKCRM 108
YCY VAG VG L+ + S E ++ +G LQ NI+RD ED NE R+
Sbjct: 135 YCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRDVGEDFENE----RI 188
Query: 109 FWPREIWSKY 118
++ ++ +Y
Sbjct: 189 YFSKQRLKQY 198
>pdb|4E9U|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With A Thiocyanate Inhibitor
pdb|4E9Z|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Quinuclidine Bph-651 In The S1
Site
pdb|4EA0|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Diphosphate And Quinuclidine
Bph-651
pdb|4EA0|B Chain B, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Diphosphate And Quinuclidine
Bph-651
pdb|4EA1|A Chain A, Co-Crystal Structure Of Dehydrosqualene Synthase (Crtm)
From S. Aureus With Sq-109
pdb|4EA2|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm)
Aureus Complexed With Sq-109
Length = 287
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 7/70 (10%)
Query: 50 YCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDI-NEIPKCRM 108
YCY VAG VG L+ + S E ++ +G LQ NI+RD ED NE R+
Sbjct: 129 YCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRDVGEDFENE----RI 182
Query: 109 FWPREIWSKY 118
++ ++ +Y
Sbjct: 183 YFSKQRLKQY 192
>pdb|4F6V|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1034, Mg2+ And Fmp.
pdb|4F6X|A Chain A, Crystal Structure Of Dehydrosqualene Synthase (Crtm) From
S. Aureus Complexed With Bph-1112
Length = 292
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 7/70 (10%)
Query: 50 YCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRDYLEDI-NEIPKCRM 108
YCY VAG VG L+ + S E ++ +G LQ NI+RD ED NE R+
Sbjct: 134 YCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRDVGEDFENE----RI 187
Query: 109 FWPREIWSKY 118
++ ++ +Y
Sbjct: 188 YFSKQRLKQY 197
>pdb|1XWY|A Chain A, Crystal Structure Of Tatd Deoxyribonuclease From
Escherichia Coli K12 At 2.0 A Resolution
Length = 264
Score = 31.6 bits (70), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 27/135 (20%), Positives = 57/135 (42%), Gaps = 7/135 (5%)
Query: 124 DLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCY 183
+L+ + + K + + + A +H D ++ +A + AI A P+++AIG L +
Sbjct: 42 NLRESQQAQKLARQYSSCWSTAGVHPHDSSQWQAATEE-AIIELAAQPEVVAIGECGLDF 100
Query: 184 NNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYD----FSNILKPKINKNDPNATKTL 239
N F + R A++ + V++ D F +L+P ++K
Sbjct: 101 NR--NFSTPEEQERAFVAQLRIAADLNMPVFMHCRDAHERFMTLLEPWLDKLPGAVLHCF 158
Query: 240 SRVEAIQKACMDSGV 254
+ +AC+ G+
Sbjct: 159 TGTREEMQACVAHGI 173
>pdb|2DN9|A Chain A, Solution Structure Of J-Domain From The Dnaj Homolog,
Human Tid1 Protein
Length = 79
Score = 27.7 bits (60), Expect = 7.7, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 204 IDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLSRVEAIQKACMDSGVLNKRKSY 261
+ R + ++ A+Y + P NK+DP A + S++ + D KRK Y
Sbjct: 15 VPRNASQKEIKKAYYQLAKKYHPDTNKDDPKAKEKFSQLAEAYEVLSDE---VKRKQY 69
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
0.321 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,891,616
Number of Sequences: 62578
Number of extensions: 316280
Number of successful extensions: 758
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 748
Number of HSP's gapped (non-prelim): 11
length of query: 295
length of database: 14,973,337
effective HSP length: 98
effective length of query: 197
effective length of database: 8,840,693
effective search space: 1741616521
effective search space used: 1741616521
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: 51 (24.3 bits)