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= 015087
(413 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 330 bits (845), Expect = 1e-90, Method: Compositional matrix adjust.
Identities = 164/328 (50%), Positives = 222/328 (67%), Gaps = 6/328 (1%)
Query: 40 CYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHR 99
CY L++ SRSFA VIQ L ++RNAVCIFYLVLRALDT+EDD +I + KVP+L FH
Sbjct: 13 CYKYLNQTSRSFAAVIQALDGEMRNAVCIFYLVLRALDTLEDDMTISVEKKVPLLHNFHS 72
Query: 100 HVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEV 159
+Y +W F ++ + +++ F +S F L + YQ I DI +RMG GMA+F+ K V
Sbjct: 73 FLYQPDWRFMESKEKDRQVLEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHV 132
Query: 160 ESIDDYDEYCYYVAGLVGLGLSKLFYASGTED--LAPDS-LSNSMGLFLQKTNIIRDYLE 216
S ++D+YC+YVAGLVG+GLS+LF AS ED + D+ +NSMGLFLQKTNIIRDYLE
Sbjct: 133 TSEQEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLE 192
Query: 217 DINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSA 276
D R FWP+E+WS+YV KL D EN D AVQCLN+++TNAL H+ D + Y+S
Sbjct: 193 DQQ---GGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSR 249
Query: 277 LRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFY 336
LR+ ++F FCAIPQ+MAI TLA CYNN +VF+G VK+R+G ++ NM V Y
Sbjct: 250 LRNQSVFNFCAIPQVMAIATLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIY 309
Query: 337 DFSNILKPKINKNDPNATKTLSRVEAIQ 364
+ + +I +DP+++KT + I+
Sbjct: 310 QYMEEIYHRIPDSDPSSSKTRQIISTIR 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 = 330 bits (845), Expect = 1e-90, Method: Compositional matrix adjust.
Identities = 164/328 (50%), Positives = 222/328 (67%), Gaps = 6/328 (1%)
Query: 40 CYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHR 99
CY L++ SRSFA VIQ L ++RNAVCIFYLVLRALDT+EDD +I + KVP+L FH
Sbjct: 13 CYKYLNQTSRSFAAVIQALDGEMRNAVCIFYLVLRALDTLEDDMTISVEKKVPLLHNFHS 72
Query: 100 HVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEV 159
+Y +W F ++ + +++ F +S F L + YQ I DI +RMG GMA+F+ K V
Sbjct: 73 FLYQPDWRFMESKEKDRQVLEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHV 132
Query: 160 ESIDDYDEYCYYVAGLVGLGLSKLFYASGTED--LAPDS-LSNSMGLFLQKTNIIRDYLE 216
S ++D+YC+YVAGLVG+GLS+LF AS ED + D+ +NSMGLFLQKTNIIRDYLE
Sbjct: 133 TSEQEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLE 192
Query: 217 DINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSA 276
D R FWP+E+WS+YV KL D EN D AVQCLN+++TNAL H+ D + Y+S
Sbjct: 193 DQQ---GGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSR 249
Query: 277 LRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFY 336
LR+ ++F FCAIPQ+MAI TLA CYNN +VF+G VK+R+G ++ NM V Y
Sbjct: 250 LRNQSVFNFCAIPQVMAIATLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIY 309
Query: 337 DFSNILKPKINKNDPNATKTLSRVEAIQ 364
+ + +I +DP+++KT + I+
Sbjct: 310 QYMEEIYHRIPDSDPSSSKTRQIISTIR 337
>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 = 330 bits (845), Expect = 1e-90, Method: Compositional matrix adjust.
Identities = 164/328 (50%), Positives = 222/328 (67%), Gaps = 6/328 (1%)
Query: 40 CYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALDTVEDDTSIPTDVKVPILIAFHR 99
CY L++ SRSFA VIQ L ++RNAVCIFYLVLRALDT+EDD +I + KVP+L FH
Sbjct: 16 CYKYLNQTSRSFAAVIQALDGEMRNAVCIFYLVLRALDTLEDDMTISVEKKVPLLHNFHS 75
Query: 100 HVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAKFICKEV 159
+Y +W F ++ + +++ F +S F L + YQ I DI +RMG GMA+F+ K V
Sbjct: 76 FLYQPDWRFMESKEKDRQVLEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHV 135
Query: 160 ESIDDYDEYCYYVAGLVGLGLSKLFYASGTED--LAPDS-LSNSMGLFLQKTNIIRDYLE 216
S ++D+YC+YVAGLVG+GLS+LF AS ED + D+ +NSMGLFLQKTNIIRDYLE
Sbjct: 136 TSEQEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLE 195
Query: 217 DINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSA 276
D R FWP+E+WS+YV KL D EN D AVQCLN+++TNAL H+ D + Y+S
Sbjct: 196 DQQ---GGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSR 252
Query: 277 LRDHAIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFY 336
LR+ ++F FCAIPQ+MAI TLA CYNN +VF+G VK+R+G ++ NM V Y
Sbjct: 253 LRNQSVFNFCAIPQVMAIATLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIY 312
Query: 337 DFSNILKPKINKNDPNATKTLSRVEAIQ 364
+ + +I +DP+++KT + I+
Sbjct: 313 QYMEEIYHRIPDSDPSSSKTRQIISTIR 340
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 87/204 (42%), Gaps = 23/204 (11%)
Query: 37 WAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALD---TVEDDTSIPTDVKVPI 93
+ +C+ ++ K S+SF+ L D R AV Y V R +D V D +K I
Sbjct: 14 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDI 73
Query: 94 LIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAK 153
+ ++ Y+ HF + L H + AF + + + I+ + K M
Sbjct: 74 Q-SIEKYPYEYH-HFQSDRRIMMALQHVAQHKNIAF----QSFYNLIDTVYKDQHFTM-- 125
Query: 154 FICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRD 213
E+ + YCY VAG VG L+ + S E ++ +G LQ NI+RD
Sbjct: 126 -----FETDAELFGYCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRD 178
Query: 214 YLEDI-NEIPKCRMFWPREIWSKY 236
ED NE R+++ ++ +Y
Sbjct: 179 VGEDFENE----RIYFSKQRLKQY 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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 87/204 (42%), Gaps = 23/204 (11%)
Query: 37 WAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALD---TVEDDTSIPTDVKVPI 93
+ +C+ ++ K S+SF+ L D R AV Y V R +D V D +K I
Sbjct: 14 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDI 73
Query: 94 LIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAK 153
+ ++ Y+ HF + L H + AF + + + I+ + K M
Sbjct: 74 Q-SIEKYPYEYH-HFQSDRRIMMALQHVAQHKNIAF----QSFYNLIDTVYKDQHFTM-- 125
Query: 154 FICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRD 213
E+ + YCY VAG VG L+ + S E ++ +G LQ NI+RD
Sbjct: 126 -----FETDAELFGYCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRD 178
Query: 214 YLEDI-NEIPKCRMFWPREIWSKY 236
ED NE R+++ ++ +Y
Sbjct: 179 VGEDFENE----RIYFSKQRLKQY 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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 87/204 (42%), Gaps = 23/204 (11%)
Query: 37 WAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALD---TVEDDTSIPTDVKVPI 93
+ +C+ ++ K S+SF+ L D R AV Y V R +D V D +K I
Sbjct: 8 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDI 67
Query: 94 LIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAK 153
+ ++ Y+ HF + L H + AF + + + I+ + K M
Sbjct: 68 Q-SIEKYPYEYH-HFQSDRRIMMALQHVAQHKNIAF----QSFYNLIDTVYKDQHFTM-- 119
Query: 154 FICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRD 213
E+ + YCY VAG VG L+ + S E ++ +G LQ NI+RD
Sbjct: 120 -----FETDAELFGYCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRD 172
Query: 214 YLEDI-NEIPKCRMFWPREIWSKY 236
ED NE R+++ ++ +Y
Sbjct: 173 VGEDFENE----RIYFSKQRLKQY 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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 87/204 (42%), Gaps = 23/204 (11%)
Query: 37 WAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALD---TVEDDTSIPTDVKVPI 93
+ +C+ ++ K S+SF+ L D R AV Y V R +D V D +K I
Sbjct: 13 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDI 72
Query: 94 LIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAK 153
+ ++ Y+ HF + L H + AF + + + I+ + K M
Sbjct: 73 Q-SIEKYPYEYH-HFQSDRRIMMALQHVAQHKNIAF----QSFYNLIDTVYKDQHFTM-- 124
Query: 154 FICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRD 213
E+ + YCY VAG VG L+ + S E ++ +G LQ NI+RD
Sbjct: 125 -----FETDAELFGYCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRD 177
Query: 214 YLEDI-NEIPKCRMFWPREIWSKY 236
ED NE R+++ ++ +Y
Sbjct: 178 VGEDFENE----RIYFSKQRLKQY 197
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 87/204 (42%), Gaps = 23/204 (11%)
Query: 37 WAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALD---TVEDDTSIPTDVKVPI 93
+ +C+ ++ K S+SF+ L D R AV Y V R +D V D +K I
Sbjct: 14 FKYCHKIMKKHSKSFSYAADLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDI 73
Query: 94 LIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAK 153
+ ++ Y+ HF + L H + AF + + + I+ + K M
Sbjct: 74 Q-SIEKYPYEYH-HFQSDRRIMMALQHVAQHKNIAF----QSFYNLIDTVYKDQHFTM-- 125
Query: 154 FICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRD 213
E+ + YCY VAG VG L+ + S E ++ +G LQ NI+RD
Sbjct: 126 -----FETDAELFGYCYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRD 178
Query: 214 YLEDI-NEIPKCRMFWPREIWSKY 236
ED NE R+++ ++ +Y
Sbjct: 179 VGEDFENE----RIYFSKQRLKQY 198
>pdb|3ADZ|A Chain A, Crystal Structure Of The C(30) Carotenoid Dehydrosqualene
Synthase From Staphylococcus Aureus Complexed With
Intermediate Pspp
pdb|3LGZ|B Chain B, Crystal Structure Of Dehydrosqualene Synthase Y129a From
S. Aureus Complexed With Presqualene Pyrophosphate
Length = 293
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 52/204 (25%), Positives = 86/204 (42%), Gaps = 23/204 (11%)
Query: 37 WAFCYSMLHKVSRSFALVIQQLGTDLRNAVCIFYLVLRALD---TVEDDTSIPTDVKVPI 93
+ +C+ ++ K S+SF+ L D R AV Y V R +D V D +K I
Sbjct: 14 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDI 73
Query: 94 LIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGMAK 153
+ ++ Y+ HF + L H + AF + + + I+ + K M
Sbjct: 74 Q-SIEKYPYEYH-HFQSDRRIMMALQHVAQHKNIAF----QSFYNLIDTVYKDQHFTM-- 125
Query: 154 FICKEVESIDDYDEYCYYVAGLVGLGLSKLFYASGTEDLAPDSLSNSMGLFLQKTNIIRD 213
E+ + CY VAG VG L+ + S E ++ +G LQ NI+RD
Sbjct: 126 -----FETDAELFGACYGVAGTVGEVLTPIL--SDHETHQTYDVARRLGESLQLINILRD 178
Query: 214 YLEDI-NEIPKCRMFWPREIWSKY 236
ED NE R+++ ++ +Y
Sbjct: 179 VGEDFENE----RIYFSKQRLKQY 198
>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 = 0.76, Method: Compositional matrix adjust.
Identities = 27/135 (20%), Positives = 57/135 (42%), Gaps = 7/135 (5%)
Query: 242 DLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDHAIFRFCAIPQIMAIGTLALCY 301
+L+ + + K + + + A +H D ++ +A + AI A P+++AIG L +
Sbjct: 42 NLRESQQAQKLARQYSSCWSTAGVHPHDSSQWQAATEE-AIIELAAQPEVVAIGECGLDF 100
Query: 302 NNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYD----FSNILKPKINKNDPNATKTL 357
N F + R A++ + V++ D F +L+P ++K
Sbjct: 101 NR--NFSTPEEQERAFVAQLRIAADLNMPVFMHCRDAHERFMTLLEPWLDKLPGAVLHCF 158
Query: 358 SRVEAIQKACMDSGV 372
+ +AC+ G+
Sbjct: 159 TGTREEMQACVAHGI 173
>pdb|1WPA|A Chain A, 1.5 Angstrom Crystal Structure Of Human Occludin Fragment
413-522
Length = 114
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 2/74 (2%)
Query: 92 PILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGM 151
PI R +Y R +F G +EYK L + ++ L K D E+ + M A
Sbjct: 14 PITSDQQRQLYKR--NFDTGLQEYKSLQSELDEINKELSRLDKELDDYREESEEYMAAAD 71
Query: 152 AKFICKEVESIDDY 165
K+V+ DY
Sbjct: 72 EYNRLKQVKGSADY 85
>pdb|3G7C|A Chain A, Structure Of The Phosphorylation Mimetic Of Occludin
C-Term Tail
Length = 113
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 2/74 (2%)
Query: 92 PILIAFHRHVYDREWHFSCGTKEYKVLMDQFHHVSTAFLELGKGYQDAIEDITKRMGAGM 151
PI R +Y R +F G +EYK L + ++ L K D E+ + M A
Sbjct: 13 PITSDQQRQLYKR--NFDTGLQEYKSLQSELDEINKELSRLDKELDDYREESEEYMAAAD 70
Query: 152 AKFICKEVESIDDY 165
K+V+ DY
Sbjct: 71 EYNRLKQVKGDADY 84
>pdb|2YKT|A Chain A, Crystal Structure Of The I-Bar Domain Of Irsp53 (Baiap2)
In Complex With An Ehec Derived Tir Peptide
Length = 253
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 115 YKVLMDQFHHVSTAFLELGKGYQDAIEDIT 144
YK +M+QF+ F+ +GK Y+ A+ +T
Sbjct: 20 YKTIMEQFNPSLRNFIAMGKNYEKALAGVT 49
>pdb|1WDZ|A Chain A, Crystal Structure Of Rcb Domain Of Irsp53
pdb|1WDZ|B Chain B, Crystal Structure Of Rcb Domain Of Irsp53
Length = 242
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 115 YKVLMDQFHHVSTAFLELGKGYQDAIEDIT 144
YK +M+QF+ F+ +GK Y+ A+ +T
Sbjct: 20 YKTIMEQFNPSLRNFIAMGKNYEKALAGVT 49
>pdb|2DN9|A Chain A, Solution Structure Of J-Domain From The Dnaj Homolog,
Human Tid1 Protein
Length = 79
Score = 28.1 bits (61), Expect = 8.6, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 322 IDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLSRVEAIQKACMDSGVLNKRKSY 379
+ 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
0.323 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,250,171
Number of Sequences: 62578
Number of extensions: 456654
Number of successful extensions: 1021
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 999
Number of HSP's gapped (non-prelim): 17
length of query: 413
length of database: 14,973,337
effective HSP length: 101
effective length of query: 312
effective length of database: 8,652,959
effective search space: 2699723208
effective search space used: 2699723208
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)