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= 036368
(378 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HD1|A Chain A, Crystal Structure Of Squalene Synthase Hpnc From
Alicyclobacillus Acidocaldarius
Length = 294
Score = 104 bits (260), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 80/283 (28%), Positives = 129/283 (45%), Gaps = 20/283 (7%)
Query: 89 PMFLEEAYERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMG 148
P+ L +E CR + + + F + +L + + +++Y +CR D+L D + G
Sbjct: 8 PVELRGDFEVCRRLTRSHYENFSVVSLFVPRHLRPHFYSVYAFCRGVDDLGD----EFAG 63
Query: 149 S--VVLDRWEERLQDIFYGRPYDMLDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYE 206
LD +EE L+ F G AL T+ L +PF +IE R D RK Y+
Sbjct: 64 DRXAALDAYEEELRRAFAGEATTPAFRALQFTIATCNLPXEPFLRLIEANRRDQRKHTYD 123
Query: 207 DFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGED 266
+++L YC Y A VG + + + G D + AL Q+ N +D+ D
Sbjct: 124 TWEDLRDYCRYSADPVGRLVLGIFGCLDDERARLSDATCTAL------QVANHXQDIDRD 177
Query: 267 ASRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKD 326
+ GR+Y+P+ +L QFG D+ AR+ TD R + ++ RA+ F+ EG +L+
Sbjct: 178 LALGRIYVPRADLEQFGATLDDIRARRATDGVRRCIALEVDRAQALFD---EG-RRLESL 233
Query: 327 SRWPVWSSLLIYR----EILDAIEENDYDNLTKRAYVGRMKKF 365
+ L +YR IL AI Y+ R V +K
Sbjct: 234 VPPRLARQLKLYRLGGEAILAAIRRQGYNPFAGRPVVSGKQKL 276
>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 = 103 bits (258), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 80/290 (27%), Positives = 137/290 (47%), Gaps = 22/290 (7%)
Query: 96 YERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRW 155
++ C I +++K+F L+ E+++KA+WAIY CR+ D+ +D Y L++
Sbjct: 14 FKYCHKIMKKHSKSFSYAADLLPEDQRKAVWAIYAVCRKIDDSID----VYGDIQFLNQI 69
Query: 156 EERLQDIFYGRPYDM--------LDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYED 207
+E +Q I PY+ + AL + + F ++I+ + D +E
Sbjct: 70 KEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFET 128
Query: 208 FQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDA 267
EL+ YCY VAGTVG + P++ S Y+ A LG QL NILRDVGED
Sbjct: 129 DAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRDVGEDF 183
Query: 268 SRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDS 327
R+Y + L Q+ + +V+ V +++ + + A F + ++
Sbjct: 184 ENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEA 243
Query: 328 RWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKK---FLMLPQAYNR 374
+ + + IY EILD + + +Y L +R +V + KK F + Y+R
Sbjct: 244 QPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKKAKLFHEINSKYHR 292
>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 = 103 bits (256), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 80/290 (27%), Positives = 137/290 (47%), Gaps = 22/290 (7%)
Query: 96 YERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRW 155
++ C I +++K+F L+ E+++KA+WAIY CR+ D+ +D Y L++
Sbjct: 13 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSID----VYGDIQFLNQI 68
Query: 156 EERLQDIFYGRPYDM--------LDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYED 207
+E +Q I PY+ + AL + + F ++I+ + D +E
Sbjct: 69 KEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFET 127
Query: 208 FQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDA 267
EL+ YCY VAGTVG + P++ S Y+ A LG QL NILRDVGED
Sbjct: 128 DAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRDVGEDF 182
Query: 268 SRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDS 327
R+Y + L Q+ + +V+ V +++ + + A F + ++
Sbjct: 183 ENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEA 242
Query: 328 RWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKK---FLMLPQAYNR 374
+ + + IY EILD + + +Y L +R +V + KK F + Y+R
Sbjct: 243 QPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKKAKLFHEINSKYHR 291
>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 = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 80/290 (27%), Positives = 137/290 (47%), Gaps = 22/290 (7%)
Query: 96 YERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRW 155
++ C I +++K+F L+ E+++KA+WAIY CR+ D+ +D Y L++
Sbjct: 14 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSID----VYGDIQFLNQI 69
Query: 156 EERLQDIFYGRPYDM--------LDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYED 207
+E +Q I PY+ + AL + + F ++I+ + D +E
Sbjct: 70 KEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFET 128
Query: 208 FQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDA 267
EL+ YCY VAGTVG + P++ S Y+ A LG QL NILRDVGED
Sbjct: 129 DAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRDVGEDF 183
Query: 268 SRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDS 327
R+Y + L Q+ + +V+ V +++ + + A F + ++
Sbjct: 184 ENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEA 243
Query: 328 RWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKK---FLMLPQAYNR 374
+ + + IY EILD + + +Y L +R +V + KK F + Y+R
Sbjct: 244 QPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKKAKLFHEINSKYHR 292
>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 = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 80/290 (27%), Positives = 137/290 (47%), Gaps = 22/290 (7%)
Query: 96 YERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRW 155
++ C I +++K+F L+ E+++KA+WAIY CR+ D+ +D Y L++
Sbjct: 8 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSID----VYGDIQFLNQI 63
Query: 156 EERLQDIFYGRPYDM--------LDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYED 207
+E +Q I PY+ + AL + + F ++I+ + D +E
Sbjct: 64 KEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFET 122
Query: 208 FQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDA 267
EL+ YCY VAGTVG + P++ S Y+ A LG QL NILRDVGED
Sbjct: 123 DAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRDVGEDF 177
Query: 268 SRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDS 327
R+Y + L Q+ + +V+ V +++ + + A F + ++
Sbjct: 178 ENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEA 237
Query: 328 RWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKK---FLMLPQAYNR 374
+ + + IY EILD + + +Y L +R +V + KK F + Y+R
Sbjct: 238 QPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKKAKLFHEINSKYHR 286
>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 = 99.8 bits (247), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 79/290 (27%), Positives = 136/290 (46%), Gaps = 22/290 (7%)
Query: 96 YERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRW 155
++ C I +++K+F L+ E+++KA+WAIY CR+ D+ +D Y L++
Sbjct: 14 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSID----VYGDIQFLNQI 69
Query: 156 EERLQDIFYGRPYDM--------LDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYED 207
+E +Q I PY+ + AL + + F ++I+ + D +E
Sbjct: 70 KEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFET 128
Query: 208 FQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDA 267
EL+ YCY VAGTVG + P++ S Y+ A LG QL NILRDVGED
Sbjct: 129 DAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRDVGEDF 183
Query: 268 SRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDS 327
R+Y + L Q+ + +V+ V +++ + + A F + ++
Sbjct: 184 ENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEA 243
Query: 328 RWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKK---FLMLPQAYNR 374
+ + + I EILD + + +Y L +R +V + KK F + Y+R
Sbjct: 244 QPIIELAARIAIEILDEVRQANY-TLHERVFVEKRKKAKLFHEINSKYHR 292
>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 = 99.8 bits (247), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 79/290 (27%), Positives = 136/290 (46%), Gaps = 22/290 (7%)
Query: 96 YERCRNICAEYAKTFYLGTLLMTEERQKAIWAIYVWCRRTDELVDGPNATYMGSVVLDRW 155
++ C I +++K+F L+ E+++KA+WAIY CR+ D+ +D Y L++
Sbjct: 14 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSID----VYGDIQFLNQI 69
Query: 156 EERLQDIFYGRPYDM--------LDAALTDTVFKFPLDIKPFRDMIEGMRMDTRKFRYED 207
+E +Q I PY+ + AL + + F ++I+ + D +E
Sbjct: 70 KEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFET 128
Query: 208 FQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDA 267
EL+ CY VAGTVG + P++ S Y+ A LG QL NILRDVGED
Sbjct: 129 DAELFGACYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRDVGEDF 183
Query: 268 SRGRVYLPQDELAQFGLCDKDVFARKVTDNWREFMKEQIKRARTFFNMAEEGASQLDKDS 327
R+Y + L Q+ + +V+ V +++ + + A F + ++
Sbjct: 184 ENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEA 243
Query: 328 RWPVWSSLLIYREILDAIEENDYDNLTKRAYVGRMKK---FLMLPQAYNR 374
+ + + IY EILD + + +Y L +R +V + KK F + Y+R
Sbjct: 244 QPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKKAKLFHEINSKYHR 292
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 34/69 (49%)
Query: 209 QELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDAS 268
QE YC+YVAG VG+ + + A ++G+ Q TNI+RD ED
Sbjct: 136 QEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQ 195
Query: 269 RGRVYLPQD 277
GR + PQ+
Sbjct: 196 GGREFWPQE 204
>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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 34/69 (49%)
Query: 209 QELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDAS 268
QE YC+YVAG VG+ + + A ++G+ Q TNI+RD ED
Sbjct: 136 QEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQ 195
Query: 269 RGRVYLPQD 277
GR + PQ+
Sbjct: 196 GGREFWPQE 204
>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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 34/69 (49%)
Query: 209 QELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSIYNGALNLGVGNQLTNILRDVGEDAS 268
QE YC+YVAG VG+ + + A ++G+ Q TNI+RD ED
Sbjct: 139 QEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQ 198
Query: 269 RGRVYLPQD 277
GR + PQ+
Sbjct: 199 GGREFWPQE 207
>pdb|2O1E|A Chain A, Crystal Structure Of The Metal-Dependent Lipoprotein Ycdh
From Bacillus Subtilis, Northeast Structural Genomics
Target Sr583
pdb|2O1E|B Chain B, Crystal Structure Of The Metal-Dependent Lipoprotein Ycdh
From Bacillus Subtilis, Northeast Structural Genomics
Target Sr583
Length = 312
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%)
Query: 186 IKPFRDMIEGMRMDTRKFRYEDFQELYLYCYYVAGTVGLMSVPVMGIAPDSSSSAQSI 243
I +D+ + R +K ++F + Y+A GL VP+ G++PD SA S+
Sbjct: 171 IAKLQDLDKLYRTTAKKAEKKEFITQHTAFGYLAKEYGLKQVPIAGLSPDQEPSAASL 228
>pdb|1Q15|A Chain A, Carbapenam Synthetase
pdb|1Q15|B Chain B, Carbapenam Synthetase
pdb|1Q15|C Chain C, Carbapenam Synthetase
pdb|1Q15|D Chain D, Carbapenam Synthetase
pdb|1Q19|A Chain A, Carbapenam Synthetase
pdb|1Q19|B Chain B, Carbapenam Synthetase
pdb|1Q19|C Chain C, Carbapenam Synthetase
pdb|1Q19|D Chain D, Carbapenam Synthetase
Length = 503
Score = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 20/42 (47%)
Query: 296 DNWREFMKEQIKRARTFFNMAEEGASQLDKDSRWPVWSSLLI 337
DN + + EQ+ R R A GAS D R P WS LI
Sbjct: 362 DNPNQLLAEQVYRTRWTGEFATHGASCYGIDIRHPFWSHSLI 403
>pdb|2E9F|A Chain A, Crystal Structure Of T.th.hb8 Argininosuccinate Lyase
Complexed With L-arginine
pdb|2E9F|C Chain C, Crystal Structure Of T.th.hb8 Argininosuccinate Lyase
Complexed With L-arginine
pdb|2E9F|D Chain D, Crystal Structure Of T.th.hb8 Argininosuccinate Lyase
Complexed With L-arginine
pdb|2E9F|B Chain B, Crystal Structure Of T.th.hb8 Argininosuccinate Lyase
Complexed With L-arginine
Length = 462
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 49 LSRQGIPQSTALHVSEIVERQSQDNSLAMEDACRSKPQ-FHPMFLEEAYERCRNICAEYA 107
L+ +G+P A HV + R+ + A++D + Q HP+F E+A R A +
Sbjct: 377 LAEKGLPFREAHHVVGRLVRRLVEEGRALKDLTLEELQAHHPLFAEDALPLLRLETAIHR 436
Query: 108 KTFYLGT 114
+ Y GT
Sbjct: 437 RRSYGGT 443
>pdb|2RFJ|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human
Bromodomain Containing Protein, Testis Specific (Brdt)
pdb|2RFJ|B Chain B, Crystal Structure Of The Bromo Domain 1 In Human
Bromodomain Containing Protein, Testis Specific (Brdt)
pdb|2RFJ|C Chain C, Crystal Structure Of The Bromo Domain 1 In Human
Bromodomain Containing Protein, Testis Specific (Brdt)
pdb|4FLP|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brdt
In Complex With The Inhibitor Jq1
pdb|4FLP|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brdt
In Complex With The Inhibitor Jq1
Length = 119
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 4/74 (5%)
Query: 146 YMGSVVL-DRWEERLQDIFYGRPYDMLDAALTD--TVFKFPLDIKPFRDMIEGMRMDTRK 202
Y+ VVL D W+ F RP D + L D T+ K P+D+ + +E
Sbjct: 16 YLQKVVLKDLWKHSFSWPF-QRPVDAVKLQLPDYYTIIKNPMDLNTIKKRLENKYYAKAS 74
Query: 203 FRYEDFQELYLYCY 216
EDF ++ CY
Sbjct: 75 ECIEDFNTMFSNCY 88
>pdb|1KIJ|A Chain A, Crystal Structure Of The 43k Atpase Domain Of Thermus
Thermophilus Gyrase B In Complex With Novobiocin
pdb|1KIJ|B Chain B, Crystal Structure Of The 43k Atpase Domain Of Thermus
Thermophilus Gyrase B In Complex With Novobiocin
Length = 390
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 24/42 (57%)
Query: 44 HIFPGLSRQGIPQSTALHVSEIVERQSQDNSLAMEDACRSKP 85
H+F + + ++ A + +EI+ R ++D SL +ED R P
Sbjct: 35 HLFKEILDNAVDEALAGYATEILVRLNEDGSLTVEDNGRGIP 76
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 0.135 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,830,369
Number of Sequences: 62578
Number of extensions: 443755
Number of successful extensions: 909
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 872
Number of HSP's gapped (non-prelim): 16
length of query: 378
length of database: 14,973,337
effective HSP length: 100
effective length of query: 278
effective length of database: 8,715,537
effective search space: 2422919286
effective search space used: 2422919286
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: 52 (24.6 bits)