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= 044623
(486 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 2e-22, Method: Compositional matrix adjust.
Identities = 72/282 (25%), Positives = 132/282 (46%), Gaps = 15/282 (5%)
Query: 188 LSLLSEAYDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVD------GP 241
++++ + C ++ +++K+F L+ ++R+A+WAIY CR+ D+ +D
Sbjct: 7 MTMMDMNFKYCHKIMKKHSKSFSYAADLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFL 66
Query: 242 NASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRK 301
N +++++ R M AL + Q F ++I+ + D
Sbjct: 67 NQIKEDIQSIEKYPYEYHHFQSDRRIMM---ALQHVAQHKNIAFQSFYNLIDTVYKDQHF 123
Query: 302 SRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRD 361
+ ++ EL+ YCY VAGTVG + P++ S T Y+ A LG + QL NILRD
Sbjct: 124 TMFETDAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRD 178
Query: 362 VGEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTE 421
VGED + R+Y + L Q + +++ V N + + + A F + +
Sbjct: 179 VGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKV 238
Query: 422 LSEASRWPVWASLLLYRQILDEIEANDYNNFTKRAYVSKAKK 463
S ++ + + +Y +ILDE+ +Y +R +V K KK
Sbjct: 239 FSIEAQPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKK 279
>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 = 103 bits (256), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 72/282 (25%), Positives = 132/282 (46%), Gaps = 15/282 (5%)
Query: 188 LSLLSEAYDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVD------GP 241
++++ + C ++ +++K+F L+ ++R+A+WAIY CR+ D+ +D
Sbjct: 7 MTMMDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFL 66
Query: 242 NASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRK 301
N +++++ R M AL + Q F ++I+ + D
Sbjct: 67 NQIKEDIQSIEKYPYEYHHFQSDRRIMM---ALQHVAQHKNIAFQSFYNLIDTVYKDQHF 123
Query: 302 SRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRD 361
+ ++ EL+ YCY VAGTVG + P++ S T Y+ A LG + QL NILRD
Sbjct: 124 TMFETDAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRD 178
Query: 362 VGEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTE 421
VGED + R+Y + L Q + +++ V N + + + A F + +
Sbjct: 179 VGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKV 238
Query: 422 LSEASRWPVWASLLLYRQILDEIEANDYNNFTKRAYVSKAKK 463
S ++ + + +Y +ILDE+ +Y +R +V K KK
Sbjct: 239 FSIEAQPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKK 279
>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 = 103 bits (256), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 72/282 (25%), Positives = 132/282 (46%), Gaps = 15/282 (5%)
Query: 188 LSLLSEAYDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVD------GP 241
++++ + C ++ +++K+F L+ ++R+A+WAIY CR+ D+ +D
Sbjct: 1 MTMMDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFL 60
Query: 242 NASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRK 301
N +++++ R M AL + Q F ++I+ + D
Sbjct: 61 NQIKEDIQSIEKYPYEYHHFQSDRRIMM---ALQHVAQHKNIAFQSFYNLIDTVYKDQHF 117
Query: 302 SRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRD 361
+ ++ EL+ YCY VAGTVG + P++ S T Y+ A LG + QL NILRD
Sbjct: 118 TMFETDAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRD 172
Query: 362 VGEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTE 421
VGED + R+Y + L Q + +++ V N + + + A F + +
Sbjct: 173 VGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKV 232
Query: 422 LSEASRWPVWASLLLYRQILDEIEANDYNNFTKRAYVSKAKK 463
S ++ + + +Y +ILDE+ +Y +R +V K KK
Sbjct: 233 FSIEAQPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKK 273
>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 = 102 bits (253), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 72/272 (26%), Positives = 127/272 (46%), Gaps = 15/272 (5%)
Query: 198 CGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVD------GPNASHITPTAL 251
C ++ +++K+F L+ ++R+A+WAIY CR+ D+ +D N ++
Sbjct: 16 CHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDIQSI 75
Query: 252 DRWESRLEDLFRGRPFDMLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRKSRYKNFDELY 311
+++ R M AL + Q F ++I+ + D + ++ EL+
Sbjct: 76 EKYPYEYHHFQSDRRIMM---ALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFETDAELF 132
Query: 312 LYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDVGEDAQRGRV 371
YCY VAGTVG + P++ S T Y+ A LG + QL NILRDVGED + R+
Sbjct: 133 GYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRDVGEDFENERI 187
Query: 372 YLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEASRWPVW 431
Y + L Q + +++ V N + + + A F + + S ++ +
Sbjct: 188 YFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEAQPIIE 247
Query: 432 ASLLLYRQILDEIEANDYNNFTKRAYVSKAKK 463
+ +Y +ILDE+ +Y +R +V K KK
Sbjct: 248 LAARIYIEILDEVRQANY-TLHERVFVEKRKK 278
>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 = 71/282 (25%), Positives = 131/282 (46%), Gaps = 15/282 (5%)
Query: 188 LSLLSEAYDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVD------GP 241
++++ + C ++ +++K+F L+ ++R+A+WAIY CR+ D+ +D
Sbjct: 7 MTMMDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFL 66
Query: 242 NASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRK 301
N +++++ R M AL + Q F ++I+ + D
Sbjct: 67 NQIKEDIQSIEKYPYEYHHFQSDRRIMM---ALQHVAQHKNIAFQSFYNLIDTVYKDQHF 123
Query: 302 SRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRD 361
+ ++ EL+ YCY VAGTVG + P++ S T Y+ A LG + QL NILRD
Sbjct: 124 TMFETDAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRD 178
Query: 362 VGEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTE 421
VGED + R+Y + L Q + +++ V N + + + A F + +
Sbjct: 179 VGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKV 238
Query: 422 LSEASRWPVWASLLLYRQILDEIEANDYNNFTKRAYVSKAKK 463
S ++ + + + +ILDE+ +Y +R +V K KK
Sbjct: 239 FSIEAQPIIELAARIAIEILDEVRQANY-TLHERVFVEKRKK 279
>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 = 71/282 (25%), Positives = 131/282 (46%), Gaps = 15/282 (5%)
Query: 188 LSLLSEAYDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVD------GP 241
++++ + C ++ +++K+F L+ ++R+A+WAIY CR+ D+ +D
Sbjct: 7 MTMMDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFL 66
Query: 242 NASHITPTALDRWESRLEDLFRGRPFDMLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRK 301
N +++++ R M AL + Q F ++I+ + D
Sbjct: 67 NQIKEDIQSIEKYPYEYHHFQSDRRIMM---ALQHVAQHKNIAFQSFYNLIDTVYKDQHF 123
Query: 302 SRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRD 361
+ ++ EL+ CY VAGTVG + P++ S T Y+ A LG + QL NILRD
Sbjct: 124 TMFETDAELFGACYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRD 178
Query: 362 VGEDAQRGRVYLPQDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTE 421
VGED + R+Y + L Q + +++ V N + + + A F + +
Sbjct: 179 VGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKV 238
Query: 422 LSEASRWPVWASLLLYRQILDEIEANDYNNFTKRAYVSKAKK 463
S ++ + + +Y +ILDE+ +Y +R +V K KK
Sbjct: 239 FSIEAQPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKK 279
>pdb|4HD1|A Chain A, Crystal Structure Of Squalene Synthase Hpnc From
Alicyclobacillus Acidocaldarius
Length = 294
Score = 98.2 bits (243), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 79/275 (28%), Positives = 121/275 (44%), Gaps = 18/275 (6%)
Query: 195 YDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVDGPNASHITPTALDRW 254
++ C + + + F + +L + R +++Y +CR D+L G + ALD +
Sbjct: 15 FEVCRRLTRSHYENFSVVSLFVPRHLRPHFYSVYAFCRGVDDL--GDEFAGDRXAALDAY 72
Query: 255 ESRLEDLFRGRPFDMLDAALSDTVTKFPVDIQPFRDMIEGMRMDLRKSRYKNFDELYLYC 314
E L F G AL T+ + +PF +IE R D RK Y +++L YC
Sbjct: 73 EEELRRAFAGEATTPAFRALQFTIATCNLPXEPFLRLIEANRRDQRKHTYDTWEDLRDYC 132
Query: 315 YYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDVGEDAQRGRVYLP 374
Y A VG + + + G D +A AL Q+ N +D+ D GR+Y+P
Sbjct: 133 RYSADPVGRLVLGIFGCLDDERARLSDATCTAL------QVANHXQDIDRDLALGRIYVP 186
Query: 375 QDELAQAGLSDDDIFAGEVTNKWRNFMKNQIKRARMFFDMAENGVTELSEASRWPVWA-S 433
+ +L Q G + DDI A T+ R + ++ RA+ FD E+ P A
Sbjct: 187 RADLEQFGATLDDIRARRATDGVRRCIALEVDRAQALFDEGRR-----LESLVPPRLARQ 241
Query: 434 LLLYR----QILDEIEANDYNNFTKRAYVSKAKKI 464
L LYR IL I YN F R VS +K+
Sbjct: 242 LKLYRLGGEAILAAIRRQGYNPFAGRPVVSGKQKL 276
>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 = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%)
Query: 313 YCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDVGEDAQRGRVY 372
YC+YVAG VG+ + + A ++G+ Q TNI+RD ED Q GR +
Sbjct: 141 YCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQGGREF 200
Query: 373 LPQD 376
PQ+
Sbjct: 201 WPQE 204
>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 = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%)
Query: 313 YCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDVGEDAQRGRVY 372
YC+YVAG VG+ + + A ++G+ Q TNI+RD ED Q GR +
Sbjct: 141 YCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQGGREF 200
Query: 373 LPQD 376
PQ+
Sbjct: 201 WPQE 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 = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%)
Query: 313 YCYYVAGTVGLMSVPVMGIAPDSQATTESVYNAALALGIANQLTNILRDVGEDAQRGRVY 372
YC+YVAG VG+ + + A ++G+ Q TNI+RD ED Q GR +
Sbjct: 144 YCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQGGREF 203
Query: 373 LPQD 376
PQ+
Sbjct: 204 WPQE 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 = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 285 IQPFRDMIEGMRMDLRKSRYKNFDELYLYCYYVAGTVGLMSVPVMGIAPDSQATTESV 342
I +D+ + R +K+ K F + Y+A GL VP+ G++PD + + S+
Sbjct: 171 IAKLQDLDKLYRTTAKKAEKKEFITQHTAFGYLAKEYGLKQVPIAGLSPDQEPSAASL 228
>pdb|3HVN|A Chain A, Crystal Structure Of Cytotoxin Protein Suilysin From
Streptococcus Suis
Length = 508
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 27/58 (46%)
Query: 182 IALPGTLSLLSEAYDRCGEVCAEYAKTFYLGTLLMTSERRRAIWAIYVWCRRTDELVD 239
I +PG L C + E+ +T Y L + +R+ IW ++ + DE+++
Sbjct: 444 IQIPGNARNLHVNIQECTGLAWEWWRTVYDKDLPLVGQRKITIWGTTLYPQYADEVIE 501
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
0.320 0.133 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,130,016
Number of Sequences: 62578
Number of extensions: 503752
Number of successful extensions: 1180
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1151
Number of HSP's gapped (non-prelim): 12
length of query: 486
length of database: 14,973,337
effective HSP length: 103
effective length of query: 383
effective length of database: 8,527,803
effective search space: 3266148549
effective search space used: 3266148549
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)