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= 016696
(384 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 = 95.1 bits (235), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 126/274 (45%), Gaps = 16/274 (5%)
Query: 97 YERCRKICAEYAKXXXXXXXXXXKERQKAIWAVYAWCKRTDELVDGPNAFCVSPAALDRW 156
+E CR++ + + + + ++VYA+C+ D+L G AALD +
Sbjct: 15 FEVCRRLTRSHYENFSVVSLFVPRHLRPHFYSVYAFCRGVDDL--GDEFAGDRXAALDAY 72
Query: 157 EERLQDIFNGHPNDILDAALTDTVSKFNLHIKPFRDMIKGMRMDTEKCRYANFQELYLYC 216
EE L+ F G AL T++ NL +PF +I+ R D K Y +++L YC
Sbjct: 73 EEELRRAFAGEATTPAFRALQFTIATCNLPXEPFLRLIEANRRDQRKHTYDTWEDLRDYC 132
Query: 217 YYAGGTVGLMSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTNILRDVGEDASRGRIYLP 276
Y+ VG + + + G D A AL Q+ N +D+ D + GRIY+P
Sbjct: 133 RYSADPVGRLVLGIFGCLDDERARLSDATCTAL------QVANHXQDIDRDLALGRIYVP 186
Query: 277 QDELAKFGLRDEDIFSRKVSDEWREFMKEQITRARYFYKLAEEGASELDKASRWPVWTVL 336
+ +L +FG +DI +R+ +D R + ++ RA+ + +EG L+ + L
Sbjct: 187 RADLEQFGATLDDIRARRATDGVRRCIALEVDRAQALF---DEG-RRLESLVPPRLARQL 242
Query: 337 ILY----QKILDAIQDNDYDNLTKRAYVGNIKKL 366
LY + IL AI+ Y+ R V +KL
Sbjct: 243 KLYRLGGEAILAAIRRQGYNPFAGRPVVSGKQKL 276
>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 = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 74/290 (25%), Positives = 133/290 (45%), Gaps = 37/290 (12%)
Query: 93 LDEAYERCRKICAEYAKXXXXXXXXXXKERQKAIWAVYAWCKRTDELVD--GPNAFCVSP 150
+D ++ C KI +++K ++++KA+WA+YA C++ D+ +D G F
Sbjct: 10 MDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQF---- 65
Query: 151 AALDRWEERLQDIFNGHPNDI--------LDAALTDTVSKFNLHIKPFRDMIKGMRMDTE 202
L++ +E +Q I +P + + AL N+ + F ++I + D
Sbjct: 66 --LNQIKEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQH 122
Query: 203 KCRYANFQELYLYCYYAGGTVGLMSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTNILR 262
+ EL+ YCY GTVG + P++ S Y+ A LG QL NILR
Sbjct: 123 FTMFETDAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILR 177
Query: 263 DVGEDASRGRIYLPQDELAKFGLRDEDIFSRKVSDEWREFMKEQITRARYFYKLAEEGAS 322
DVGED RIY + L ++ + +++ V++ + I Y+ +AE+
Sbjct: 178 DVGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHY-------IDLWEYYAAIAEKDFR 230
Query: 323 E-LDKASRWPVWTVLI------LYQKILDAIQDNDYDNLTKRAYVGNIKK 365
+ +D+ + + I +Y +ILD ++ +Y L +R +V KK
Sbjct: 231 DVMDQIKVFSIEAQPIIELAARIYIEILDEVRQANY-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 = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 74/290 (25%), Positives = 133/290 (45%), Gaps = 37/290 (12%)
Query: 93 LDEAYERCRKICAEYAKXXXXXXXXXXKERQKAIWAVYAWCKRTDELVD--GPNAFCVSP 150
+D ++ C KI +++K ++++KA+WA+YA C++ D+ +D G F
Sbjct: 4 MDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQF---- 59
Query: 151 AALDRWEERLQDIFNGHPNDI--------LDAALTDTVSKFNLHIKPFRDMIKGMRMDTE 202
L++ +E +Q I +P + + AL N+ + F ++I + D
Sbjct: 60 --LNQIKEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQH 116
Query: 203 KCRYANFQELYLYCYYAGGTVGLMSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTNILR 262
+ EL+ YCY GTVG + P++ S Y+ A LG QL NILR
Sbjct: 117 FTMFETDAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILR 171
Query: 263 DVGEDASRGRIYLPQDELAKFGLRDEDIFSRKVSDEWREFMKEQITRARYFYKLAEEGAS 322
DVGED RIY + L ++ + +++ V++ + I Y+ +AE+
Sbjct: 172 DVGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHY-------IDLWEYYAAIAEKDFR 224
Query: 323 E-LDKASRWPVWTVLI------LYQKILDAIQDNDYDNLTKRAYVGNIKK 365
+ +D+ + + I +Y +ILD ++ +Y L +R +V KK
Sbjct: 225 DVMDQIKVFSIEAQPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKK 273
>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 = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 74/290 (25%), Positives = 133/290 (45%), Gaps = 37/290 (12%)
Query: 93 LDEAYERCRKICAEYAKXXXXXXXXXXKERQKAIWAVYAWCKRTDELVD--GPNAFCVSP 150
+D ++ C KI +++K ++++KA+WA+YA C++ D+ +D G F
Sbjct: 10 MDMNFKYCHKIMKKHSKSFSYAADLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQF---- 65
Query: 151 AALDRWEERLQDIFNGHPNDI--------LDAALTDTVSKFNLHIKPFRDMIKGMRMDTE 202
L++ +E +Q I +P + + AL N+ + F ++I + D
Sbjct: 66 --LNQIKEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQH 122
Query: 203 KCRYANFQELYLYCYYAGGTVGLMSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTNILR 262
+ EL+ YCY GTVG + P++ S Y+ A LG QL NILR
Sbjct: 123 FTMFETDAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILR 177
Query: 263 DVGEDASRGRIYLPQDELAKFGLRDEDIFSRKVSDEWREFMKEQITRARYFYKLAEEGAS 322
DVGED RIY + L ++ + +++ V++ + I Y+ +AE+
Sbjct: 178 DVGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHY-------IDLWEYYAAIAEKDFR 230
Query: 323 E-LDKASRWPVWTVLI------LYQKILDAIQDNDYDNLTKRAYVGNIKK 365
+ +D+ + + I +Y +ILD ++ +Y L +R +V KK
Sbjct: 231 DVMDQIKVFSIEAQPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKK 279
>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 = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 73/286 (25%), Positives = 131/286 (45%), Gaps = 37/286 (12%)
Query: 97 YERCRKICAEYAKXXXXXXXXXXKERQKAIWAVYAWCKRTDELVD--GPNAFCVSPAALD 154
++ C KI +++K ++++KA+WA+YA C++ D+ +D G F L+
Sbjct: 13 FKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQF------LN 66
Query: 155 RWEERLQDIFNGHPNDI--------LDAALTDTVSKFNLHIKPFRDMIKGMRMDTEKCRY 206
+ +E +Q I +P + + AL N+ + F ++I + D +
Sbjct: 67 QIKEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMF 125
Query: 207 ANFQELYLYCYYAGGTVGLMSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTNILRDVGE 266
EL+ YCY GTVG + P++ S Y+ A LG QL NILRDVGE
Sbjct: 126 ETDAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILRDVGE 180
Query: 267 DASRGRIYLPQDELAKFGLRDEDIFSRKVSDEWREFMKEQITRARYFYKLAEEGASE-LD 325
D RIY + L ++ + +++ V++ + I Y+ +AE+ + +D
Sbjct: 181 DFENERIYFSKQRLKQYEVDIAEVYQNGVNNHY-------IDLWEYYAAIAEKDFRDVMD 233
Query: 326 KASRWPVWTVLI------LYQKILDAIQDNDYDNLTKRAYVGNIKK 365
+ + + I +Y +ILD ++ +Y L +R +V KK
Sbjct: 234 QIKVFSIEAQPIIELAARIYIEILDEVRQANY-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 = 86.3 bits (212), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 58/217 (26%), Positives = 102/217 (47%), Gaps = 22/217 (10%)
Query: 93 LDEAYERCRKICAEYAKXXXXXXXXXXKERQKAIWAVYAWCKRTDELVD--GPNAFCVSP 150
+D ++ C KI +++K ++++KA+WA+YA C++ D+ +D G F
Sbjct: 10 MDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQF---- 65
Query: 151 AALDRWEERLQDIFNGHPNDI--------LDAALTDTVSKFNLHIKPFRDMIKGMRMDTE 202
L++ +E +Q I +P + + AL N+ + F ++I + D
Sbjct: 66 --LNQIKEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQH 122
Query: 203 KCRYANFQELYLYCYYAGGTVGLMSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTNILR 262
+ EL+ YCY GTVG + P++ S Y+ A LG QL NILR
Sbjct: 123 FTMFETDAELFGYCYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILR 177
Query: 263 DVGEDASRGRIYLPQDELAKFGLRDEDIFSRKVSDEW 299
DVGED RIY + L ++ + +++ V++ +
Sbjct: 178 DVGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHY 214
>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 = 84.7 bits (208), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 73/290 (25%), Positives = 132/290 (45%), Gaps = 37/290 (12%)
Query: 93 LDEAYERCRKICAEYAKXXXXXXXXXXKERQKAIWAVYAWCKRTDELVD--GPNAFCVSP 150
+D ++ C KI +++K ++++KA+WA+YA C++ D+ +D G F
Sbjct: 10 MDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQF---- 65
Query: 151 AALDRWEERLQDIFNGHPNDI--------LDAALTDTVSKFNLHIKPFRDMIKGMRMDTE 202
L++ +E +Q I +P + + AL N+ + F ++I + D
Sbjct: 66 --LNQIKEDIQSI-EKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQH 122
Query: 203 KCRYANFQELYLYCYYAGGTVGLMSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTNILR 262
+ EL+ CY GTVG + P++ S Y+ A LG QL NILR
Sbjct: 123 FTMFETDAELFGACYGVAGTVGEVLTPIL-----SDHETHQTYDVARRLGESLQLINILR 177
Query: 263 DVGEDASRGRIYLPQDELAKFGLRDEDIFSRKVSDEWREFMKEQITRARYFYKLAEEGAS 322
DVGED RIY + L ++ + +++ V++ + I Y+ +AE+
Sbjct: 178 DVGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHY-------IDLWEYYAAIAEKDFR 230
Query: 323 E-LDKASRWPVWTVLI------LYQKILDAIQDNDYDNLTKRAYVGNIKK 365
+ +D+ + + I +Y +ILD ++ +Y L +R +V KK
Sbjct: 231 DVMDQIKVFSIEAQPIIELAARIYIEILDEVRQANY-TLHERVFVEKRKK 279
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 50/113 (44%), Gaps = 20/113 (17%)
Query: 210 QELYLYCYYAGGTVGL----------MSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTN 259
QE YC+Y G VG+ P++G D + + S +G+ Q TN
Sbjct: 136 QEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANS----------MGLFLQKTN 185
Query: 260 ILRDVGEDASRGRIYLPQDELAKFGLRDEDIFSRKVSDEWREFMKEQITRARY 312
I+RD ED GR + PQ+ +++ + D + D + + E IT A +
Sbjct: 186 IIRDYLEDQQGGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALH 238
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 50/113 (44%), Gaps = 20/113 (17%)
Query: 210 QELYLYCYYAGGTVGL----------MSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTN 259
QE YC+Y G VG+ P++G D + + S +G+ Q TN
Sbjct: 136 QEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANS----------MGLFLQKTN 185
Query: 260 ILRDVGEDASRGRIYLPQDELAKFGLRDEDIFSRKVSDEWREFMKEQITRARY 312
I+RD ED GR + PQ+ +++ + D + D + + E IT A +
Sbjct: 186 IIRDYLEDQQGGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALH 238
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 50/113 (44%), Gaps = 20/113 (17%)
Query: 210 QELYLYCYYAGGTVGL----------MSVPVMGMDPDSSASAQSIYNAALYLGIGNQLTN 259
QE YC+Y G VG+ P++G D + + S +G+ Q TN
Sbjct: 139 QEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANS----------MGLFLQKTN 188
Query: 260 ILRDVGEDASRGRIYLPQDELAKFGLRDEDIFSRKVSDEWREFMKEQITRARY 312
I+RD ED GR + PQ+ +++ + D + D + + E IT A +
Sbjct: 189 IIRDYLEDQQGGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALH 241
>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 = 32.0 bits (71), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 26/65 (40%)
Query: 186 HIKPFRDMIKGMRMDTEKCRYANFQELYLYCYYAGGTVGLMSVPVMGMDPDSSASAQSIY 245
+I +D+ K R +K F + Y GL VP+ G+ PD SA S+
Sbjct: 170 YIAKLQDLDKLYRTTAKKAEKKEFITQHTAFGYLAKEYGLKQVPIAGLSPDQEPSAASLA 229
Query: 246 NAALY 250
Y
Sbjct: 230 KLKTY 234
>pdb|4AOY|A Chain A, Open Ctidh. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
pdb|4AOY|B Chain B, Open Ctidh. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
pdb|4AOY|C Chain C, Open Ctidh. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
pdb|4AOY|D Chain D, Open Ctidh. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
pdb|4AOU|A Chain A, Ctidh Bound To Nadp. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
Length = 402
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 40/202 (19%), Positives = 86/202 (42%), Gaps = 16/202 (7%)
Query: 142 GPNAFCVSPAALDRWEERLQDIFNGHPNDILDAALTDTVSKFNLHIKPFRDMIKGMRMDT 201
G ++P A E L+ ++ PN + A L TV + + + + +KG +
Sbjct: 70 GVKCATITPNAQRVEEYNLKKMWKS-PNGTIRAILDGTVFRAPIVVNSIKPFVKGWKKPI 128
Query: 202 EKCRYANFQELYLYCYYAGGTVGLMSVPVMGMDPDSSASAQSIY---NAALYLGIGNQLT 258
R+A + ++Y Y + G ++ + S Q+I+ + +G+ N
Sbjct: 129 SIARHA-YGDVYKNVEYYVPSAG--KAELVFTSENGEVSRQTIHEFDGPGVIMGMHNTDK 185
Query: 259 NILR------DVGEDASRGRIYLPQDELAK-FGLRDEDIFSRKVSDEWREFMKEQITRAR 311
+I + D ++ + +D ++K + R +DIF +E++E K + +
Sbjct: 186 SIRSFARACFNYALDMNQDLWFSTKDTISKTYDHRFKDIFQEIYENEYKE--KFEAKNLQ 243
Query: 312 YFYKLAEEGASELDKASRWPVW 333
YFY L ++ + + ++ VW
Sbjct: 244 YFYTLIDDAVARIIRSEGGMVW 265
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 0.134 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,768,894
Number of Sequences: 62578
Number of extensions: 425618
Number of successful extensions: 899
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 871
Number of HSP's gapped (non-prelim): 12
length of query: 384
length of database: 14,973,337
effective HSP length: 101
effective length of query: 283
effective length of database: 8,652,959
effective search space: 2448787397
effective search space used: 2448787397
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: 52 (24.6 bits)