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= psy5411
(88 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GWG|A Chain A, Crystal Structure Analysis Of 6-Phosphogluconate
Dehydrogenase Apo- Form
pdb|4GWK|A Chain A, Crystal Structure Of 6-Phosphogluconate Dehydrogenase
Complexed With 3-Phosphoglyceric Acid
Length = 484
Score = 28.5 bits (62), Expect = 0.93, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 28 TGKY-----FKFALKVTLDGVTAFVNC------EEIESTRVVRNPQELLFDSASTLYL 74
TGK+ ++ + VTL G F C E I++++ ++ PQ+ FD +L
Sbjct: 264 TGKWTAISALEYGVPVTLIGEAVFARCLSSLKDERIQASKKLKGPQKFQFDGDKKSFL 321
>pdb|2JKV|A Chain A, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|B Chain B, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|C Chain C, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|D Chain D, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|E Chain E, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|F Chain F, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
Length = 505
Score = 28.5 bits (62), Expect = 0.93, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 28 TGKY-----FKFALKVTLDGVTAFVNC------EEIESTRVVRNPQELLFDSASTLYL 74
TGK+ ++ + VTL G F C E I++++ ++ PQ+ FD +L
Sbjct: 285 TGKWTAISALEYGVPVTLIGEAVFARCLSSLKDERIQASKKLKGPQKFQFDGDKKSFL 342
>pdb|1UHW|A Chain A, Solution Structure Of The Dep Domain Of Mouse Pleckstrin
Length = 109
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 54 STRVVRNPQELLFDSASTL---YLGQAGPIIKGALD 86
S ++VRN QE L SAS L YL AG + K A D
Sbjct: 49 SNKLVRNRQEGLMISASLLSEGYLQPAGDLSKNAAD 84
>pdb|4F4C|A Chain A, The Crystal Structure Of The Multi-Drug Transporter
Length = 1321
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 57 VVRNPQELLFDSASTLYLGQAGPIIKGALD 86
+VRNP+ LL D A++ ++ I++ ALD
Sbjct: 569 LVRNPKILLLDEATSALDAESEGIVQQALD 598
>pdb|3G60|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G60|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G61|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G61|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
Length = 1284
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 57 VVRNPQELLFDSASTLYLGQAGPIIKGALD 86
+VRNP+ LL D A++ ++ +++ ALD
Sbjct: 541 LVRNPKILLLDEATSALDTESEAVVQAALD 570
>pdb|3G5U|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G5U|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
Length = 1284
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 57 VVRNPQELLFDSASTLYLGQAGPIIKGALD 86
+VRNP+ LL D A++ ++ +++ ALD
Sbjct: 541 LVRNPKILLLDEATSALDTESEAVVQAALD 570
>pdb|1BNL|A Chain A, Zinc Dependent Dimers Observed In Crystals Of Human
Endostatin
pdb|1BNL|B Chain B, Zinc Dependent Dimers Observed In Crystals Of Human
Endostatin
pdb|1BNL|C Chain C, Zinc Dependent Dimers Observed In Crystals Of Human
Endostatin
pdb|1BNL|D Chain D, Zinc Dependent Dimers Observed In Crystals Of Human
Endostatin
Length = 178
Score = 25.4 bits (54), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 24/53 (45%)
Query: 32 FKFALKVTLDGVTAFVNCEEIESTRVVRNPQELLFDSASTLYLGQAGPIIKGA 84
F+ L L + + V + + +V ELLF S L+ G GP+ GA
Sbjct: 46 FRAFLSSRLQDLYSIVRRADRAAVPIVNLKDELLFPSWEALFSGSEGPLKPGA 98
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 0.138 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,256,612
Number of Sequences: 62578
Number of extensions: 71598
Number of successful extensions: 151
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 144
Number of HSP's gapped (non-prelim): 10
length of query: 88
length of database: 14,973,337
effective HSP length: 56
effective length of query: 32
effective length of database: 11,468,969
effective search space: 367007008
effective search space used: 367007008
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: 45 (21.9 bits)