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= psy6462
(234 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P4E|P Chain P, Crystal Structure Of Pcsk9
pdb|2P4E|A Chain A, Crystal Structure Of Pcsk9
Length = 692
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 6/71 (8%)
Query: 116 PAPKQHVTLTQKD----YGKALLPGEGAAMAAYVAEGKRIPRRGEIGLTSDEIERYEAVG 171
PAP++ VT+ ++ G + LPG + AY + + R ++ T E EAV
Sbjct: 616 PAPQEQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRDVSTTGSTSE--EAVT 673
Query: 172 YVMSGSRHRRM 182
V R R +
Sbjct: 674 AVAICCRSRHL 684
>pdb|3BPS|A Chain A, Pcsk9:egf-a Complex
pdb|3GCW|A Chain A, Pcsk9:egfa(H306y)
pdb|3GCX|A Chain A, Pcsk9:egfa (Ph 7.4)
pdb|3SQO|A Chain A, Pcsk9 J16 Fab Complex
Length = 540
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 6/71 (8%)
Query: 116 PAPKQHVTLTQKD----YGKALLPGEGAAMAAYVAEGKRIPRRGEIGLTSDEIERYEAVG 171
PAP++ VT+ ++ G + LPG + AY + + R ++ T E EAV
Sbjct: 464 PAPQEQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRDVSTTGSTSE--EAVT 521
Query: 172 YVMSGSRHRRM 182
V R R +
Sbjct: 522 AVAICCRSRHL 532
>pdb|2QTW|B Chain B, The Crystal Structure Of Pcsk9 At 1.9 Angstroms Resolution
Reveals Structural Homology To Resistin Within The
C-Terminal Domain
Length = 546
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 6/71 (8%)
Query: 116 PAPKQHVTLTQKD----YGKALLPGEGAAMAAYVAEGKRIPRRGEIGLTSDEIERYEAVG 171
PAP++ VT+ ++ G + LPG + AY + + R ++ T E EAV
Sbjct: 464 PAPQEQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRDVSTTGSTSE--EAVT 521
Query: 172 YVMSGSRHRRM 182
V R R +
Sbjct: 522 AVAICCRSRHL 532
>pdb|3M0C|B Chain B, The X-Ray Crystal Structure Of Pcsk9 In Complex With The
Ldl Receptor
Length = 546
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 6/71 (8%)
Query: 116 PAPKQHVTLTQKD----YGKALLPGEGAAMAAYVAEGKRIPRRGEIGLTSDEIERYEAVG 171
PAP++ VT+ ++ G + LPG + AY + + R ++ T E EAV
Sbjct: 464 PAPQEQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRDVSTTGSTSE--EAVT 521
Query: 172 YVMSGSRHRRM 182
V R R +
Sbjct: 522 AVAICCRSRHL 532
>pdb|3P5B|A Chain A, The Structure Of The LdlrPCSK9 COMPLEX REVEALS THE
RECEPTOR IN AN Extended Conformation
pdb|3P5C|A Chain A, The Structure Of The LdlrPCSK9 COMPLEX REVEALS THE
RECEPTOR IN AN Extended Conformation
Length = 540
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 116 PAPKQHVTLTQKD----YGKALLPGEGAAMAAYVAEGKRIPRRGEIGLTSDEIERYEAVG 171
PAP++ VT+ ++ G + LPG + AY + + R ++ T E
Sbjct: 464 PAPQEQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRDVSTTGSTSEGAVTAV 523
Query: 172 YVMSGSRH 179
+ SRH
Sbjct: 524 AICCRSRH 531
>pdb|2PMW|B Chain B, The Crystal Structure Of Proprotein Convertase Subtilisin
Kexin Type 9 (Pcsk9)
Length = 540
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 116 PAPKQHVTLTQKD----YGKALLPGEGAAMAAYVAEGKRIPRRGEIGLTSDEIERYEAVG 171
PAP++ VT+ ++ G + LPG + AY + + R ++ T E
Sbjct: 464 PAPQEQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRDVSTTGSTSEGAVTAV 523
Query: 172 YVMSGSRH 179
+ SRH
Sbjct: 524 AICCRSRH 531
>pdb|3H42|B Chain B, Crystal Structure Of Pcsk9 In Complex With Fab From Ldlr
Competitive Antibody
Length = 540
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 6/71 (8%)
Query: 116 PAPKQHVTLTQKD----YGKALLPGEGAAMAAYVAEGKRIPRRGEIGLTSDEIERYEAVG 171
PAP+ VT+ ++ G + LPG + AY + + R ++ T E EAV
Sbjct: 464 PAPQGQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRDVSTTGSTSE--EAVT 521
Query: 172 YVMSGSRHRRM 182
V R R +
Sbjct: 522 AVAICCRSRHL 532
>pdb|1PKX|A Chain A, Crystal Structure Of Human Atic In Complex With Xmp
pdb|1PKX|B Chain B, Crystal Structure Of Human Atic In Complex With Xmp
pdb|1PKX|C Chain C, Crystal Structure Of Human Atic In Complex With Xmp
pdb|1PKX|D Chain D, Crystal Structure Of Human Atic In Complex With Xmp
pdb|1P4R|A Chain A, Crystal Structure Of Human Atic In Complex With Folate-
Based Inhibitor Bw1540u88ud
pdb|1P4R|B Chain B, Crystal Structure Of Human Atic In Complex With Folate-
Based Inhibitor Bw1540u88ud
pdb|1PL0|A Chain A, Crystal Structure Of Human Atic In Complex With Folate-
Based Inhibitor, Bw2315u89uc
pdb|1PL0|B Chain B, Crystal Structure Of Human Atic In Complex With Folate-
Based Inhibitor, Bw2315u89uc
pdb|1PL0|C Chain C, Crystal Structure Of Human Atic In Complex With Folate-
Based Inhibitor, Bw2315u89uc
pdb|1PL0|D Chain D, Crystal Structure Of Human Atic In Complex With Folate-
Based Inhibitor, Bw2315u89uc
Length = 592
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 187 IRKENQIYSADEKRALAMFSKEERQKRENRILTQFKEMVSSKLAKNKD 234
+ + +Q Y DE +F QKR N ++ K + S+ + KNKD
Sbjct: 364 VLQMDQSYKPDENEVRTLFGLHLSQKRNNGVVD--KSLFSNVVTKNKD 409
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
0.312 0.129 0.354
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,888,964
Number of Sequences: 62578
Number of extensions: 150960
Number of successful extensions: 329
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 328
Number of HSP's gapped (non-prelim): 9
length of query: 234
length of database: 14,973,337
effective HSP length: 96
effective length of query: 138
effective length of database: 8,965,849
effective search space: 1237287162
effective search space used: 1237287162
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 50 (23.9 bits)