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= psy2512
(115 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I1P|A Chain A, Solution Structure Of The Twelfth Cysteine-Rich Ligand-
Binding Repeat In Rat Megalin
Length = 48
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%)
Query: 38 ASEFTCFDGSLTIPFSYVNDDYCDCQDSSDEPGTSACPNG 77
+++F C DGS I Y D DC+D+SDE G P G
Sbjct: 9 SAQFKCADGSSCINSRYRCDGVYDCRDNSDEAGCPTRPPG 48
>pdb|1F5Y|A Chain A, Nmr Structure Of A Concatemer Of The First And Second
Ligand-Binding Modules Of The Human Ldl Receptor
Length = 85
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 39 SEFTCFDGSLTIPFSYVNDDYCDCQDSSDEPGTSA----CPNGTFHSHLLTRRFLIQ 91
+EF C DG I + +V D +CQD SDE + C +G F R + Q
Sbjct: 11 NEFQCQDGKC-ISYKWVCDGSAECQDGSDESQETCLSVTCKSGDFSCGGRVNRCIPQ 66
>pdb|3M0C|C Chain C, The X-Ray Crystal Structure Of Pcsk9 In Complex With The
Ldl Receptor
Length = 791
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 39 SEFTCFDGSLTIPFSYVNDDYCDCQDSSDEPGTSA----CPNGTFHSHLLTRRFLIQ 91
+EF C DG I + +V D +CQD SDE + C +G F R + Q
Sbjct: 27 NEFQCQDGKC-ISYKWVCDGSAECQDGSDESQETCLSVTCKSGDFSCGGRVNRCIPQ 82
>pdb|1N7D|A Chain A, Extracellular Domain Of The Ldl Receptor
Length = 699
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 39 SEFTCFDGSLTIPFSYVNDDYCDCQDSSDEPGTSA----CPNGTFHSHLLTRRFLIQ 91
+EF C DG I + +V D +CQD SDE + C +G F R + Q
Sbjct: 9 NEFQCQDGKC-ISYKWVCDGSAECQDGSDESQETCLSVTCKSGDFSCGGRVNRCIPQ 64
>pdb|3T8O|A Chain A, Rhodopsin Kinase (grk1) L166k Mutant At 2.5a Resolution
Length = 543
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 17 TSSDVLRPRGVSLMRASLYQPASEFTC 43
T+ D LRP+ +RA+ +P ++ C
Sbjct: 97 TADDALRPQKAQALRAAYLEPQAQLFC 123
>pdb|3QC9|A Chain A, Crystal Structure Of Cross-Linked Bovine Grk1 T8cN480C
DOUBLE MUTANT Complexed With Adp And Mg
pdb|3QC9|B Chain B, Crystal Structure Of Cross-Linked Bovine Grk1 T8cN480C
DOUBLE MUTANT Complexed With Adp And Mg
pdb|3QC9|C Chain C, Crystal Structure Of Cross-Linked Bovine Grk1 T8cN480C
DOUBLE MUTANT Complexed With Adp And Mg
pdb|3QC9|D Chain D, Crystal Structure Of Cross-Linked Bovine Grk1 T8cN480C
DOUBLE MUTANT Complexed With Adp And Mg
Length = 543
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 17 TSSDVLRPRGVSLMRASLYQPASEFTC 43
T+ D LRP+ +RA+ +P ++ C
Sbjct: 97 TADDALRPQKAQALRAAYLEPQAQLFC 123
>pdb|3C4X|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Atp And Magnesium Chloride At 2.9a
pdb|3C4X|B Chain B, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Atp And Magnesium Chloride At 2.9a
pdb|3C4Y|A Chain A, Crystal Structure Of Apo Form Of G Protein Coupled
Receptor Kinase 1 At 7.51a
pdb|3C4Y|B Chain B, Crystal Structure Of Apo Form Of G Protein Coupled
Receptor Kinase 1 At 7.51a
pdb|3C4Z|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 1.84a
pdb|3C50|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 2.6a
pdb|3C50|B Chain B, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 2.6a
pdb|3C51|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 3.55a
pdb|3C51|B Chain B, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 3.55a
Length = 543
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 17 TSSDVLRPRGVSLMRASLYQPASEFTC 43
T+ D LRP+ +RA+ +P ++ C
Sbjct: 97 TADDALRPQKAQALRAAYLEPQAQLFC 123
>pdb|3C4W|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Atp And Magnesium Chloride At 2.7a
pdb|3C4W|B Chain B, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Atp And Magnesium Chloride At 2.7a
Length = 543
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 17 TSSDVLRPRGVSLMRASLYQPASEFTC 43
T+ D LRP+ +RA+ +P ++ C
Sbjct: 97 TADDALRPQKAQALRAAYLEPQAQLFC 123
>pdb|1LDL|A Chain A, Three-Dimensional Structure Of A Cysteine-Rich Repeat
From The Low-Density Lipoprotein Receptor
Length = 48
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 39 SEFTCFDGSLTIPFSYVNDDYCDCQDSSDE 68
+EF C DG I + +V D +CQD SDE
Sbjct: 11 NEFQCQDGKC-ISYKWVCDGSAECQDGSDE 39
>pdb|1CR8|A Chain A, Low Density Lipoprotein Receptor-Related Protein
Complement Repeat 8
Length = 42
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 15/30 (50%)
Query: 39 SEFTCFDGSLTIPFSYVNDDYCDCQDSSDE 68
EF C L IP + D DC DSSDE
Sbjct: 7 DEFQCRLDGLCIPLRWRCDGDTDCMDSSDE 36
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
0.319 0.132 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,750,237
Number of Sequences: 62578
Number of extensions: 143412
Number of successful extensions: 363
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 347
Number of HSP's gapped (non-prelim): 23
length of query: 115
length of database: 14,973,337
effective HSP length: 78
effective length of query: 37
effective length of database: 10,092,253
effective search space: 373413361
effective search space used: 373413361
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: 45 (21.9 bits)