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= psy5508
(85 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T5O|A Chain A, Crystal Structure Of Human Complement Component C6
pdb|4A5W|B Chain B, Crystal Structure Of C5b6
pdb|4E0S|B Chain B, Crystal Structure Of C5b-6
Length = 913
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 27 CRISEYACEN------GRCISLDRFCNEYDDCGDKSDEPRYCSRSKTALQKHITAVFCIV 80
C+I E C+N GRCI+ CN +DCGD SDE R C R+K + + +
Sbjct: 112 CKIEEADCKNKFRCDSGRCIARKLECNGENDCGDNSDE-RDCGRTKAVCTRKYNPIPSVQ 170
Query: 81 IKAD 84
+ +
Sbjct: 171 LMGN 174
>pdb|3P5C|L Chain L, The Structure Of The LdlrPCSK9 COMPLEX REVEALS THE
RECEPTOR IN AN Extended Conformation
Length = 440
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 21/30 (70%)
Query: 30 SEYACENGRCISLDRFCNEYDDCGDKSDEP 59
+++ C +G CI+LD+ CN DC D SDEP
Sbjct: 5 NKFKCHSGECITLDKVCNMARDCRDWSDEP 34
>pdb|2FYJ|A Chain A, Nmr Solution Structure Of Calcium-Loaded Lrp Double
Module
pdb|2FYL|B Chain B, Haddock Model Of The Complex Between Double Module Of
Lrp, Cr56, And First Domain Of Receptor Associated
Protein, Rap- D1
Length = 82
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 23/30 (76%)
Query: 29 ISEYACENGRCISLDRFCNEYDDCGDKSDE 58
++++ C NGRCI+++ C+ +DCGD SDE
Sbjct: 48 LTQFTCNNGRCININWRCDNDNDCGDNSDE 77
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 25/37 (67%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDEPRYCS 63
C ++++C +GRCI + C+ DDCGD+SDE C+
Sbjct: 5 CPPNQFSCASGRCIPISWTCDLDDDCGDRSDESASCA 41
>pdb|3M0C|C Chain C, The X-Ray Crystal Structure Of Pcsk9 In Complex With The
Ldl Receptor
Length = 791
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 21/30 (70%)
Query: 30 SEYACENGRCISLDRFCNEYDDCGDKSDEP 59
+++ C +G CI+LD+ CN DC D SDEP
Sbjct: 277 NKFKCHSGECITLDKVCNMARDCRDWSDEP 306
Score = 32.3 bits (72), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 18/32 (56%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
CR E+ C +G CI R C+ DC D SDE
Sbjct: 233 CRPDEFQCSDGNCIHGSRQCDREYDCKDMSDE 264
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDEPR 60
C +E+ C++G+CIS C+ +C D SDE +
Sbjct: 24 CERNEFQCQDGKCISYKWVCDGSAECQDGSDESQ 57
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C E+ C +G+CIS C+ DC D SDE
Sbjct: 106 CSQDEFRCHDGKCISRQFVCDSDRDCLDGSDE 137
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C E+ C +G CI C+ DC DKSDE
Sbjct: 194 CSAFEFHCLSGECIHSSWRCDGGPDCKDKSDE 225
>pdb|1N7D|A Chain A, Extracellular Domain Of The Ldl Receptor
Length = 699
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 21/30 (70%)
Query: 30 SEYACENGRCISLDRFCNEYDDCGDKSDEP 59
+++ C +G CI+LD+ CN DC D SDEP
Sbjct: 259 NKFKCHSGECITLDKVCNMARDCRDWSDEP 288
Score = 32.0 bits (71), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 18/32 (56%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
CR E+ C +G CI R C+ DC D SDE
Sbjct: 215 CRPDEFQCSDGNCIHGSRQCDREYDCKDMSDE 246
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDEPR 60
C +E+ C++G+CIS C+ +C D SDE +
Sbjct: 6 CERNEFQCQDGKCISYKWVCDGSAECQDGSDESQ 39
Score = 28.9 bits (63), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C E+ C +G+CIS C+ DC D SDE
Sbjct: 88 CSQDEFRCHDGKCISRQFVCDSDRDCLDGSDE 119
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C E+ C +G CI C+ DC DKSDE
Sbjct: 176 CSAFEFHCLSGECIHSSWRCDGGPDCKDKSDE 207
>pdb|2M0P|A Chain A, Solution Structure Of The Tenth Complement Type Repeat
Of Human Megalin
Length = 52
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 28/41 (68%), Gaps = 1/41 (2%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDEPRYCSRSKT 67
C ++Y C+N +CIS + C+ +DCGD SDE + C+ ++T
Sbjct: 7 CLDTQYTCDNHQCISKNWVCDTDNDCGDGSDE-KNCNSTET 46
>pdb|1XFE|A Chain A, Solution Structure Of The La7-Egfa Pair From The Ldl
Receptor
Length = 83
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 21/30 (70%)
Query: 30 SEYACENGRCISLDRFCNEYDDCGDKSDEP 59
+++ C +G CI+LD+ CN DC D SDEP
Sbjct: 10 NKFKCHSGECITLDKVCNMARDCRDWSDEP 39
>pdb|1J8E|A Chain A, Crystal Structure Of Ligand-Binding Repeat Cr7 From Lrp
Length = 44
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C +++ C +GRCI C+ +DCGD SDE
Sbjct: 5 CSSTQFKCNSGRCIPEHWTCDGDNDCGDYSDE 36
>pdb|3OJY|B Chain B, Crystal Structure Of Human Complement Component C8
Length = 537
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 35 ENGRCISLDRFCNEYDDCGDKSDE 58
+ GRC++ CN +DCGD+SDE
Sbjct: 75 QTGRCVNRRLLCNGDNDCGDQSDE 98
>pdb|2XRC|A Chain A, Human Complement Factor I
pdb|2XRC|B Chain B, Human Complement Factor I
pdb|2XRC|C Chain C, Human Complement Factor I
pdb|2XRC|D Chain D, Human Complement Factor I
Length = 565
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 32 YACENGRCISLDRFCNEYDDCGDKSDE 58
+ C NG+ IS + C+ +DCGD+SDE
Sbjct: 209 FQCVNGKYISQMKACDGINDCGDQSDE 235
>pdb|1D2L|A Chain A, Nmr Solution Structure Of Complement-Like Repeat Cr3
From The Low Density Lipoprotein Receptor-Related
Protein (Lrp) . Evidence For Specific Binding To The
Receptor Binding Domain Of Human Alpha-2 Macroglobulin
Length = 45
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE-PRYCSR 64
C+ E+AC N RCI C+ +DC D SDE P C +
Sbjct: 6 CQPGEFACANSRCIQERWKCDGDNDCLDNSDEAPALCHQ 44
>pdb|1F8Z|A Chain A, Nmr Structure Of The Sixth Ligand-Binding Module Of The
Ldl Receptor
Length = 39
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 18/32 (56%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
CR E+ C +G CI R C+ DC D SDE
Sbjct: 3 CRPDEFQCSDGNCIHGSRQCDREYDCKDMSDE 34
>pdb|1LDL|A Chain A, Three-Dimensional Structure Of A Cysteine-Rich Repeat
From The Low-Density Lipoprotein Receptor
Length = 48
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDEPR 60
C +E+ C++G+CIS C+ +C D SDE +
Sbjct: 8 CERNEFQCQDGKCISYKWVCDGSAECQDGSDESQ 41
>pdb|1D2J|A Chain A, Ldl Receptor Ligand-Binding Module 6
Length = 40
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 18/32 (56%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
CR E+ C +G CI R C+ DC D SDE
Sbjct: 4 CRPDEFQCSDGNCIHGSRQCDREYDCKDLSDE 35
>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 = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDEPR 60
C +E+ C++G+CIS C+ +C D SDE +
Sbjct: 8 CERNEFQCQDGKCISYKWVCDGSAECQDGSDESQ 41
>pdb|3A7Q|B Chain B, Structural Basis For Specific Recognition Of Reelin By
Its Receptors
Length = 44
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 18/32 (56%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C ++ C N RCI C+E DDC D SDE
Sbjct: 8 CEKDQFQCRNERCIPSVWRCDEDDDCLDHSDE 39
>pdb|2FCW|B Chain B, Structure Of A Complex Between The Pair Of The Ldl
Receptor Ligand-Binding Modules 3-4 And The Receptor
Associated Protein (Rap)
Length = 80
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C +E+ C +G+CIS C+ DC D SDE
Sbjct: 3 CSQAEFRCHDGKCISRQFVCDSDRDCLDGSDE 34
>pdb|2LGP|A Chain A, Solution Structure Of La45 From Ldlr
Length = 94
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C E+ C +G CI C+ DC DKSDE
Sbjct: 56 CSAFEFHCLSGECIHSSWRCDGGPDCKDKSDE 87
>pdb|1AJJ|A Chain A, Ldl Receptor Ligand-Binding Module 5,
Calcium-Coordinating
Length = 37
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 27 CRISEYACENGRCISLDRFCNEYDDCGDKSDE 58
C E+ C +G CI C+ DC DKSDE
Sbjct: 2 CSAFEFHCLSGECIHSSWRCDGGPDCKDKSDE 33
>pdb|2JM4|A Chain A, The Solution Nmr Structure Of The Relaxin (Rxfp1)
Receptor Ldla Module
Length = 43
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 27 CRISEYACEN-GRCISLDRFCNEYDDCGDKSDE 58
C + + C N +C+ CN DDCG+++DE
Sbjct: 7 CSLGYFPCGNITKCLPQLLHCNGVDDCGNQADE 39
>pdb|1JRF|A Chain A, Nmr Solution Structure Of The Viral Receptor Domain Of
Tva
Length = 47
Score = 25.4 bits (54), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 28 RISEYACENGRCISLDRFCNEYDDCGDKSDE 58
R SE +G C D C+ + DC D DE
Sbjct: 11 RCSEPPGAHGECYPQDWLCDGHPDCDDGRDE 41
>pdb|1K7B|A Chain A, Nmr Solution Structure Of Stva47, The Viral-Binding
Domain Of Tva
Length = 47
Score = 25.4 bits (54), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 28 RISEYACENGRCISLDRFCNEYDDCGDKSDE 58
R SE +G C D C+ + DC D DE
Sbjct: 13 RCSEPPGAHGECYPQDWLCDGHPDCDDGRDE 43
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
0.328 0.141 0.475
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,219,865
Number of Sequences: 62578
Number of extensions: 68112
Number of successful extensions: 225
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 184
Number of HSP's gapped (non-prelim): 45
length of query: 85
length of database: 14,973,337
effective HSP length: 53
effective length of query: 32
effective length of database: 11,656,703
effective search space: 373014496
effective search space used: 373014496
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)