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= psy6537
(66 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 = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 21/36 (58%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
C ++F C D C+ RC+GV DCRD SDE C
Sbjct: 7 CTSAQFKCADGSSCINSRYRCDGVYDCRDNSDEAGC 42
>pdb|2JM4|A Chain A, The Solution Nmr Structure Of The Relaxin (Rxfp1)
Receptor Ldla Module
Length = 43
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNCG 65
C+ F C + +C+P CNGV DC + +DE NCG
Sbjct: 7 CSLGYFPCGNITKCLPQLLHCNGVDDCGNQADEDNCG 43
>pdb|1CR8|A Chain A, Low Density Lipoprotein Receptor-Related Protein
Complement Repeat 8
Length = 42
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 21/36 (58%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
C EF C C+PL RC+G +DC D SDE +C
Sbjct: 4 CHTDEFQCRLDGLCIPLRWRCDGDTDCMDSSDEKSC 39
>pdb|1V9U|5 Chain 5, Human Rhinovirus 2 Bound To A Fragment Of Its Cellular
Receptor Protein
Length = 41
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 18/27 (66%)
Query: 40 LQCVPLSARCNGVSDCRDYSDEVNCGK 66
QC+P+S RC+G +DC DE NCG
Sbjct: 15 TQCIPVSWRCDGENDCDSGEDEENCGN 41
>pdb|3DPR|E Chain E, Human Rhinovirus 2 Bound To A Concatamer Of The Vldl
Receptor Module V3
Length = 39
Score = 33.1 bits (74), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 18/27 (66%)
Query: 40 LQCVPLSARCNGVSDCRDYSDEVNCGK 66
QC+P+S RC+G +DC DE NCG
Sbjct: 13 TQCIPVSWRCDGENDCDSGEDEENCGN 39
>pdb|3M0C|C Chain C, The X-Ray Crystal Structure Of Pcsk9 In Complex With The
Ldl Receptor
Length = 791
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNCG 65
C+ EF C +C+ S RC+G DC+D SDE NC
Sbjct: 194 CSAFEFHCLSG-ECIHSSWRCDGGPDCKDKSDEENCA 229
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 29 CAWSEFSCHDRL-QCVPLSARCNGVSDCRDYSDEVNC 64
C +FSC R+ +C+P RC+G DC + SDE C
Sbjct: 65 CKSGDFSCGGRVNRCIPQFWRCDGQVDCDNGSDEQGC 101
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 32 SEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
++F CH +C+ L CN DCRD+SDE
Sbjct: 277 NKFKCHSG-ECITLDKVCNMARDCRDWSDE 305
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
C EF C D C+ S +C+ DC+D SDEV C
Sbjct: 233 CRPDEFQCSDG-NCIHGSRQCDREYDCKDMSDEVGC 267
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
C+ EF CHD +C+ C+ DC D SDE +C
Sbjct: 106 CSQDEFRCHDG-KCISRQFVCDSDRDCLDGSDEASC 140
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
C +EF C D +C+ C+G ++C+D SDE
Sbjct: 24 CERNEFQCQDG-KCISYKWVCDGSAECQDGSDE 55
>pdb|1LDR|A Chain A, Second Repeat Of The Ldl Receptor Ligand-Binding Domain
Length = 43
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 29 CAWSEFSCHDRL-QCVPLSARCNGVSDCRDYSDEVNC 64
C +FSC R+ +C+P RC+G DC + SDE C
Sbjct: 7 CKSGDFSCGGRVNRCIPQFWRCDGQVDCDNGSDEQGC 43
>pdb|1N7D|A Chain A, Extracellular Domain Of The Ldl Receptor
Length = 699
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNCG 65
C+ EF C +C+ S RC+G DC+D SDE NC
Sbjct: 176 CSAFEFHCLSG-ECIHSSWRCDGGPDCKDKSDEENCA 211
Score = 29.3 bits (64), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 29 CAWSEFSCHDRL-QCVPLSARCNGVSDCRDYSDEVNC 64
C +FSC R+ +C+P RC+G DC + SDE C
Sbjct: 47 CKSGDFSCGGRVNRCIPQFWRCDGQVDCDNGSDEQGC 83
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 32 SEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
++F CH +C+ L CN DCRD+SDE
Sbjct: 259 NKFKCHSG-ECITLDKVCNMARDCRDWSDE 287
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
C EF C D C+ S +C+ DC+D SDEV C
Sbjct: 215 CRPDEFQCSDG-NCIHGSRQCDREYDCKDMSDEVGC 249
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
C+ EF CHD +C+ C+ DC D SDE +C
Sbjct: 88 CSQDEFRCHDG-KCISRQFVCDSDRDCLDGSDEASC 122
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
C +EF C D +C+ C+G ++C+D SDE
Sbjct: 6 CERNEFQCQDG-KCISYKWVCDGSAECQDGSDE 37
>pdb|3P5C|L Chain L, The Structure Of The LdlrPCSK9 COMPLEX REVEALS THE
RECEPTOR IN AN Extended Conformation
Length = 440
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 32 SEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
++F CH +C+ L CN DCRD+SDE
Sbjct: 5 NKFKCHSG-ECITLDKVCNMARDCRDWSDE 33
>pdb|1J8E|A Chain A, Crystal Structure Of Ligand-Binding Repeat Cr7 From Lrp
Length = 44
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVN 63
C+ ++F C + +C+P C+G +DC DYSDE +
Sbjct: 5 CSSTQFKC-NSGRCIPEHWTCDGDNDCGDYSDETH 38
>pdb|1AJJ|A Chain A, Ldl Receptor Ligand-Binding Module 5,
Calcium-Coordinating
Length = 37
Score = 29.6 bits (65), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 41 QCVPLSARCNGVSDCRDYSDEVNCG 65
+C+ S RC+G DC+D SDE NC
Sbjct: 13 ECIHSSWRCDGGPDCKDKSDEENCA 37
>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 = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 29 CAWSEFSCHDRL-QCVPLSARCNGVSDCRDYSDEVNC 64
C +FSC R+ +C+P RC+G DC + SDE C
Sbjct: 49 CKSGDFSCGGRVNRCIPQFWRCDGQVDCDNGSDEQGC 85
Score = 25.0 bits (53), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
C +EF C D +C+ C+G ++C+D SDE
Sbjct: 8 CERNEFQCQDG-KCISYKWVCDGSAECQDGSDE 39
>pdb|1XFE|A Chain A, Solution Structure Of The La7-Egfa Pair From The Ldl
Receptor
Length = 83
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 32 SEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
++F CH +C+ L CN DCRD+SDE
Sbjct: 10 NKFKCHSG-ECITLDKVCNMARDCRDWSDE 38
>pdb|2LGP|A Chain A, Solution Structure Of La45 From Ldlr
Length = 94
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNCG 65
C+ EF C +C+ S RC+G DC+D SDE NC
Sbjct: 56 CSAFEFHCLSG-ECIHSSWRCDGGPDCKDKSDEENCA 91
>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 = 29.3 bits (64), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 32 SEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNCGK 66
++F C D +C+ CNG +DC D SDE +CG+
Sbjct: 121 NKFRC-DSGRCIARKLECNGENDCGDNSDERDCGR 154
>pdb|3A7Q|B Chain B, Structural Basis For Specific Recognition Of Reelin By
Its Receptors
Length = 44
Score = 28.9 bits (63), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNCGK 66
C +F C + +C+P RC+ DC D+SDE +C K
Sbjct: 8 CEKDQFQCRNE-RCIPSVWRCDEDDDCLDHSDEDDCPK 44
>pdb|3OJY|B Chain B, Crystal Structure Of Human Complement Component C8
Length = 537
Score = 28.5 bits (62), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 17/31 (54%)
Query: 34 FSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
F C +CV CNG +DC D SDE NC
Sbjct: 71 FVCAQTGRCVNRRLLCNGDNDCGDQSDEANC 101
>pdb|2KNX|A Chain A, Solution Structure Of Complement Repeat Cr17 From Lrp-1
Length = 50
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 17/33 (51%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
C S FSC CVP C+G DC D +DE
Sbjct: 7 CGPSSFSCPGTHVCVPERWLCDGDKDCADGADE 39
>pdb|2KNY|A Chain A, Fusion Construct Of Cr17 From Lrp-1 And Apoe Residues
130-14
Length = 80
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 17/33 (51%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
C S FSC CVP C+G DC D +DE
Sbjct: 9 CGPSSFSCPGTHVCVPERWLCDGDKDCADGADE 41
>pdb|1F8Z|A Chain A, Nmr Structure Of The Sixth Ligand-Binding Module Of The
Ldl Receptor
Length = 39
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
C EF C D C+ S +C+ DC+D SDEV C
Sbjct: 3 CRPDEFQCSDG-NCIHGSRQCDREYDCKDMSDEVGC 37
>pdb|1D2J|A Chain A, Ldl Receptor Ligand-Binding Module 6
Length = 40
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
C EF C D C+ S +C+ DC+D SDEV C
Sbjct: 4 CRPDEFQCSDG-NCIHGSRQCDREYDCKDLSDEVGC 38
>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 = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
C+ +EF CHD +C+ C+ DC D SDE +C
Sbjct: 3 CSQAEFRCHDG-KCISRQFVCDSDRDCLDGSDEASC 37
>pdb|3OJY|A Chain A, Crystal Structure Of Human Complement Component C8
Length = 554
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 33 EFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
+F C + +C+ CNG DC D SDE +C
Sbjct: 69 DFQCKETGRCLKRHLVCNGDQDCLDGSDEDDC 100
>pdb|2GTL|O Chain O, Lumbricus Erythrocruorin At 3.5a Resolution
Length = 215
Score = 26.6 bits (57), Expect = 3.8, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 29 CAWSEFSCH-DRLQCVPLSARCNGVSDCRDYSDEVNC 64
C E C D QC+ C+G +DCR+ DE +C
Sbjct: 55 CDEHEHQCGGDDPQCISKLFVCDGHNDCRNGEDEKDC 91
>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 = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 42 CVPLSARCNGVSDCRDYSDEVNCG 65
C+P +CNG DC DEV C
Sbjct: 253 CIPSQYQCNGEVDCITGEDEVGCA 276
>pdb|1LDL|A Chain A, Three-Dimensional Structure Of A Cysteine-Rich Repeat
From The Low-Density Lipoprotein Receptor
Length = 48
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDE 61
C +EF C D +C+ C+G ++C+D SDE
Sbjct: 8 CERNEFQCQDG-KCISYKWVCDGSAECQDGSDE 39
>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 = 25.4 bits (54), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 23/33 (69%), Gaps = 1/33 (3%)
Query: 32 SEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNC 64
++F+C++ +C+ ++ RC+ +DC D SDE C
Sbjct: 49 TQFTCNNG-RCININWRCDNDNDCGDNSDEAGC 80
>pdb|2M0P|A Chain A, Solution Structure Of The Tenth Complement Type Repeat
Of Human Megalin
Length = 52
Score = 25.0 bits (53), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 29 CAWSEFSCHDRLQCVPLSARCNGVSDCRDYSDEVNCG 65
C ++++C D QC+ + C+ +DC D SDE NC
Sbjct: 7 CLDTQYTC-DNHQCISKNWVCDTDNDCGDGSDEKNCN 42
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
0.329 0.140 0.525
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,477,640
Number of Sequences: 62578
Number of extensions: 29291
Number of successful extensions: 156
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 107
Number of HSP's gapped (non-prelim): 50
length of query: 66
length of database: 14,973,337
effective HSP length: 37
effective length of query: 29
effective length of database: 12,657,951
effective search space: 367080579
effective search space used: 367080579
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)