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= psy12862
(98 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AQS|A Chain A, Laminin Beta1 Ln-Le1-4 Structure
Length = 525
Score = 62.0 bits (149), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 37/63 (58%)
Query: 35 CNCNNHARKCRFNMELYKLSGRSSGGVCLQCRHFTAGRHCHYCKEGYYRDPSRPITHRKA 94
CNCN H+ C F+M ++ +G SGGVC C+H T GR+C CK Y++ P R I
Sbjct: 318 CNCNEHSSSCHFDMAVFLATGNVSGGVCDNCQHNTMGRNCEQCKPFYFQHPERDIRDPNL 377
Query: 95 CKK 97
C+
Sbjct: 378 CEP 380
Score = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 36/80 (45%), Gaps = 3/80 (3%)
Query: 20 KKFRCSSRDRIFFQTCNCNNHARKCRFNMELYKLSGRSSGGVCLQCRHFTAGRHCHYCKE 79
+K+ + D + C C HA +C + + G C+ CRH T G +C C +
Sbjct: 239 EKYYYAVYDMVVRGNCFCYGHASECAPVDGVNEEVEGMVHGHCM-CRHNTKGLNCELCMD 297
Query: 80 GYYRDPSRPITHR--KACKK 97
Y+ P RP R ACKK
Sbjct: 298 FYHDLPWRPAEGRNSNACKK 317
>pdb|2Y38|A Chain A, Laminin Alpha5 Chain N-Terminal Fragment
Length = 403
Score = 54.3 bits (129), Expect = 2e-08, Method: Composition-based stats.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 7/71 (9%)
Query: 33 QTCNCNNHARKCRFNMELYKLSGRSS-------GGVCLQCRHFTAGRHCHYCKEGYYRDP 85
Q+CNC+ HA C ++ E+ + + GGVCL C+H T G +C C G++R P
Sbjct: 323 QSCNCHGHAYDCYYDPEVDRREASQNQDNVYQGGGVCLDCQHHTTGINCERCLPGFFRAP 382
Query: 86 SRPITHRKACK 96
+P+ C+
Sbjct: 383 DQPLDSPHVCR 393
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 19/75 (25%), Positives = 30/75 (40%), Gaps = 6/75 (8%)
Query: 20 KKFRCSSRDRIFFQTCNCNNHARKCRFNMELYKLSGRSSGGVCLQCRHFTAGRHCHYCKE 79
+++ S +D C C+ HA C L + + C+H T G C C
Sbjct: 251 RRYYYSIKDISIGGRCVCHGHADVCDAKDPLDPFRLQCA------CQHNTCGGSCDRCCP 304
Query: 80 GYYRDPSRPITHRKA 94
G+ + P +P T A
Sbjct: 305 GFNQQPWKPATTDSA 319
>pdb|4AQT|A Chain A, Laminin Gamma1 Ln-Le1-2 Structure
Length = 375
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 30/49 (61%), Gaps = 2/49 (4%)
Query: 35 CNCNNHARKCRFNMELYKLSGRSSGGVCLQCRHFTAGRHCHYCKEGYYR 83
C+CN +++C F+ ELY+ +G GG C CR T G C C+E ++R
Sbjct: 311 CDCNGRSQECYFDPELYRSTGH--GGHCTNCRDNTDGAKCERCRENFFR 357
>pdb|1TLE|A Chain A, Le (Laminin-Type Egf-Like) Module Giii4 In Solution At
Ph 3.5 And 290 K, Nmr, 14 Structures
Length = 58
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 60 GVCLQCRHFTAGRHCHYCKEGYYRDPSRPITHRK 93
G CL+C + TAG +C CKEG++ +P P K
Sbjct: 22 GECLKCIYNTAGFYCDRCKEGFFGNPLAPNPADK 55
>pdb|1KLO|A Chain A, Crystal Structure Of Three Consecutive Laminin-Type
Epidermal Growth Factor-Like (Le) Modules Of Laminin
Gamma1 Chain Harboring The Nidogen Binding Site
Length = 162
Score = 32.3 bits (72), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 60 GVCLQCRHFTAGRHCHYCKEGYYRDPSRPITHRK 93
G CL+C + TAG +C CKEG++ +P P K
Sbjct: 75 GECLKCIYNTAGFYCDRCKEGFFGNPLAPNPADK 108
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 61 VCLQCRHFTAGRHCHYCKEGYYRDP 85
VC C TAG+ C C +GY+ DP
Sbjct: 19 VCTHCPTGTAGKRCELCDDGYFGDP 43
>pdb|1NPE|B Chain B, Crystal Structure Of Nidogen/laminin Complex
Length = 164
Score = 32.3 bits (72), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 60 GVCLQCRHFTAGRHCHYCKEGYYRDPSRPITHRK 93
G CL+C + TAG +C CKEG++ +P P K
Sbjct: 77 GECLKCIYNTAGFYCDRCKEGFFGNPLAPNPADK 110
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 61 VCLQCRHFTAGRHCHYCKEGYYRDP 85
VC C TAG+ C C +GY+ DP
Sbjct: 21 VCTHCPTGTAGKRCELCDDGYFGDP 45
>pdb|3ZYJ|B Chain B, Netring1 In Complex With Ngl1
pdb|3ZYJ|D Chain D, Netring1 In Complex With Ngl1
Length = 426
Score = 28.1 bits (61), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 28/71 (39%), Gaps = 10/71 (14%)
Query: 18 HLKKFRCSSRDRIFFQTCNCNNHARKCRFNMELYKLSGRSSGGVCLQCRHFTAGRHCHYC 77
HL ++ + D C CN HA C ++ + + +C H T G C C
Sbjct: 280 HLARYFYAISDIKVRGRCKCNLHATVCVYD----------NSKLTCECEHNTTGPDCGKC 329
Query: 78 KEGYYRDPSRP 88
K+ Y P P
Sbjct: 330 KKNYQGRPWSP 340
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
0.327 0.138 0.468
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,222,029
Number of Sequences: 62578
Number of extensions: 108538
Number of successful extensions: 287
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: 264
Number of HSP's gapped (non-prelim): 25
length of query: 98
length of database: 14,973,337
effective HSP length: 64
effective length of query: 34
effective length of database: 10,968,345
effective search space: 372923730
effective search space used: 372923730
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)