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= psy15472
(247 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 = 83.2 bits (204), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 74/218 (33%), Positives = 100/218 (45%), Gaps = 31/218 (14%)
Query: 1 CNCNGFSNRCFFDKELYNRTGH--GGHCLDCQGDRDGPNCEKCRDNYYQKS-----GDNF 53
CNCN S+ C FD ++ TG+ GG C +CQ + G NCE+C+ Y+Q N
Sbjct: 318 CNCNEHSSSCHFDMAVFLATGNVSGGVCDNCQHNTMGRNCEQCKPFYFQHPERDIRDPNL 377
Query: 54 CTACNCNPIGSLNLQC----------NSEGRCQCKPGVTGDKCDRCDVNHYDFGEA---G 100
C C C+P GS N G+C+CK V G++CD C YD G
Sbjct: 378 CEPCTCDPAGSENGGICDGYTDFSVGLIAGQCRCKLHVEGERCDVCKEGFYDLSAEDPYG 437
Query: 101 CKSCECNPAGSVKNTPNCDSVKGQCESAQLSSRGRVHTELRVQSRKNFDPAGNRIWDLRR 160
CKSC CNP G++ CDS G C +L + R L + D G R
Sbjct: 438 CKSCACNPLGTIPGGNPCDSETGYCYCKRLVTGQRCDQCLPQHWGLSNDLDG-----CRP 492
Query: 161 CKRDTYPLGHGGSLNLQCNSE-GRCQCKPGVTGDKCDR 197
C D GG+LN C+ + G+C C P + G +C+
Sbjct: 493 CDCDL-----GGALNNSCSEDSGQCSCLPHMIGRQCNE 525
>pdb|4AQT|A Chain A, Laminin Gamma1 Ln-Le1-2 Structure
Length = 375
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/47 (55%), Positives = 36/47 (76%)
Query: 1 CNCNGFSNRCFFDKELYNRTGHGGHCLDCQGDRDGPNCEKCRDNYYQ 47
C+CNG S C+FD ELY TGHGGHC +C+ + DG CE+CR+N+++
Sbjct: 311 CDCNGRSQECYFDPELYRSTGHGGHCTNCRDNTDGAKCERCRENFFR 357
>pdb|1NPE|B Chain B, Crystal Structure Of Nidogen/laminin Complex
Length = 164
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 43/80 (53%), Gaps = 7/80 (8%)
Query: 24 GHCLDCQGDRDGPNCEKCRDNYY----QKSGDNFCTACNCNPIGSLNLQ--CNS-EGRCQ 76
G CL C + G C++C++ ++ + + C AC CNP G++ Q CN G+CQ
Sbjct: 77 GECLKCIYNTAGFYCDRCKEGFFGNPLAPNPADKCKACACNPYGTVQQQSSCNPVTGQCQ 136
Query: 77 CKPGVTGDKCDRCDVNHYDF 96
C P V+G C CD +Y+
Sbjct: 137 CLPHVSGRDCGTCDPGYYNL 156
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/102 (33%), Positives = 45/102 (44%), Gaps = 23/102 (22%)
Query: 167 PLGHGGSLNL----QCN------SEGRC--------QCKPGVTGDKCDRCDVNHYDFGEA 208
PLG G + L QCN + G C +C G CDRC + A
Sbjct: 45 PLGSNGPVRLCRPCQCNDNIDPNAVGNCNRLTGECLKCIYNTAGFYCDRCKEGFFGNPLA 104
Query: 209 G-----CKSCECNPAGSVKNTPNCDSVKGQCECKDNVEGAQC 245
CK+C CNP G+V+ +C+ V GQC+C +V G C
Sbjct: 105 PNPADKCKACACNPYGTVQQQSSCNPVTGQCQCLPHVSGRDC 146
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 38/119 (31%), Positives = 49/119 (41%), Gaps = 22/119 (18%)
Query: 26 CLDCQGDRDGPNCEKCRDNYY-QKSGDN----FCTACNCNPIGSLNLQCNSEGRC----- 75
C C G CE C D Y+ G N C C CN N+ N+ G C
Sbjct: 22 CTHCPTGTAGKRCELCDDGYFGDPLGSNGPVRLCRPCQCND----NIDPNAVGNCNRLTG 77
Query: 76 ---QCKPGVTGDKCDRCDVNHYDFGEAG-----CKSCECNPAGSVKNTPNCDSVKGQCE 126
+C G CDRC + A CK+C CNP G+V+ +C+ V GQC+
Sbjct: 78 ECLKCIYNTAGFYCDRCKEGFFGNPLAPNPADKCKACACNPYGTVQQQSSCNPVTGQCQ 136
Score = 34.3 bits (77), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 57/139 (41%), Gaps = 15/139 (10%)
Query: 76 QCKPGVTGDKCDRCDVNHY--DFGEAG----CKSCECNPAGSVKNTPNCDSVKGQCESAQ 129
C G G +C+ CD ++ G G C+ C+CN NC+ + G+C
Sbjct: 24 HCPTGTAGKRCELCDDGYFGDPLGSNGPVRLCRPCQCNDNIDPNAVGNCNRLTGECLKCI 83
Query: 130 LSSRGRVHTELRVQSRKNFDPAGNRIWDLRRCKRDTYPLGHGGSLNLQ--CNS-EGRCQC 186
++ G + N A N + C + Y G++ Q CN G+CQC
Sbjct: 84 YNTAGFYCDRCKEGFFGN-PLAPNPADKCKACACNPY-----GTVQQQSSCNPVTGQCQC 137
Query: 187 KPGVTGDKCDRCDVNHYDF 205
P V+G C CD +Y+
Sbjct: 138 LPHVSGRDCGTCDPGYYNL 156
>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 = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 43/80 (53%), Gaps = 7/80 (8%)
Query: 24 GHCLDCQGDRDGPNCEKCRDNYY----QKSGDNFCTACNCNPIGSLNLQ--CNS-EGRCQ 76
G CL C + G C++C++ ++ + + C AC CNP G++ Q CN G+CQ
Sbjct: 75 GECLKCIYNTAGFYCDRCKEGFFGNPLAPNPADKCKACACNPYGTVQQQSSCNPVTGQCQ 134
Query: 77 CKPGVTGDKCDRCDVNHYDF 96
C P V+G C CD +Y+
Sbjct: 135 CLPHVSGRDCGTCDPGYYNL 154
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 185 QCKPGVTGDKCDRCDVNHYDFGEAG-----CKSCECNPAGSVKNTPNCDSVKGQCECKDN 239
+C G CDRC + A CK+C CNP G+V+ +C+ V GQC+C +
Sbjct: 79 KCIYNTAGFYCDRCKEGFFGNPLAPNPADKCKACACNPYGTVQQQSSCNPVTGQCQCLPH 138
Query: 240 VEGAQC 245
V G C
Sbjct: 139 VSGRDC 144
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 38/119 (31%), Positives = 49/119 (41%), Gaps = 22/119 (18%)
Query: 26 CLDCQGDRDGPNCEKCRDNYY-QKSGDN----FCTACNCNPIGSLNLQCNSEGRC----- 75
C C G CE C D Y+ G N C C CN N+ N+ G C
Sbjct: 20 CTHCPTGTAGKRCELCDDGYFGDPLGSNGPVRLCRPCQCND----NIDPNAVGNCNRLTG 75
Query: 76 ---QCKPGVTGDKCDRCDVNHYDFGEAG-----CKSCECNPAGSVKNTPNCDSVKGQCE 126
+C G CDRC + A CK+C CNP G+V+ +C+ V GQC+
Sbjct: 76 ECLKCIYNTAGFYCDRCKEGFFGNPLAPNPADKCKACACNPYGTVQQQSSCNPVTGQCQ 134
Score = 34.3 bits (77), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 57/139 (41%), Gaps = 15/139 (10%)
Query: 76 QCKPGVTGDKCDRCDVNHY--DFGEAG----CKSCECNPAGSVKNTPNCDSVKGQCESAQ 129
C G G +C+ CD ++ G G C+ C+CN NC+ + G+C
Sbjct: 22 HCPTGTAGKRCELCDDGYFGDPLGSNGPVRLCRPCQCNDNIDPNAVGNCNRLTGECLKCI 81
Query: 130 LSSRGRVHTELRVQSRKNFDPAGNRIWDLRRCKRDTYPLGHGGSLNLQ--CNS-EGRCQC 186
++ G + N A N + C + Y G++ Q CN G+CQC
Sbjct: 82 YNTAGFYCDRCKEGFFGN-PLAPNPADKCKACACNPY-----GTVQQQSSCNPVTGQCQC 135
Query: 187 KPGVTGDKCDRCDVNHYDF 205
P V+G C CD +Y+
Sbjct: 136 LPHVSGRDCGTCDPGYYNL 154
>pdb|2Y38|A Chain A, Laminin Alpha5 Chain N-Terminal Fragment
Length = 403
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 9/70 (12%)
Query: 1 CNCNGFSNRCFFDKELYNRTGH---------GGHCLDCQGDRDGPNCEKCRDNYYQKSGD 51
CNC+G + C++D E+ R GG CLDCQ G NCE+C +++
Sbjct: 325 CNCHGHAYDCYYDPEVDRREASQNQDNVYQGGGVCLDCQHHTTGINCERCLPGFFRAPDQ 384
Query: 52 NFCTACNCNP 61
+ C P
Sbjct: 385 PLDSPHVCRP 394
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 0.137 0.479
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,876,670
Number of Sequences: 62578
Number of extensions: 395199
Number of successful extensions: 910
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 731
Number of HSP's gapped (non-prelim): 139
length of query: 247
length of database: 14,973,337
effective HSP length: 96
effective length of query: 151
effective length of database: 8,965,849
effective search space: 1353843199
effective search space used: 1353843199
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: 50 (23.9 bits)