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= psy11025
(535 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2IFU|A Chain A, Crystal Structure Of A Gamma-Snap From Danio Rerio
pdb|2IFU|B Chain B, Crystal Structure Of A Gamma-Snap From Danio Rerio
pdb|2IFU|C Chain C, Crystal Structure Of A Gamma-Snap From Danio Rerio
pdb|2IFU|D Chain D, Crystal Structure Of A Gamma-Snap From Danio Rerio
Length = 307
Score = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 43/156 (27%), Positives = 73/156 (46%), Gaps = 10/156 (6%)
Query: 302 ASTVLEKGAKSLEELKPDAALTLYSRAADVAHGEDNYKQAAEYISRNREAASTVLEKGAK 361
A+ E+ L++L+ Y A V + E+ + A+ L++ K
Sbjct: 75 AAKAFEQAGXXLKDLQRXPEAVQYIEKASVXYVENG----------TPDTAAXALDRAGK 124
Query: 362 SLEELKSDAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRVKEFDKAADLIRQEIGY 421
E L A+ LY +AA V E+ +QAAE I +A+R+ VR ++FD+AA +++E
Sbjct: 125 LXEPLDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSX 184
Query: 422 HQESEHLLAIGRXXXXXXXXXXXRGDTVAAEKAFKE 457
++E E+ + R D VAA+K +E
Sbjct: 185 YKEXENYPTCYKKCIAQVLVQLHRADYVAAQKCVRE 220
>pdb|3BU8|A Chain A, Crystal Structure Of Trf2 Trfh Domain And Tin2 Peptide
Complex
pdb|3BU8|B Chain B, Crystal Structure Of Trf2 Trfh Domain And Tin2 Peptide
Complex
Length = 235
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 10/83 (12%)
Query: 346 SRNREAASTVLEKGAKSLEELKSDAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRV 405
S + EA T LE LE +K++ LT A V K+AA I C++
Sbjct: 78 SFDMEAELTPLESAINVLEMIKTEFTLT----EAVVESSRKLVKEAAVII------CIKN 127
Query: 406 KEFDKAADLIRQEIGYHQESEHL 428
KEF+KA+ ++++ + ++ L
Sbjct: 128 KEFEKASKILKKHMSKDPTTQKL 150
>pdb|1H6P|A Chain A, Dimeristion Domain From Human Trf2
pdb|1H6P|B Chain B, Dimeristion Domain From Human Trf2
Length = 203
Score = 29.3 bits (64), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 10/75 (13%)
Query: 346 SRNREAASTVLEKGAKSLEELKSDAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRV 405
S + EA T LE LE +K++ LT A V K+AA I C++
Sbjct: 77 SFDMEAELTPLESAINVLEMIKTEFTLT----EAVVESSRKLVKEAAVII------CIKN 126
Query: 406 KEFDKAADLIRQEIG 420
KEF+KA+ ++++ +
Sbjct: 127 KEFEKASKILKKHMS 141
>pdb|3BUA|A Chain A, Crystal Structure Of Trf2 Trfh Domain And Apollo Peptide
Complex
pdb|3BUA|B Chain B, Crystal Structure Of Trf2 Trfh Domain And Apollo Peptide
Complex
pdb|3BUA|C Chain C, Crystal Structure Of Trf2 Trfh Domain And Apollo Peptide
Complex
pdb|3BUA|D Chain D, Crystal Structure Of Trf2 Trfh Domain And Apollo Peptide
Complex
Length = 204
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 10/75 (13%)
Query: 346 SRNREAASTVLEKGAKSLEELKSDAALTLYSRAADVAHGEDNYKQAAEYISRAARMCVRV 405
S + EA T LE LE +K++ LT A V K+AA I C++
Sbjct: 78 SFDMEAELTPLESAINVLEMIKTEFTLT----EAVVESSRKLVKEAAVII------CIKN 127
Query: 406 KEFDKAADLIRQEIG 420
KEF+KA+ ++++ +
Sbjct: 128 KEFEKASKILKKHMS 142
>pdb|2QN0|A Chain A, Structure Of Botulinum Neurotoxin Serotype C1 Light Chain
Protease
Length = 430
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 31/135 (22%), Positives = 58/135 (42%), Gaps = 8/135 (5%)
Query: 139 YQSLNEFLSTHTSEDNQSFEDIIEHAKKKHRIKYPWLYCGEDEAPENTSRFLELPSMQEQ 198
Y+S+ + L++ T+ + SF I K+K KY ++ E N ++F+EL + Q
Sbjct: 297 YRSIAKRLNSITTANPSSFNKYIGEYKQKLIRKYRFVVESSGEVTVNRNKFVELYNELTQ 356
Query: 199 IDQAKDKDRDRRIQTWKFVNKNSAMYTPDGVELTKDEQ------IEMARNRMSINHSGTR 252
I + + +Q K N +YTP + D + ++ +++ G
Sbjct: 357 IFTEFNYAKIYNVQNRKIYLSN--VYTPVTANILDDNVYDIQNGFNIPKSNLNVLFMGQN 414
Query: 253 LHVNPFDEQQSKEAL 267
L NP + + E L
Sbjct: 415 LSRNPALRKVNPEPL 429
>pdb|3DEB|A Chain A, Crystal Structure Of Apo Form (Zinc Removed) Of The
Botulinum Neurotoxin Type C Light Chain
Length = 450
Score = 28.9 bits (63), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 29/125 (23%), Positives = 54/125 (43%), Gaps = 8/125 (6%)
Query: 139 YQSLNEFLSTHTSEDNQSFEDIIEHAKKKHRIKYPWLYCGEDEAPENTSRFLELPSMQEQ 198
Y+S+ + L++ T+ + SF I K+K KY ++ E N ++F+EL + Q
Sbjct: 317 YRSIAKRLNSITTANPSSFNKYIGEYKQKLIRKYRFVVESSGEVTVNRNKFVELYNELTQ 376
Query: 199 IDQAKDKDRDRRIQTWKFVNKNSAMYTPDGVELTKD------EQIEMARNRMSINHSGTR 252
I + + +Q K N +YTP + D + ++ +++ G
Sbjct: 377 IFTEFNYAKIYNVQNRKIYLSN--VYTPVTANILDDNVYDIQNGFNIPKSNLNVLFMGQN 434
Query: 253 LHVNP 257
L NP
Sbjct: 435 LSRNP 439
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
0.312 0.127 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,185,748
Number of Sequences: 62578
Number of extensions: 529386
Number of successful extensions: 1191
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1183
Number of HSP's gapped (non-prelim): 19
length of query: 535
length of database: 14,973,337
effective HSP length: 103
effective length of query: 432
effective length of database: 8,527,803
effective search space: 3684010896
effective search space used: 3684010896
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)