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= psy2327
(97 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W8G|A Chain A, Crystal Structure Of E. Coli K-12 Yggs
Length = 234
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 3 AAIKGTLEKVEQACARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQELL 62
A ++ + C R P+E+ L+AVSKTKP I EA + GQR FGENYVQE +
Sbjct: 9 AQVRDKISAAATRCGRSPEEIT-----LLAVSKTKPASAIAEAIDAGQRQFGENYVQEGV 63
Query: 63 EK 64
+K
Sbjct: 64 DK 65
>pdb|3SY1|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or70
Length = 245
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 36/62 (58%), Gaps = 5/62 (8%)
Query: 3 AAIKGTLEKVEQACARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQELL 62
A ++ + C R P+E+ LVAVSKTKP I EA + GQR F E+YVQE +
Sbjct: 10 AQVRDKISAAATRCGRSPEEIT-----LVAVSKTKPASAIAEAIDAGQRQFSEHYVQEGV 64
Query: 63 EK 64
+K
Sbjct: 65 DK 66
>pdb|1B54|A Chain A, Crystal Structure Of A Yeast Hypothetical Protein-A
Structure From Bnl's Human Proteome Project
Length = 257
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/40 (55%), Positives = 26/40 (65%)
Query: 26 SRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQELLEKG 65
S+ L+ VSK KP I Y+ G R FGENYVQEL+EK
Sbjct: 40 SKILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEKA 79
>pdb|1CT5|A Chain A, Crystal Structure Of Yeast Hypothetical Protein
Ybl036c-Selenomet Crystal
Length = 256
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/40 (55%), Positives = 26/40 (65%)
Query: 26 SRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQELLEKG 65
S+ L+ VSK KP I Y+ G R FGENYVQEL+EK
Sbjct: 39 SKILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEKA 78
>pdb|3R79|A Chain A, Crystal Structure Of An Uncharactertized Protein From
Agrobacterium Tumefaciens
pdb|3R79|B Chain B, Crystal Structure Of An Uncharactertized Protein From
Agrobacterium Tumefaciens
Length = 244
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/50 (48%), Positives = 27/50 (54%), Gaps = 7/50 (14%)
Query: 30 LVAVSKTKPKELIIEAYNGGQRHFGENYVQE-------LLEKGHDPEISI 72
LVAVSKT E I + GQR FGEN VQE L EK D E+ +
Sbjct: 33 LVAVSKTFDAEAIQPVIDAGQRVFGENRVQEAQGKWPALKEKTSDIELHL 82
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 20 PQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQ 59
P EL+ RP++V VS T +EL I+ +N ++ E+Y++
Sbjct: 122 PHELELGRPQVVIVSPT--RELAIQIFNEARKFAFESYLK 159
>pdb|3CPG|A Chain A, Crystal Structure Of An Unknown Protein From
Bifidobacterium Adolescentis
Length = 282
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 29 RLVAVSKTKPKELIIEAYNGGQRHFGENYVQELLEK 64
RL+A +KT+ I A + G R GEN QE+ K
Sbjct: 51 RLLAATKTRDIGEIXAAIDAGVRXIGENRPQEVTAK 86
>pdb|1GQ6|A Chain A, Proclavaminate Amidino Hydrolase From Streptomyces
Clavuligerus
pdb|1GQ6|B Chain B, Proclavaminate Amidino Hydrolase From Streptomyces
Clavuligerus
pdb|1GQ6|C Chain C, Proclavaminate Amidino Hydrolase From Streptomyces
Clavuligerus
pdb|1GQ7|A Chain A, Proclavaminate Amidino Hydrolase From Streptomyces
Clavuligerus
pdb|1GQ7|B Chain B, Proclavaminate Amidino Hydrolase From Streptomyces
Clavuligerus
pdb|1GQ7|C Chain C, Proclavaminate Amidino Hydrolase From Streptomyces
Clavuligerus
pdb|1GQ7|D Chain D, Proclavaminate Amidino Hydrolase From Streptomyces
Clavuligerus
pdb|1GQ7|E Chain E, Proclavaminate Amidino Hydrolase From Streptomyces
Clavuligerus
pdb|1GQ7|F Chain F, Proclavaminate Amidino Hydrolase From Streptomyces
Clavuligerus
Length = 313
Score = 26.2 bits (56), Expect = 4.9, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 30 LVAVSKTKPKELIIEAYNGGQRHFGENYVQELLEKGHDPEISIQLKSRGKTAVKEVVD 87
L A S T P A+ GG+ H G + + EK DP +Q+ RG + +D
Sbjct: 143 LDAHSDTNP------AFYGGRYHHGTPFRHGIDEKLIDPAAMVQIGIRGHNPKPDSLD 194
>pdb|2YUN|A Chain A, Solution Structure Of The Sh3 Domain Of Human Nostrin
Length = 79
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 23/45 (51%)
Query: 17 ARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQEL 61
AR+ EL + +V + + K + + NG + HF YV+EL
Sbjct: 18 ARQDDELNLEKGDIVIIHEKKEEGWWFGSLNGKKGHFPAAYVEEL 62
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 0.130 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,012,179
Number of Sequences: 62578
Number of extensions: 113035
Number of successful extensions: 264
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 255
Number of HSP's gapped (non-prelim): 11
length of query: 97
length of database: 14,973,337
effective HSP length: 63
effective length of query: 34
effective length of database: 11,030,923
effective search space: 375051382
effective search space used: 375051382
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: 45 (21.9 bits)