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= 031631
(156 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JSR|A Chain A, X-ray Structure Of All0216 Protein From Nostoc Sp. Pcc
7120 At The Resolution 1.8a. Northeast Structural
Genomics Consortium Target Nsr236
Length = 119
Score = 70.1 bits (170), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 35/75 (46%), Positives = 54/75 (72%), Gaps = 3/75 (4%)
Query: 84 YYFVVANAKFMLDEEEHFQELLFERLRNYGERSKEQDFWLVIEPKFLD--KFPNITKRLR 141
YY+V+A+ +F+L +EE +E+L ER R+Y E+ KE DFWLV +P FL+ +F +I +
Sbjct: 6 YYYVLASRRFLL-QEEPIEEVLKERTRHYHEQEKEIDFWLVPQPAFLEAPEFADIKAKCP 64
Query: 142 RPAVALVSTNGPWIT 156
+PA A++STN +IT
Sbjct: 65 QPAAAIISTNSQFIT 79
>pdb|3HZE|A Chain A, Crystal Structure Of Ycf54 Protein From
Thermosynechococcus Elongatus, Northeast Structural
Genomics Consortium Target Ter59
pdb|3HZE|B Chain B, Crystal Structure Of Ycf54 Protein From
Thermosynechococcus Elongatus, Northeast Structural
Genomics Consortium Target Ter59
pdb|3HZE|C Chain C, Crystal Structure Of Ycf54 Protein From
Thermosynechococcus Elongatus, Northeast Structural
Genomics Consortium Target Ter59
pdb|3HZE|D Chain D, Crystal Structure Of Ycf54 Protein From
Thermosynechococcus Elongatus, Northeast Structural
Genomics Consortium Target Ter59
pdb|3HZE|E Chain E, Crystal Structure Of Ycf54 Protein From
Thermosynechococcus Elongatus, Northeast Structural
Genomics Consortium Target Ter59
pdb|3HZE|F Chain F, Crystal Structure Of Ycf54 Protein From
Thermosynechococcus Elongatus, Northeast Structural
Genomics Consortium Target Ter59
Length = 114
Score = 64.7 bits (156), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/74 (47%), Positives = 49/74 (66%), Gaps = 3/74 (4%)
Query: 84 YYFVVANAKFMLDEEEHFQELLFERLRNYGERSKEQDFWLVIEPKFLD--KFPNITKRLR 141
YY+++A+ KF L EEE +E+ ER R+Y E+ KE DFWLV EP FL+ +F R
Sbjct: 4 YYYILASKKF-LTEEEPLEEVFRERQRHYREQGKEIDFWLVPEPAFLEQPQFAEQKARCP 62
Query: 142 RPAVALVSTNGPWI 155
+PA A++STN +I
Sbjct: 63 QPAAAIISTNQQFI 76
>pdb|3J15|B Chain B, Model Of Ribosome-Bound Archaeal Pelota And Abce1
Length = 593
Score = 26.9 bits (58), Expect = 4.5, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 109 LRNYGERSKEQDFWLVIEPKFLDKFPNITK 138
L+NY ER K + V++P+++D P K
Sbjct: 150 LQNYFERLKNGEIRPVVKPQYVDLLPKAVK 179
>pdb|3J16|B Chain B, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 608
Score = 26.9 bits (58), Expect = 4.6, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 95 LDEEEHFQELLF----ERLRNYGERSKEQDFWLVIEPKFLDKFPNITK 138
D+ +QE++ L+NY + E D +I+P+++D P K
Sbjct: 134 FDDPPEWQEIIKYFRGSELQNYFTKMLEDDIKAIIKPQYVDNIPRAIK 181
>pdb|3BK7|A Chain A, Structure Of The Complete Abce1RNAASE-L Inhibitor Protein
From Pyrococcus Abysii
Length = 607
Score = 26.9 bits (58), Expect = 4.7, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 109 LRNYGERSKEQDFWLVIEPKFLDKFPNITK 138
L+NY ER K + V++P+++D P K
Sbjct: 164 LQNYFERLKNGEIRPVVKPQYVDLLPKAVK 193
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
0.317 0.133 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,125,377
Number of Sequences: 62578
Number of extensions: 146109
Number of successful extensions: 256
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 247
Number of HSP's gapped (non-prelim): 5
length of query: 156
length of database: 14,973,337
effective HSP length: 91
effective length of query: 65
effective length of database: 9,278,739
effective search space: 603118035
effective search space used: 603118035
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)