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= psy11331
(780 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1AQS|A Chain A, Cu-Metallothionein From Saccharomyces Cerevisiae, Nmr, 10
Structures
Length = 53
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 304 EGKQLLKPEGSIKNQNQVKTDATLPAYCNPPNPCPVGYTAED 345
EG + GS KN Q + + P CN + CP G +E+
Sbjct: 3 EGHECQCQCGSCKNNEQCQKSCSCPTGCNSDDKCPCGNKSEE 44
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 659 EGKQLLKPEGSIKNQNQVKTDATLPAYCNPPNPCPVGYTAED 700
EG + GS KN Q + + P CN + CP G +E+
Sbjct: 3 EGHECQCQCGSCKNNEQCQKSCSCPTGCNSDDKCPCGNKSEE 44
>pdb|3QMW|A Chain A, Redj With Peg Molecule Bound In The Active Site
pdb|3QMW|B Chain B, Redj With Peg Molecule Bound In The Active Site
pdb|3QMW|C Chain C, Redj With Peg Molecule Bound In The Active Site
pdb|3QMW|D Chain D, Redj With Peg Molecule Bound In The Active Site
Length = 259
Score = 30.8 bits (68), Expect = 3.4, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 5/41 (12%)
Query: 53 QGPSLYNSKNDRVLTENLLREVV-DKMGRDLAD----AYFD 88
+ P LY + D L++ LREV+ D G D AD AYFD
Sbjct: 135 RAPHLYGDRADHTLSDTALREVIRDLGGLDDADTLGAAYFD 175
>pdb|3F1E|X Chain X, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of One
70s Ribosome. The Entire Crystal Structure Contains Two
70s Ribosomes As Described In Remark 400.
pdb|3F1G|X Chain X, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400
Length = 378
Score = 30.0 bits (66), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 462 EVTRIVKKID--RDLIASNMQTISQLQKDLPIAFRFELKLDAIEDTITLIELYYQNFLSY 519
E R+ + +D R L S++Q + +L ++LP R LK + E L ELY+Q L++
Sbjct: 64 EAARLRRTVDTFRSL-ESDLQGLLELMEELPAEEREALKPELEEAAKKLDELYHQTLLNF 122
>pdb|2B9M|Y Chain Y, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Ribosomal Subunit, Trnas,
Mrna And Release Factor Rf2 From A Crystal Structure Of
The Whole Ribosomal Complex". The Entire Crystal
Structure Contains One 70s Ribosome, Trnas, Mrna And
Release Factor Rf2 And Is Described In Remark 400
Length = 365
Score = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 462 EVTRIVKKID--RDLIASNMQTISQLQKDLPIAFRFELKLDAIEDTITLIELYYQNFLSY 519
E R+ + +D R L S++Q + +L ++LP R LK + E L ELY+Q L++
Sbjct: 51 EAARLRRTVDTFRSL-ESDLQGLLELMEELPAEEREALKPELEEAAKKLDELYHQTLLNF 109
>pdb|2IHR|1 Chain 1, Rf2 Of Thermus Thermophilus
Length = 365
Score = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 462 EVTRIVKKID--RDLIASNMQTISQLQKDLPIAFRFELKLDAIEDTITLIELYYQNFLSY 519
E R+ + +D R L S++Q + +L ++LP R LK + E L ELY+Q L++
Sbjct: 51 EAARLRRTVDTFRSL-ESDLQGLLELMEELPAEEREALKPELEEAAKKLDELYHQTLLNF 109
>pdb|2WH1|Y Chain Y, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH3|Y Chain Y, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome). This File Contains The
30s Subunit
Length = 351
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 462 EVTRIVKKID--RDLIASNMQTISQLQKDLPIAFRFELKLDAIEDTITLIELYYQNFLSY 519
E R+ + +D R L S++Q + +L ++LP R LK + E L ELY+Q L++
Sbjct: 46 EAARLRRTVDTFRSL-ESDLQGLLELMEELPAEEREALKPELEEAAKKLDELYHQTLLNF 104
>pdb|2X9R|Y Chain Y, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9T|Y Chain Y, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
Length = 351
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 462 EVTRIVKKID--RDLIASNMQTISQLQKDLPIAFRFELKLDAIEDTITLIELYYQNFLSY 519
E R+ + +D R L S++Q + +L ++LP R LK + E L ELY+Q L++
Sbjct: 46 EAARLRRTVDTFRSL-ESDLQGLLELMEELPAEEREALKPELEEAAKKLDELYHQTLLNF 104
>pdb|3QMV|A Chain A, Redj-Thioesterase From The Prodiginine Biosynthetic
Pathway In Streptomyces Coelicolor
pdb|3QMV|B Chain B, Redj-Thioesterase From The Prodiginine Biosynthetic
Pathway In Streptomyces Coelicolor
pdb|3QMV|C Chain C, Redj-Thioesterase From The Prodiginine Biosynthetic
Pathway In Streptomyces Coelicolor
pdb|3QMV|D Chain D, Redj-Thioesterase From The Prodiginine Biosynthetic
Pathway In Streptomyces Coelicolor
Length = 280
Score = 30.0 bits (66), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 53 QGPSLYNSKNDRVLTENLLREVVDKMGR-----DLADAYFD 88
+ P LY + D L++ LREV+ +G L AYFD
Sbjct: 156 RAPHLYGDRADHTLSDTALREVIRDLGGLDDADTLGAAYFD 196
>pdb|1VHN|A Chain A, Crystal Structure Of A Putative Flavin Oxidoreductase With
Flavin
Length = 318
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 2/69 (2%)
Query: 449 TRRQLIPMFKKFAEVTRIVKKIDRDLIASNMQTISQLQKDLPIAFRFELKLDAIEDTITL 508
+R +++ F++ E+ I K +R + + ++ KDL A RF K+ IE+ L
Sbjct: 239 SREEILRTFERHLELL-IKTKGERKAVVEXRKFLAGYTKDLKGARRFREKVXKIEEVQIL 297
Query: 509 IELYYQNFL 517
E +Y NF+
Sbjct: 298 KEXFY-NFI 305
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
0.316 0.134 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,818,945
Number of Sequences: 62578
Number of extensions: 1052865
Number of successful extensions: 2321
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 2319
Number of HSP's gapped (non-prelim): 12
length of query: 780
length of database: 14,973,337
effective HSP length: 106
effective length of query: 674
effective length of database: 8,340,069
effective search space: 5621206506
effective search space used: 5621206506
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)