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= 030079
(183 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ULX|A Chain A, Crystal Structural Of The Conserved Domain Of Rice
Stress-Responsive Nac1
Length = 174
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 32/60 (53%)
Query: 24 YLVCSKENTSAQHGQWRAKGETCEIFSNSYIIGWRTTLEFFEGQVPNERKTDWVMQEFRI 83
Y S+ N +A +G W+A G + +G + L F+ G+ P KTDW+M E+R+
Sbjct: 81 YPNGSRPNRAAGNGYWKATGADKPVAPRGRTLGIKKALVFYAGKAPRGVKTDWIMHEYRL 140
>pdb|1UT4|A Chain A, Structure Of The Conserved Domain Of Anac, A Member Of The
Nac Family Of Transcription Factors
pdb|1UT4|B Chain B, Structure Of The Conserved Domain Of Anac, A Member Of The
Nac Family Of Transcription Factors
pdb|1UT7|A Chain A, Structure Of The Conserved Domain Of Anac, A Member Of The
Nac Family Of Transcription Factors
pdb|1UT7|B Chain B, Structure Of The Conserved Domain Of Anac, A Member Of The
Nac Family Of Transcription Factors
pdb|4DUL|A Chain A, Anac019 Nac Domain Crystal Form Iv
pdb|4DUL|B Chain B, Anac019 Nac Domain Crystal Form Iv
Length = 171
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%)
Query: 24 YLVCSKENTSAQHGQWRAKGETCEIFSNSYIIGWRTTLEFFEGQVPNERKTDWVMQEFRI 83
Y S+ N A G W+A G I + +G + L F+ G+ P KT+W+M E+R+
Sbjct: 83 YPNGSRPNRVAGSGYWKATGTDKIISTEGQRVGIKKALVFYIGKAPKGTKTNWIMHEYRL 142
Query: 84 TQKRLYGDKKEEDSSSLCRVF 104
+ + D LCR++
Sbjct: 143 IEPSRRNGSTKLDDWVLCRIY 163
>pdb|3SWM|A Chain A, The Nac Domain Of Anac019 In Complex With Dna, Gold
Derivative
pdb|3SWM|B Chain B, The Nac Domain Of Anac019 In Complex With Dna, Gold
Derivative
pdb|3SWM|C Chain C, The Nac Domain Of Anac019 In Complex With Dna, Gold
Derivative
pdb|3SWM|D Chain D, The Nac Domain Of Anac019 In Complex With Dna, Gold
Derivative
pdb|3SWP|A Chain A, Anac019 Nac Domain In Complex With Dna
pdb|3SWP|B Chain B, Anac019 Nac Domain In Complex With Dna
pdb|3SWP|C Chain C, Anac019 Nac Domain In Complex With Dna
pdb|3SWP|D Chain D, Anac019 Nac Domain In Complex With Dna
Length = 174
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%)
Query: 24 YLVCSKENTSAQHGQWRAKGETCEIFSNSYIIGWRTTLEFFEGQVPNERKTDWVMQEFRI 83
Y S+ N A G W+A G I + +G + L F+ G+ P KT+W+M E+R+
Sbjct: 86 YPNGSRPNRVAGSGYWKATGTDKIISTEGQRVGIKKALVFYIGKAPKGTKTNWIMHEYRL 145
Query: 84 TQKRLYGDKKEEDSSSLCRVF 104
+ + D LCR++
Sbjct: 146 IEPSRRNGSTKLDDWVLCRIY 166
>pdb|4F52|E Chain E, Structure Of A Glomulin-Rbx1-Cul1 Complex
pdb|4F52|F Chain F, Structure Of A Glomulin-Rbx1-Cul1 Complex
Length = 596
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/117 (23%), Positives = 40/117 (34%), Gaps = 32/117 (27%)
Query: 24 YLVCSKENTSAQHGQWRAKGETCEIFSNSYIIGWRTTLEFFEGQVPNERKTDWVMQEFRI 83
YLV Q G W G F IG + +E ++ N ++
Sbjct: 482 YLVIKDNENDNQTGLWTELGNIENNFLKPLHIGLNMSKAHYEAEIKNSQEA--------- 532
Query: 84 TQKRLYGDKKEEDSSSLCRVFLSGKQSPNH--EMQQKLFSANINNETHSHSTELSFD 138
+ S LC + +SG++ PN EMQ K+ HS +FD
Sbjct: 533 -----------QKSKDLCSITVSGEEIPNMPPEMQLKVL----------HSALFTFD 568
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 26.6 bits (57), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 70 NERKTDWV---MQEFRITQKRLYGDKKEEDSSSLCRVFLSG 107
+RK DW+ M+E T ++GD +++ S+ + F SG
Sbjct: 249 TKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 289
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 26.6 bits (57), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 70 NERKTDWV---MQEFRITQKRLYGDKKEEDSSSLCRVFLSG 107
+RK DW+ M+E T ++GD +++ S+ + F SG
Sbjct: 249 TKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 289
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 26.6 bits (57), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 70 NERKTDWV---MQEFRITQKRLYGDKKEEDSSSLCRVFLSG 107
+RK DW+ M+E T ++GD +++ S+ + F SG
Sbjct: 264 TKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 304
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 70 NERKTDWV---MQEFRITQKRLYGDKKEEDSSSLCRVFLSG 107
+RK DW+ M+E T ++GD +++ S+ + F SG
Sbjct: 285 TKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 325
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 70 NERKTDWV---MQEFRITQKRLYGDKKEEDSSSLCRVFLSG 107
+RK DW+ M+E T ++GD +++ S+ + F SG
Sbjct: 286 TKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 326
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 70 NERKTDWV---MQEFRITQKRLYGDKKEEDSSSLCRVFLSG 107
+RK DW+ M+E T ++GD +++ S+ + F SG
Sbjct: 286 TKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 326
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
0.321 0.134 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,767,333
Number of Sequences: 62578
Number of extensions: 220410
Number of successful extensions: 381
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 377
Number of HSP's gapped (non-prelim): 12
length of query: 183
length of database: 14,973,337
effective HSP length: 93
effective length of query: 90
effective length of database: 9,153,583
effective search space: 823822470
effective search space used: 823822470
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)