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= 038327
(91 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SRS|A Chain A, Serum Response Factor (Srf) Core Complexed With Specific
Sre Dna
pdb|1SRS|B Chain B, Serum Response Factor (Srf) Core Complexed With Specific
Sre Dna
pdb|1HBX|A Chain A, Ternary Complex Of Sap-1 And Srf With Specific Sre Dna
pdb|1HBX|B Chain B, Ternary Complex Of Sap-1 And Srf With Specific Sre Dna
pdb|1HBX|D Chain D, Ternary Complex Of Sap-1 And Srf With Specific Sre Dna
pdb|1HBX|E Chain E, Ternary Complex Of Sap-1 And Srf With Specific Sre Dna
Length = 92
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 24/36 (66%)
Query: 1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI 36
M+ I+N+ R TFSKRK+ KA EL TLTG ++
Sbjct: 17 MEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQV 52
>pdb|1MNM|A Chain A, Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLEX
Crystal Structure
pdb|1MNM|B Chain B, Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLEX
Crystal Structure
Length = 100
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 23/36 (63%)
Query: 1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI 36
+K IEN+ R +TFSKRK KA EL LTG ++
Sbjct: 23 IKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQV 58
>pdb|1K6O|B Chain B, Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dna
Complex
pdb|1K6O|C Chain C, Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dna
Complex
Length = 103
Score = 34.7 bits (78), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 24/36 (66%)
Query: 1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI 36
M+ I+N+ R TFSKRK+ KA EL TLTG ++
Sbjct: 16 MEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQV 51
>pdb|1TQE|P Chain P, Mechanism Of Recruitment Of Class Ii Histone
Deacetylases By Myocyte Enhancer Factor-2
pdb|1TQE|Q Chain Q, Mechanism Of Recruitment Of Class Ii Histone
Deacetylases By Myocyte Enhancer Factor-2
pdb|1TQE|R Chain R, Mechanism Of Recruitment Of Class Ii Histone
Deacetylases By Myocyte Enhancer Factor-2
pdb|1TQE|S Chain S, Mechanism Of Recruitment Of Class Ii Histone
Deacetylases By Myocyte Enhancer Factor-2
Length = 93
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLL 60
+ RI ++ +R +TF+KRK KA EL L EI + ANR M +L
Sbjct: 8 ISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS-ANRLFQYASTDMDRVL 66
Query: 61 L 61
L
Sbjct: 67 L 67
>pdb|1C7U|A Chain A, Complex Of The Dna Binding Core Domain Of The
Transcription Factor Mef2a With A 20mer Oligonucleotide
pdb|1C7U|B Chain B, Complex Of The Dna Binding Core Domain Of The
Transcription Factor Mef2a With A 20mer Oligonucleotide
Length = 85
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 3 RIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLL 61
RI +E +R +TF+KRK KA EL L AEI + +N+ M +LL
Sbjct: 9 RIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNS-SNKLFQYASTDMDKVLL 66
>pdb|1N6J|A Chain A, Structural Basis Of Sequence-Specific Recruitment Of
Histone Deacetylases By Myocyte Enhancer Factor-2
pdb|1N6J|B Chain B, Structural Basis Of Sequence-Specific Recruitment Of
Histone Deacetylases By Myocyte Enhancer Factor-2
Length = 93
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLL 60
+ RI ++ +R +TF+KRK KA EL L EI + ANR M +L
Sbjct: 7 ISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS-ANRLFQYASTDMDRVL 65
Query: 61 L 61
L
Sbjct: 66 L 66
>pdb|3MU6|A Chain A, Inhibiting The Binding Of Class Iia Histone Deacetylases
To Myocyte Enhancer Factor-2 By Small Molecules
pdb|3MU6|B Chain B, Inhibiting The Binding Of Class Iia Histone Deacetylases
To Myocyte Enhancer Factor-2 By Small Molecules
pdb|3MU6|C Chain C, Inhibiting The Binding Of Class Iia Histone Deacetylases
To Myocyte Enhancer Factor-2 By Small Molecules
pdb|3MU6|D Chain D, Inhibiting The Binding Of Class Iia Histone Deacetylases
To Myocyte Enhancer Factor-2 By Small Molecules
Length = 71
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 3 RIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLL 61
RI +E +R +TF+KRK KA EL L EI + +N+ M +LL
Sbjct: 9 RIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS-SNKLFQYASTDMDKVLL 66
>pdb|1EGW|A Chain A, Crystal Structure Of Mef2a Core Bound To Dna
pdb|1EGW|B Chain B, Crystal Structure Of Mef2a Core Bound To Dna
pdb|1EGW|C Chain C, Crystal Structure Of Mef2a Core Bound To Dna
pdb|1EGW|D Chain D, Crystal Structure Of Mef2a Core Bound To Dna
Length = 77
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 3 RIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLL 61
RI +E +R +TF+KRK KA EL L EI + +N+ M +LL
Sbjct: 9 RIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS-SNKLFQYASTDMDKVLL 66
>pdb|3KOV|A Chain A, Structure Of Mef2a Bound To Dna Reveals A Completely
Folded Mads-BoxMEF2 DOMAIN THAT RECOGNIZES DNA AND
RECRUITS Transcription Co-Factors
pdb|3KOV|B Chain B, Structure Of Mef2a Bound To Dna Reveals A Completely
Folded Mads-BoxMEF2 DOMAIN THAT RECOGNIZES DNA AND
RECRUITS Transcription Co-Factors
pdb|3KOV|I Chain I, Structure Of Mef2a Bound To Dna Reveals A Completely
Folded Mads-BoxMEF2 DOMAIN THAT RECOGNIZES DNA AND
RECRUITS Transcription Co-Factors
pdb|3KOV|J Chain J, Structure Of Mef2a Bound To Dna Reveals A Completely
Folded Mads-BoxMEF2 DOMAIN THAT RECOGNIZES DNA AND
RECRUITS Transcription Co-Factors
pdb|3P57|A Chain A, Crystal Structure Of The P300 Taz2 Domain Bound To Mef2
On Dna
pdb|3P57|B Chain B, Crystal Structure Of The P300 Taz2 Domain Bound To Mef2
On Dna
pdb|3P57|C Chain C, Crystal Structure Of The P300 Taz2 Domain Bound To Mef2
On Dna
pdb|3P57|D Chain D, Crystal Structure Of The P300 Taz2 Domain Bound To Mef2
On Dna
pdb|3P57|I Chain I, Crystal Structure Of The P300 Taz2 Domain Bound To Mef2
On Dna
pdb|3P57|J Chain J, Crystal Structure Of The P300 Taz2 Domain Bound To Mef2
On Dna
Length = 90
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 3 RIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLL 61
RI +E +R +TF+KRK KA EL L EI + +N+ M +LL
Sbjct: 9 RIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS-SNKLFQYASTDMDKVLL 66
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 0.128 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,274,985
Number of Sequences: 62578
Number of extensions: 64497
Number of successful extensions: 195
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 186
Number of HSP's gapped (non-prelim): 10
length of query: 91
length of database: 14,973,337
effective HSP length: 58
effective length of query: 33
effective length of database: 11,343,813
effective search space: 374345829
effective search space used: 374345829
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: 45 (21.9 bits)