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= 040948
(286 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 37.4 bits (85), Expect = 0.010, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 5/76 (6%)
Query: 9 KRKRSVKLIEEHGGNSRQGNFEKRKETLKNKAHELETLCDVMVCLVCYGPDGKVETWPED 68
K+ + ++++E +RQ F KRK L KA+EL LCD + L+ + K+ +
Sbjct: 3 KKIQITRIMDER---NRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS- 58
Query: 69 KTKVNDMIDKYKELRE 84
T ++ ++ KY E E
Sbjct: 59 -TDMDKVLLKYTEYNE 73
>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 = 37.0 bits (84), Expect = 0.012, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 5/76 (6%)
Query: 9 KRKRSVKLIEEHGGNSRQGNFEKRKETLKNKAHELETLCDVMVCLVCYGPDGKVETWPED 68
K+ + ++++E +RQ F KRK L KA+EL LCD + L+ + K+ +
Sbjct: 3 KKIQITRIMDER---NRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS- 58
Query: 69 KTKVNDMIDKYKELRE 84
T ++ ++ KY E E
Sbjct: 59 -TDMDKVLLKYTEYNE 73
>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 = 36.2 bits (82), Expect = 0.023, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 24 SRQGNFEKRKETLKNKAHELETLCDVMVCLVCYGPDGKVETWPEDKTKVNDMIDKYKELR 83
+RQ F KRK L KA+EL LCD + L+ + ++ + T ++ ++ KY E
Sbjct: 15 NRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAS--TDMDRVLLKYTEYS 72
Query: 84 E 84
E
Sbjct: 73 E 73
>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 = 35.8 bits (81), Expect = 0.024, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 24 SRQGNFEKRKETLKNKAHELETLCDVMVCLVCYGPDGKVETWPEDKTKVNDMIDKYKELR 83
+RQ F KRK L KA+EL LCD + L+ + ++ + T ++ ++ KY E
Sbjct: 16 NRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAS--TDMDRVLLKYTEYS 73
Query: 84 E 84
E
Sbjct: 74 E 74
>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 = 35.8 bits (81), Expect = 0.031, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 5/71 (7%)
Query: 9 KRKRSVKLIEEHGGNSRQGNFEKRKETLKNKAHELETLCDVMVCLVCYGPDGKVETWPED 68
K+ + ++++E +RQ F KRK L KA+EL LCD + L+ + K+ +
Sbjct: 3 KKIQITRIMDER---NRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS- 58
Query: 69 KTKVNDMIDKY 79
T ++ ++ KY
Sbjct: 59 -TDMDKVLLKY 68
>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 = 33.9 bits (76), Expect = 0.11, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 9 KRKRSVKLIEEHGGNSRQGNFEKRKETLKNKAHELETLCDVMVCLVCYGPDGKVETWPED 68
K+ + ++++E +RQ F KRK L KA+EL L D + L+ + K+ +
Sbjct: 3 KKIQITRIMDER---NRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYAS- 58
Query: 69 KTKVNDMIDKYKELRE 84
T ++ ++ KY E E
Sbjct: 59 -TDMDKVLLKYTEYNE 73
>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 = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 21/45 (46%)
Query: 25 RQGNFEKRKETLKNKAHELETLCDVMVCLVCYGPDGKVETWPEDK 69
R F KRK + KA+EL TL V L+ G V T+ K
Sbjct: 25 RYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRK 69
>pdb|2ZKR|CC Chain c, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 421
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 34/71 (47%), Gaps = 4/71 (5%)
Query: 38 NKAHELETLCDVMVCL----VCYGPDGKVETWPEDKTKVNDMIDKYKELREMPVLMKKAE 93
N + +C + CL + ++E PE V D ++ YK+ +E +L+KK +
Sbjct: 116 NTTQKRYAICSALACLSLPALVMSKGHRIEEVPELPLVVEDKVEGYKKTKEAVLLLKKLK 175
Query: 94 QRLDLLELFES 104
D+ +++ S
Sbjct: 176 AWNDIKKVYAS 186
>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 = 29.6 bits (65), Expect = 2.0, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 22/47 (46%)
Query: 25 RQGNFEKRKETLKNKAHELETLCDVMVCLVCYGPDGKVETWPEDKTK 71
R F KRK + KA+EL TL V L+ G V T+ K +
Sbjct: 26 RYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQ 72
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
0.315 0.134 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,399,688
Number of Sequences: 62578
Number of extensions: 269263
Number of successful extensions: 520
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 511
Number of HSP's gapped (non-prelim): 15
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
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: 51 (24.3 bits)