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= 025240
(255 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 85.9 bits (211), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 55/70 (78%)
Query: 1 MGRGKIEIKRIENANSRQVTFSKRRAGLLKKAQELAILCDAEVAVIIFSNTGKLFEFSSS 60
MGR KI+I RI + +RQVTF+KR+ GL+KKA EL++LCD E+A+IIF++ +LF+++S+
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 GMKRTLSRYN 70
M R L +Y
Sbjct: 61 DMDRVLLKYT 70
>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 = 84.3 bits (207), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 55/68 (80%)
Query: 2 GRGKIEIKRIENANSRQVTFSKRRAGLLKKAQELAILCDAEVAVIIFSNTGKLFEFSSSG 61
GR KI+I RI + +RQVTF+KR+ GL+KKA EL++LCD E+A+IIF+++ KLF+++S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 MKRTLSRY 69
M + L +Y
Sbjct: 61 MDKVLLKY 68
>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 = 84.3 bits (207), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 55/68 (80%)
Query: 2 GRGKIEIKRIENANSRQVTFSKRRAGLLKKAQELAILCDAEVAVIIFSNTGKLFEFSSSG 61
GR KI+I RI + +RQVTF+KR+ GL+KKA EL++LCD E+A+IIF+++ KLF+++S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 MKRTLSRY 69
M + L +Y
Sbjct: 61 MDKVLLKY 68
>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 = 84.0 bits (206), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 36/69 (52%), Positives = 55/69 (79%)
Query: 2 GRGKIEIKRIENANSRQVTFSKRRAGLLKKAQELAILCDAEVAVIIFSNTGKLFEFSSSG 61
GR KI+I RI + +RQVTF+KR+ GL+KKA EL++LCD E+A+IIF+++ KLF+++S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 MKRTLSRYN 70
M + L +Y
Sbjct: 61 MDKVLLKYT 69
>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 = 83.2 bits (204), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 36/69 (52%), Positives = 54/69 (78%)
Query: 2 GRGKIEIKRIENANSRQVTFSKRRAGLLKKAQELAILCDAEVAVIIFSNTGKLFEFSSSG 61
GR KI+I RI + +RQVTF+KR+ GL+KKA EL++LCD E+A+IIF++ +LF+++S+
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 62 MKRTLSRYN 70
M R L +Y
Sbjct: 61 MDRVLLKYT 69
>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 = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 55/68 (80%)
Query: 2 GRGKIEIKRIENANSRQVTFSKRRAGLLKKAQELAILCDAEVAVIIFSNTGKLFEFSSSG 61
GR KI+I RI + +RQVTF+KR+ GL+KKA EL++L DAE+A+IIF+++ KLF+++S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 62 MKRTLSRY 69
M + L +Y
Sbjct: 61 MDKVLLKY 68
>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 = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 29/57 (50%), Positives = 41/57 (71%)
Query: 3 RGKIEIKRIENANSRQVTFSKRRAGLLKKAQELAILCDAEVAVIIFSNTGKLFEFSS 59
R KIEIK IEN R VTFSKR+ G++KKA EL++L +V +++ S TG ++ FS+
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFST 74
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 40/58 (68%)
Query: 2 GRGKIEIKRIENANSRQVTFSKRRAGLLKKAQELAILCDAEVAVIIFSNTGKLFEFSS 59
GR KI+++ I+N R TFSKR+ G++KKA EL+ L +V +++ S TG ++ F++
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 67
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 40/58 (68%)
Query: 2 GRGKIEIKRIENANSRQVTFSKRRAGLLKKAQELAILCDAEVAVIIFSNTGKLFEFSS 59
GR KI+++ I+N R TFSKR+ G++KKA EL+ L +V +++ S TG ++ F++
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 68
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
0.313 0.130 0.354
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,903,138
Number of Sequences: 62578
Number of extensions: 206838
Number of successful extensions: 349
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 338
Number of HSP's gapped (non-prelim): 13
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)