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= 044792
(219 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 = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 36/93 (38%), Positives = 52/93 (55%), Gaps = 4/93 (4%)
Query: 10 GLQKIEIKRVERKSARQVTFSKRKKGLFNKASELCVLCGAEVAIVIMSPHKRAFTFGHPN 69
G +KI+I R+ + RQVTF+KRK GL KA EL VLC E+A++I + R F + +
Sbjct: 2 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 61
Query: 70 PDDVLDRFLTGAGAESSLAATTVEDEKLERLKQ 102
D VL ++ + S T + LE LK+
Sbjct: 62 MDRVLLKYTEYSEPHESRTNTDI----LETLKR 90
>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 = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 36/93 (38%), Positives = 52/93 (55%), Gaps = 4/93 (4%)
Query: 10 GLQKIEIKRVERKSARQVTFSKRKKGLFNKASELCVLCGAEVAIVIMSPHKRAFTFGHPN 69
G +KI+I R+ + RQVTF+KRK GL KA EL VLC E+A++I + R F + +
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 70 PDDVLDRFLTGAGAESSLAATTVEDEKLERLKQ 102
D VL ++ + S T + LE LK+
Sbjct: 61 MDRVLLKYTEYSEPHESRTNTDI----LETLKR 89
>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 = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 43/68 (63%)
Query: 10 GLQKIEIKRVERKSARQVTFSKRKKGLFNKASELCVLCGAEVAIVIMSPHKRAFTFGHPN 69
G +KI+I R+ + RQVTF+KRK GL KA EL VLC E+A++I + + F + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 70 PDDVLDRF 77
D VL ++
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 = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 43/68 (63%)
Query: 10 GLQKIEIKRVERKSARQVTFSKRKKGLFNKASELCVLCGAEVAIVIMSPHKRAFTFGHPN 69
G +KI+I R+ + RQVTF+KRK GL KA EL VLC E+A++I + + F + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 70 PDDVLDRF 77
D VL ++
Sbjct: 61 MDKVLLKY 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 = 60.1 bits (144), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 43/68 (63%)
Query: 10 GLQKIEIKRVERKSARQVTFSKRKKGLFNKASELCVLCGAEVAIVIMSPHKRAFTFGHPN 69
G +KI+I R+ + RQVTF+KRK GL KA EL VL AE+A++I + + F + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 70 PDDVLDRF 77
D VL ++
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 = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 46/80 (57%), Gaps = 4/80 (5%)
Query: 1 MEASKQKNKGLQK----IEIKRVERKSARQVTFSKRKKGLFNKASELCVLCGAEVAIVIM 56
+E N G QK IEIK +E K+ R VTFSKRK G+ KA EL VL G +V ++++
Sbjct: 4 IEEGTPTNNGQQKERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVV 63
Query: 57 SPHKRAFTFGHPNPDDVLDR 76
S +TF P + ++ +
Sbjct: 64 SETGLVYTFSTPKFEPIVTQ 83
>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 = 58.5 bits (140), Expect = 2e-09, Method: Composition-based stats.
Identities = 29/68 (42%), Positives = 43/68 (63%)
Query: 10 GLQKIEIKRVERKSARQVTFSKRKKGLFNKASELCVLCGAEVAIVIMSPHKRAFTFGHPN 69
G +KI+I R+ + RQVTF+KRK GL KA EL VLC E+A++I + + F + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 70 PDDVLDRF 77
D VL ++
Sbjct: 61 MDKVLLKY 68
>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 = 47.0 bits (110), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 36/61 (59%)
Query: 6 QKNKGLQKIEIKRVERKSARQVTFSKRKKGLFNKASELCVLCGAEVAIVIMSPHKRAFTF 65
+K +G KI+++ ++ K R TFSKRK G+ KA EL L G +V +++ S +TF
Sbjct: 6 KKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 65
Query: 66 G 66
Sbjct: 66 A 66
>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 = 47.0 bits (110), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 36/61 (59%)
Query: 6 QKNKGLQKIEIKRVERKSARQVTFSKRKKGLFNKASELCVLCGAEVAIVIMSPHKRAFTF 65
+K +G KI+++ ++ K R TFSKRK G+ KA EL L G +V +++ S +TF
Sbjct: 7 KKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 66
Query: 66 G 66
Sbjct: 67 A 67
>pdb|4G56|A Chain A, Crystal Structure Of Full Length Prmt5/mep50 Complexes
From Xenopus Laevis
pdb|4G56|C Chain C, Crystal Structure Of Full Length Prmt5/mep50 Complexes
From Xenopus Laevis
Length = 657
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 63 FTFGHPNPDDVLD 75
FTF HPN DDV+D
Sbjct: 539 FTFHHPNKDDVID 551
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
0.317 0.134 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,712,195
Number of Sequences: 62578
Number of extensions: 137331
Number of successful extensions: 293
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 282
Number of HSP's gapped (non-prelim): 12
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
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: 49 (23.5 bits)