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= 045481
(177 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 = 69.7 bits (169), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 33/76 (43%), Positives = 49/76 (64%)
Query: 1 ISKIPKKNNLQVTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSFGHPNVDSILD 60
IS+I + N QVTF+KR+ G+ KKA ELS LC +IALI+F+ AN+ F + ++D +L
Sbjct: 8 ISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTDMDRVLL 67
Query: 61 LYLARNPNPPSESSTD 76
Y + S ++TD
Sbjct: 68 KYTEYSEPHESRTNTD 83
>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 = 69.7 bits (169), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 34/81 (41%), Positives = 53/81 (65%), Gaps = 1/81 (1%)
Query: 1 ISKIPKKNNLQVTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSFGHPNVDSILD 60
I++I + N QVTF+KR+ G+ KKA ELS LC +IALI+F+ +NK F + ++D +L
Sbjct: 7 ITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLL 66
Query: 61 LYLARNPNPPSESSTDRLIEA 81
Y N S +++D ++EA
Sbjct: 67 KYTEYNEPHESRTNSD-IVEA 86
>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 = 69.3 bits (168), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 50/78 (64%)
Query: 1 ISKIPKKNNLQVTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSFGHPNVDSILD 60
IS+I + N QVTF+KR+ G+ KKA ELS LC +IALI+F+ AN+ F + ++D +L
Sbjct: 7 ISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTDMDRVLL 66
Query: 61 LYLARNPNPPSESSTDRL 78
Y + S ++TD L
Sbjct: 67 KYTEYSEPHESRTNTDIL 84
>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 = 67.0 bits (162), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 1 ISKIPKKNNLQVTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSFGHPNVDSILD 60
I++I + N QVTF+KR+ G+ KKA ELS LC +IALI+F+ +NK F + ++D +L
Sbjct: 7 ITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLL 66
Query: 61 LYLARNPNPPSES 73
Y N P ES
Sbjct: 67 KYT--EYNEPHES 77
>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 = 66.2 bits (160), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 30/64 (46%), Positives = 44/64 (68%)
Query: 1 ISKIPKKNNLQVTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSFGHPNVDSILD 60
I++I + N QVTF+KR+ G+ KKA ELS LC +IALI+F+ +NK F + ++D +L
Sbjct: 7 ITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLL 66
Query: 61 LYLA 64
Y A
Sbjct: 67 KYTA 70
>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 = 65.5 bits (158), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/76 (43%), Positives = 48/76 (63%), Gaps = 2/76 (2%)
Query: 1 ISKIPKKNNLQVTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSFGHPNVDSILD 60
I++I + N QVTF+KR+ G+ KKA ELS L +IALI+F+ +NK F + ++D +L
Sbjct: 7 ITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTDMDKVLL 66
Query: 61 LYLARNPNPPSESSTD 76
Y N P ES T+
Sbjct: 67 KYT--EYNEPHESRTN 80
>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 = 50.1 bits (118), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 34/66 (51%)
Query: 1 ISKIPKKNNLQVTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSFGHPNVDSILD 60
I I K VTFSKR+ G+ KKA ELS L G + L+V S ++F P + I+
Sbjct: 23 IKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVT 82
Query: 61 LYLARN 66
RN
Sbjct: 83 QQEGRN 88
>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 = 43.5 bits (101), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 25/39 (64%)
Query: 12 VTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSF 50
TFSKR+ G+ KKA ELSTL G + L+V S ++F
Sbjct: 27 TTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 65
>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 = 43.5 bits (101), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 25/39 (64%)
Query: 12 VTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSF 50
TFSKR+ G+ KKA ELSTL G + L+V S ++F
Sbjct: 28 TTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 66
>pdb|1W4T|A Chain A, X-Ray Crystallographic Structure Of Pseudomonas Aeruginosa
Arylamine N-Acetyltransferase
Length = 299
Score = 32.0 bits (71), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 66 NPNPPSESSTDRLIEAH-RNANIRELNMQLTQVLHQLEVEKKHGEVLSEIRKASC 119
+P PPS ++ DRLI+AH R L++ L + + +++ +K +V+ R C
Sbjct: 40 DPGPPSLANLDRLIDAHLRRVAFENLDVLLDRPI-EIDADKVFAKVVEGSRGGYC 93
>pdb|2CRH|A Chain A, Solution Structure Of The Sh2 Domain Of Human Proto-
Oncogene Protein Vav1
pdb|2ROR|A Chain A, Solution Structure Of The Vav1 Sh2 Domain Complexed With A
Tyrosine-Phosphorylated Peptide From Slp76
Length = 138
Score = 26.6 bits (57), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 116 KASCRQCWWEAPINELGLH 134
KA Q WWE P +L +H
Sbjct: 8 KAEAEQNWWEGPPQDLSVH 26
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 0.132 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,865,451
Number of Sequences: 62578
Number of extensions: 176743
Number of successful extensions: 673
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 662
Number of HSP's gapped (non-prelim): 14
length of query: 177
length of database: 14,973,337
effective HSP length: 92
effective length of query: 85
effective length of database: 9,216,161
effective search space: 783373685
effective search space used: 783373685
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: 48 (23.1 bits)