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= 036705
(212 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 38/88 (43%), Positives = 59/88 (67%), Gaps = 3/88 (3%)
Query: 9 GRQKIAISKIPKKNHLQVTFSKRRTGVFKKASELSTLCGIDIAIIVFSPANKAFSFGHPN 68
GR+KI I++I + + QVTF+KR+ G+ KKA ELS LC +IA+I+F+ +NK F + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 69 VDSIIDRYLARNSNPPSESGTNR-LIEA 95
+D ++ +Y N P ES TN ++EA
Sbjct: 61 MDKVLLKYT--EYNEPHESRTNSDIVEA 86
>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 = 75.5 bits (184), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 36/82 (43%), Positives = 55/82 (67%), Gaps = 2/82 (2%)
Query: 9 GRQKIAISKIPKKNHLQVTFSKRRTGVFKKASELSTLCGIDIAIIVFSPANKAFSFGHPN 68
GR+KI IS+I + + QVTF+KR+ G+ KKA ELS LC +IA+I+F+ AN+ F + +
Sbjct: 2 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 61
Query: 69 VDSIIDRYLARNSNPPSESGTN 90
+D ++ +Y + P ES TN
Sbjct: 62 MDRVLLKYT--EYSEPHESRTN 81
>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 = 75.1 bits (183), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 36/82 (43%), Positives = 55/82 (67%), Gaps = 2/82 (2%)
Query: 9 GRQKIAISKIPKKNHLQVTFSKRRTGVFKKASELSTLCGIDIAIIVFSPANKAFSFGHPN 68
GR+KI IS+I + + QVTF+KR+ G+ KKA ELS LC +IA+I+F+ AN+ F + +
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 69 VDSIIDRYLARNSNPPSESGTN 90
+D ++ +Y + P ES TN
Sbjct: 61 MDRVLLKYT--EYSEPHESRTN 80
>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 = 72.8 bits (177), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 34/79 (43%), Positives = 53/79 (67%), Gaps = 2/79 (2%)
Query: 9 GRQKIAISKIPKKNHLQVTFSKRRTGVFKKASELSTLCGIDIAIIVFSPANKAFSFGHPN 68
GR+KI I++I + + QVTF+KR+ G+ KKA ELS LC +IA+I+F+ +NK F + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 69 VDSIIDRYLARNSNPPSES 87
+D ++ +Y N P ES
Sbjct: 61 MDKVLLKYT--EYNEPHES 77
>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 = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 35/82 (42%), Positives = 54/82 (65%), Gaps = 2/82 (2%)
Query: 9 GRQKIAISKIPKKNHLQVTFSKRRTGVFKKASELSTLCGIDIAIIVFSPANKAFSFGHPN 68
GR+KI I++I + + QVTF+KR+ G+ KKA ELS L +IA+I+F+ +NK F + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 69 VDSIIDRYLARNSNPPSESGTN 90
+D ++ +Y N P ES TN
Sbjct: 61 MDKVLLKYT--EYNEPHESRTN 80
>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 = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 50/70 (71%)
Query: 9 GRQKIAISKIPKKNHLQVTFSKRRTGVFKKASELSTLCGIDIAIIVFSPANKAFSFGHPN 68
GR+KI I++I + + QVTF+KR+ G+ KKA ELS LC +IA+I+F+ +NK F + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 69 VDSIIDRYLA 78
+D ++ +Y A
Sbjct: 61 MDKVLLKYTA 70
>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 = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 39/71 (54%)
Query: 10 RQKIAISKIPKKNHLQVTFSKRRTGVFKKASELSTLCGIDIAIIVFSPANKAFSFGHPNV 69
R+KI I I K VTFSKR+ G+ KKA ELS L G + ++V S ++F P
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
Query: 70 DSIIDRYLARN 80
+ I+ + RN
Sbjct: 78 EPIVTQQEGRN 88
>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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 37/69 (53%)
Query: 5 KPCAGRQKIAISKIPKKNHLQVTFSKRRTGVFKKASELSTLCGIDIAIIVFSPANKAFSF 64
K GR KI + I K TFSKR+TG+ KKA ELSTL G + ++V S ++F
Sbjct: 7 KKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 66
Query: 65 GHPNVDSII 73
+ +I
Sbjct: 67 ATRKLQPMI 75
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 37/69 (53%)
Query: 5 KPCAGRQKIAISKIPKKNHLQVTFSKRRTGVFKKASELSTLCGIDIAIIVFSPANKAFSF 64
K GR KI + I K TFSKR+TG+ KKA ELSTL G + ++V S ++F
Sbjct: 6 KKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 65
Query: 65 GHPNVDSII 73
+ +I
Sbjct: 66 ATRKLQPMI 74
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
0.318 0.132 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,554,301
Number of Sequences: 62578
Number of extensions: 205153
Number of successful extensions: 734
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 724
Number of HSP's gapped (non-prelim): 12
length of query: 212
length of database: 14,973,337
effective HSP length: 95
effective length of query: 117
effective length of database: 9,028,427
effective search space: 1056325959
effective search space used: 1056325959
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)