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= 045249
(211 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 = 74.3 bits (181), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 33/72 (45%), Positives = 49/72 (68%)
Query: 1 GRQKIQIKKLEDKNSLQVTFSKRRSGLFSKAMELCVLCGAEVGIIVFSPNGKIFLAGHPD 60
GR+KIQI ++ D+ + QVTF+KR+ GL KA EL VLC E+ +I+F+ + K+F D
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 61 FDKILNRYLDQN 72
DK+L +Y + N
Sbjct: 61 MDKVLLKYTEYN 72
>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 = 73.9 bits (180), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 33/72 (45%), Positives = 49/72 (68%)
Query: 1 GRQKIQIKKLEDKNSLQVTFSKRRSGLFSKAMELCVLCGAEVGIIVFSPNGKIFLAGHPD 60
GR+KIQI ++ D+ + QVTF+KR+ GL KA EL VLC E+ +I+F+ + K+F D
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 61 FDKILNRYLDQN 72
DK+L +Y + N
Sbjct: 61 MDKVLLKYTEYN 72
>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 = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 33/72 (45%), Positives = 49/72 (68%)
Query: 1 GRQKIQIKKLEDKNSLQVTFSKRRSGLFSKAMELCVLCGAEVGIIVFSPNGKIFLAGHPD 60
GR+KIQI ++ D+ + QVTF+KR+ GL KA EL VL AE+ +I+F+ + K+F D
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 61 FDKILNRYLDQN 72
DK+L +Y + N
Sbjct: 61 MDKVLLKYTEYN 72
>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 = 71.6 bits (174), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 32/68 (47%), Positives = 47/68 (69%)
Query: 1 GRQKIQIKKLEDKNSLQVTFSKRRSGLFSKAMELCVLCGAEVGIIVFSPNGKIFLAGHPD 60
GR+KIQI ++ D+ + QVTF+KR+ GL KA EL VLC E+ +I+F+ + K+F D
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 61 FDKILNRY 68
DK+L +Y
Sbjct: 61 MDKVLLKY 68
>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 = 70.9 bits (172), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 50/81 (61%)
Query: 1 GRQKIQIKKLEDKNSLQVTFSKRRSGLFSKAMELCVLCGAEVGIIVFSPNGKIFLAGHPD 60
GR+KIQI ++ D+ + QVTF+KR+ GL KA EL VLC E+ +I+F+ ++F D
Sbjct: 2 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 61
Query: 61 FDKILNRYLDQNHSSLDEVNT 81
D++L +Y + + NT
Sbjct: 62 MDRVLLKYTEYSEPHESRTNT 82
>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 = 70.5 bits (171), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 50/81 (61%)
Query: 1 GRQKIQIKKLEDKNSLQVTFSKRRSGLFSKAMELCVLCGAEVGIIVFSPNGKIFLAGHPD 60
GR+KIQI ++ D+ + QVTF+KR+ GL KA EL VLC E+ +I+F+ ++F D
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 61 FDKILNRYLDQNHSSLDEVNT 81
D++L +Y + + NT
Sbjct: 61 MDRVLLKYTEYSEPHESRTNT 81
>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 = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/66 (42%), Positives = 42/66 (63%)
Query: 2 RQKIQIKKLEDKNSLQVTFSKRRSGLFSKAMELCVLCGAEVGIIVFSPNGKIFLAGHPDF 61
R+KI+IK +E+K VTFSKR+ G+ KA EL VL G +V ++V S G ++ P F
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
Query: 62 DKILNR 67
+ I+ +
Sbjct: 78 EPIVTQ 83
>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 = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 35/54 (64%)
Query: 1 GRQKIQIKKLEDKNSLQVTFSKRRSGLFSKAMELCVLCGAEVGIIVFSPNGKIF 54
GR KI+++ +++K TFSKR++G+ KA EL L G +V ++V S G ++
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVY 63
>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 = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 35/54 (64%)
Query: 1 GRQKIQIKKLEDKNSLQVTFSKRRSGLFSKAMELCVLCGAEVGIIVFSPNGKIF 54
GR KI+++ +++K TFSKR++G+ KA EL L G +V ++V S G ++
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVY 64
>pdb|2VK9|A Chain A, Crystal Structure Of The Catalytic Domain Of Alpha-Toxin
From Clostridium Novyi
Length = 551
Score = 30.8 bits (68), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 16/75 (21%)
Query: 69 LDQNHSSLDEVNTIPCVQQHNKEYEDAMQELEKEKKRGKMIEEEKKKNKSNGRFWWQEGN 128
++QN S N + HNK Y D M+ + + K+ KM+ E K+N S
Sbjct: 156 IEQNQS-----NILDGTYGHNKFYSDRMKLIYRYKRELKMLYENMKQNNS---------- 200
Query: 129 IIDDMGIEELEEYLK 143
+DD+ I L Y K
Sbjct: 201 -VDDIIINFLSNYFK 214
>pdb|4ATY|A Chain A, Crystal Structure Of A Terephthalate 1,2-Cis-
Dihydrodioldehydrogenase From Burkholderia Xenovorans
Lb400
Length = 349
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 43 GIIVFSPNGKIFLAGHPDFDKILNRYLDQNH 73
G+ V P G L +PD D + Y DQ H
Sbjct: 257 GMTVIGPQGADLLLTNPDIDVFVAMYHDQGH 287
>pdb|1SG4|A Chain A, Crystal Structure Of Human Mitochondrial Delta3-delta2-
Enoyl-coa Isomerase
pdb|1SG4|B Chain B, Crystal Structure Of Human Mitochondrial Delta3-delta2-
Enoyl-coa Isomerase
pdb|1SG4|C Chain C, Crystal Structure Of Human Mitochondrial Delta3-delta2-
Enoyl-coa Isomerase
Length = 260
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 5 IQIKKLEDKNSLQ-VTFSKRRSGLFSKAMELCVLCG 39
I ++KLE+ S + V + R G+FS ++L +CG
Sbjct: 38 ISLEKLENDKSFRGVILTSDRPGVFSAGLDLTEMCG 73
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 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,006,784
Number of Sequences: 62578
Number of extensions: 258169
Number of successful extensions: 640
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 622
Number of HSP's gapped (non-prelim): 26
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 49 (23.5 bits)