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= 040075
(254 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 = 77.8 bits (190), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 38/70 (54%), Positives = 52/70 (74%), Gaps = 2/70 (2%)
Query: 2 GRGKIEIARIESRTNRQVTFSKRRGGLLKKARELSVLCDAEIGLIIFSCTGKLTEFCSES 61
GR KI+I RI NRQVTF+KR+ GL+KKA ELSVLCD EI LIIF+ + KL ++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA--S 58
Query: 62 TSIEEIIRRY 71
T +++++ +Y
Sbjct: 59 TDMDKVLLKY 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 = 77.4 bits (189), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 38/70 (54%), Positives = 52/70 (74%), Gaps = 2/70 (2%)
Query: 2 GRGKIEIARIESRTNRQVTFSKRRGGLLKKARELSVLCDAEIGLIIFSCTGKLTEFCSES 61
GR KI+I RI NRQVTF+KR+ GL+KKA ELSVLCD EI LIIF+ + KL ++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA--S 58
Query: 62 TSIEEIIRRY 71
T +++++ +Y
Sbjct: 59 TDMDKVLLKY 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 = 77.4 bits (189), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 38/70 (54%), Positives = 52/70 (74%), Gaps = 2/70 (2%)
Query: 2 GRGKIEIARIESRTNRQVTFSKRRGGLLKKARELSVLCDAEIGLIIFSCTGKLTEFCSES 61
GR KI+I RI NRQVTF+KR+ GL+KKA ELSVL DAEI LIIF+ + KL ++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYA--S 58
Query: 62 TSIEEIIRRY 71
T +++++ +Y
Sbjct: 59 TDMDKVLLKY 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 = 77.4 bits (189), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 38/71 (53%), Positives = 53/71 (74%), Gaps = 2/71 (2%)
Query: 1 MGRGKIEIARIESRTNRQVTFSKRRGGLLKKARELSVLCDAEIGLIIFSCTGKLTEFCSE 60
MGR KI+I+RI + NRQVTF+KR+ GL+KKA ELSVLCD EI LIIF+ +L ++
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYA-- 58
Query: 61 STSIEEIIRRY 71
ST ++ ++ +Y
Sbjct: 59 STDMDRVLLKY 69
>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 = 75.9 bits (185), Expect = 2e-14, Method: Composition-based stats.
Identities = 39/72 (54%), Positives = 53/72 (73%), Gaps = 2/72 (2%)
Query: 2 GRGKIEIARIESRTNRQVTFSKRRGGLLKKARELSVLCDAEIGLIIFSCTGKLTEFCSES 61
GR KI+I RI NRQVTF+KR+ GL+KKA ELSVLCD EI LIIF+ + KL ++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA--S 58
Query: 62 TSIEEIIRRYQA 73
T +++++ +Y A
Sbjct: 59 TDMDKVLLKYTA 70
>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 = 74.3 bits (181), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 52/70 (74%), Gaps = 2/70 (2%)
Query: 2 GRGKIEIARIESRTNRQVTFSKRRGGLLKKARELSVLCDAEIGLIIFSCTGKLTEFCSES 61
GR KI+I+RI + NRQVTF+KR+ GL+KKA ELSVLCD EI LIIF+ +L ++ S
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYA--S 58
Query: 62 TSIEEIIRRY 71
T ++ ++ +Y
Sbjct: 59 TDMDRVLLKY 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 = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/57 (50%), Positives = 40/57 (70%)
Query: 3 RGKIEIARIESRTNRQVTFSKRRGGLLKKARELSVLCDAEIGLIIFSCTGKLTEFCS 59
R KIEI IE++T R VTFSKR+ G++KKA ELSVL ++ L++ S TG + F +
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 = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 38/58 (65%)
Query: 2 GRGKIEIARIESRTNRQVTFSKRRGGLLKKARELSVLCDAEIGLIIFSCTGKLTEFCS 59
GR KI++ I+++ R TFSKR+ G++KKA ELS L ++ L++ 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 = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 38/58 (65%)
Query: 2 GRGKIEIARIESRTNRQVTFSKRRGGLLKKARELSVLCDAEIGLIIFSCTGKLTEFCS 59
GR KI++ I+++ R TFSKR+ G++KKA ELS L ++ L++ S TG + F +
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 68
>pdb|1DXI|A Chain A, Structure Determination Of Glucose Isomerase From
Streptomyces Murinus At 2.6 Angstroms Resolution
pdb|1DXI|B Chain B, Structure Determination Of Glucose Isomerase From
Streptomyces Murinus At 2.6 Angstroms Resolution
Length = 388
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 54 LTEFCSESTSIEEIIRRYQAA---KGVRIPAGVSNHDSEAIYNELGRMRKETHNLELSLR 110
L F S T E I+R++ A G+ +P +N + ++ + G + +LR
Sbjct: 58 LIPFGSSDTERESHIKRFRQALDATGMTVPMATTNLFTHPVFKDGGFTANDRDVRRYALR 117
Query: 111 RYTGDIDLNS 120
+ G+IDL +
Sbjct: 118 KTIGNIDLAA 127
>pdb|2P67|A Chain A, Crystal Structure Of LaoAO TRANSPORT SYSTEM KINASE
Length = 341
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%)
Query: 7 EIARIESRTNRQVTFSKRRGGLLKKARELSVLCDA 41
++AR E+ R V S GG ++AREL +LC+A
Sbjct: 112 DLARAEAAFIRPVPSSGHLGGASQRARELMLLCEA 146
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
0.320 0.136 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,384,681
Number of Sequences: 62578
Number of extensions: 221613
Number of successful extensions: 551
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 541
Number of HSP's gapped (non-prelim): 11
length of query: 254
length of database: 14,973,337
effective HSP length: 97
effective length of query: 157
effective length of database: 8,903,271
effective search space: 1397813547
effective search space used: 1397813547
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)