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= 046479
(228 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 = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 39/72 (54%), Positives = 53/72 (73%), Gaps = 1/72 (1%)
Query: 2 GRGKMVLERIQNKINRQATFAKRRDGLLKKAYELSLLCDAEVALIIFSSHGMLFEFGSNF 61
GR K+ + RI ++ NRQ TF KR+ GL+KKAYELS+LCD E+ALIIF+S LF++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAST- 59
Query: 62 GMAKILERYRQY 73
M K+L +Y +Y
Sbjct: 60 DMDKVLLKYTEY 71
>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 = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 39/73 (53%), Positives = 54/73 (73%), Gaps = 1/73 (1%)
Query: 1 MGRGKMVLERIQNKINRQATFAKRRDGLLKKAYELSLLCDAEVALIIFSSHGMLFEFGSN 60
MGR K+ + RI ++ NRQ TF KR+ GL+KKAYELS+LCD E+ALIIF+S LF++ S
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 FGMAKILERYRQY 73
M ++L +Y +Y
Sbjct: 61 -DMDRVLLKYTEY 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 = 82.0 bits (201), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 39/72 (54%), Positives = 53/72 (73%), Gaps = 1/72 (1%)
Query: 2 GRGKMVLERIQNKINRQATFAKRRDGLLKKAYELSLLCDAEVALIIFSSHGMLFEFGSNF 61
GR K+ + RI ++ NRQ TF KR+ GL+KKAYELS+LCD E+ALIIF+S LF++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAST- 59
Query: 62 GMAKILERYRQY 73
M K+L +Y +Y
Sbjct: 60 DMDKVLLKYTEY 71
>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 = 80.1 bits (196), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 39/72 (54%), Positives = 53/72 (73%), Gaps = 1/72 (1%)
Query: 2 GRGKMVLERIQNKINRQATFAKRRDGLLKKAYELSLLCDAEVALIIFSSHGMLFEFGSNF 61
GR K+ + RI ++ NRQ TF KR+ GL+KKAYELS+L DAE+ALIIF+S LF++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYAST- 59
Query: 62 GMAKILERYRQY 73
M K+L +Y +Y
Sbjct: 60 DMDKVLLKYTEY 71
>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 = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 38/72 (52%), Positives = 53/72 (73%), Gaps = 1/72 (1%)
Query: 2 GRGKMVLERIQNKINRQATFAKRRDGLLKKAYELSLLCDAEVALIIFSSHGMLFEFGSNF 61
GR K+ + RI ++ NRQ TF KR+ GL+KKAYELS+LCD E+ALIIF+S LF++ S
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST- 59
Query: 62 GMAKILERYRQY 73
M ++L +Y +Y
Sbjct: 60 DMDRVLLKYTEY 71
>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 = 78.2 bits (191), Expect = 3e-15, Method: Composition-based stats.
Identities = 39/72 (54%), Positives = 52/72 (72%), Gaps = 1/72 (1%)
Query: 2 GRGKMVLERIQNKINRQATFAKRRDGLLKKAYELSLLCDAEVALIIFSSHGMLFEFGSNF 61
GR K+ + RI ++ NRQ TF KR+ GL+KKAYELS+LCD E+ALIIF+S LF++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAST- 59
Query: 62 GMAKILERYRQY 73
M K+L +Y Y
Sbjct: 60 DMDKVLLKYTAY 71
>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 = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 39/58 (67%)
Query: 2 GRGKMVLERIQNKINRQATFAKRRDGLLKKAYELSLLCDAEVALIIFSSHGMLFEFGS 59
GR K+ +E I NK+ R TF+KR+ G++KKAYELS L +V L++ S G ++ 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 = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 39/58 (67%)
Query: 2 GRGKMVLERIQNKINRQATFAKRRDGLLKKAYELSLLCDAEVALIIFSSHGMLFEFGS 59
GR K+ +E I NK+ R TF+KR+ G++KKAYELS L +V L++ S G ++ F +
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 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 = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 40/57 (70%)
Query: 3 RGKMVLERIQNKINRQATFAKRRDGLLKKAYELSLLCDAEVALIIFSSHGMLFEFGS 59
R K+ ++ I+NK R TF+KR+ G++KKA+ELS+L +V L++ S G+++ F +
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFST 74
>pdb|3I2E|A Chain A, Crystal Structure Of Human Dimethylarginine
Dymethylaminohydrolase-1 (Ddah-1)
pdb|3I2E|B Chain B, Crystal Structure Of Human Dimethylarginine
Dymethylaminohydrolase-1 (Ddah-1)
pdb|3I4A|A Chain A, Crystal Structure Of Dimethylarginine
Dimethylaminohydrolase-1 (Ddah-1) In Complex With N5-(1-
Iminopropyl)-L-Ornithine
pdb|3I4A|B Chain B, Crystal Structure Of Dimethylarginine
Dimethylaminohydrolase-1 (Ddah-1) In Complex With N5-(1-
Iminopropyl)-L-Ornithine
pdb|3P8E|A Chain A, Crystal Structure Of Human Dimethylarginine
Dimethylaminohydrolase-1 (Ddah-1) Covalently Bound With
N5-(1-Iminopentyl)-L-Ornithine
pdb|3P8E|B Chain B, Crystal Structure Of Human Dimethylarginine
Dimethylaminohydrolase-1 (Ddah-1) Covalently Bound With
N5-(1-Iminopentyl)-L-Ornithine
Length = 308
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%)
Query: 139 SRQRKTDLMRQHLETLQKKAHDLEEENKQL 168
SR+++ D+M++ LE LQ ++++EN L
Sbjct: 120 SRRKEVDMMKEALEKLQLNIVEMKDENATL 149
>pdb|3P8P|A Chain A, Crystal Structure Of Human Dimethylarginine
Dimethylaminohydrolase-1 (Ddah-1) Variant C274s Bound
With N5-(1-Iminopentyl)-L-Ornithine
pdb|3P8P|B Chain B, Crystal Structure Of Human Dimethylarginine
Dimethylaminohydrolase-1 (Ddah-1) Variant C274s Bound
With N5-(1-Iminopentyl)-L-Ornithine
Length = 308
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%)
Query: 139 SRQRKTDLMRQHLETLQKKAHDLEEENKQL 168
SR+++ D+M++ LE LQ ++++EN L
Sbjct: 120 SRRKEVDMMKEALEKLQLNIVEMKDENATL 149
>pdb|2JAJ|A Chain A, Ddah1 Complexed With L-257
pdb|2JAJ|B Chain B, Ddah1 Complexed With L-257
Length = 289
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%)
Query: 139 SRQRKTDLMRQHLETLQKKAHDLEEENKQL 168
SR+++ D+M++ LE LQ ++++EN L
Sbjct: 101 SRRKEVDMMKEALEKLQLNIVEMKDENATL 130
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 0.135 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,175,313
Number of Sequences: 62578
Number of extensions: 165728
Number of successful extensions: 494
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 477
Number of HSP's gapped (non-prelim): 17
length of query: 228
length of database: 14,973,337
effective HSP length: 95
effective length of query: 133
effective length of database: 9,028,427
effective search space: 1200780791
effective search space used: 1200780791
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)