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= 028641
(206 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 = 79.3 bits (194), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/70 (50%), Positives = 53/70 (75%)
Query: 3 RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
R K Q+ RI + +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+ KL ++AS+ M
Sbjct: 2 RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QETIERYLKH 72
+ + +Y ++
Sbjct: 62 DKVLLKYTEY 71
>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 = 79.0 bits (193), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/70 (50%), Positives = 53/70 (75%)
Query: 3 RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
R K Q+ RI + +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+ KL ++AS+ M
Sbjct: 2 RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QETIERYLKH 72
+ + +Y ++
Sbjct: 62 DKVLLKYTEY 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 = 79.0 bits (193), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/70 (50%), Positives = 52/70 (74%)
Query: 3 RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
R K Q+ RI + +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+ KL ++AS+ M
Sbjct: 2 RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QETIERYLKH 72
+ + +Y +
Sbjct: 62 DKVLLKYTAY 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 = 77.8 bits (190), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 35/73 (47%), Positives = 54/73 (73%)
Query: 1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
M R K Q+ RI + +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+ +L ++AS+
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 SMQETIERYLKHT 73
M + +Y +++
Sbjct: 61 DMDRVLLKYTEYS 73
>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 = 77.0 bits (188), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 35/70 (50%), Positives = 53/70 (75%)
Query: 3 RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
R K Q+ RI + +RQVTF+KR+ GL+KKA+ELSVL DAE+A+IIF+ KL ++AS+ M
Sbjct: 2 RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTDM 61
Query: 63 QETIERYLKH 72
+ + +Y ++
Sbjct: 62 DKVLLKYTEY 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 = 76.6 bits (187), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 34/71 (47%), Positives = 53/71 (74%)
Query: 3 RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
R K Q+ RI + +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+ +L ++AS+ M
Sbjct: 2 RKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTDM 61
Query: 63 QETIERYLKHT 73
+ +Y +++
Sbjct: 62 DRVLLKYTEYS 72
>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 = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/64 (42%), Positives = 43/64 (67%)
Query: 3 RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
R K +++ IEN T R VTFSKR++G++KKAFELSVL +V +++ S G + F++
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
Query: 63 QETI 66
+ +
Sbjct: 78 EPIV 81
>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 = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 39/64 (60%)
Query: 3 RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
R K +M I+N R TFSKR+ G++KKA+ELS L +V +++ S G + FA+ +
Sbjct: 11 RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 70
Query: 63 QETI 66
Q I
Sbjct: 71 QPMI 74
>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 = 53.5 bits (127), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 39/64 (60%)
Query: 3 RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
R K +M I+N R TFSKR+ G++KKA+ELS L +V +++ S G + FA+ +
Sbjct: 12 RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 71
Query: 63 QETI 66
Q I
Sbjct: 72 QPMI 75
>pdb|3EK1|A Chain A, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|B Chain B, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|C Chain C, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|D Chain D, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|E Chain E, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|F Chain F, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|G Chain G, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|H Chain H, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
Length = 504
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 3/72 (4%)
Query: 22 SKRRNGLLKKAFELSVLCDAEVAVIIFSPRGK-LSEFASSSMQET--IERYLKHTKDTRN 78
+K R G+L+K F+L + ++A+I+ S +GK L+E + IE + + K
Sbjct: 91 AKERAGILRKWFDLIIANADDIALIMTSEQGKPLAEARGEVLYAASFIEWFAEEAKRVYG 150
Query: 79 KQQPTEQNMQHL 90
P QN Q L
Sbjct: 151 DTIPAPQNGQRL 162
>pdb|1GQP|A Chain A, Apc10DOC1 SUBUNIT OF S. CEREVISIAE
pdb|1GQP|B Chain B, Apc10DOC1 SUBUNIT OF S. CEREVISIAE
Length = 221
Score = 26.9 bits (58), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/47 (23%), Positives = 24/47 (51%)
Query: 65 TIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKL 111
T + Y+ ++ Q PT +N+QH+ H+ ++ ++ V+ L
Sbjct: 14 TKDLYVNGFQEEIQYQNPTPENLQHMFHQGIEILDSARMINVTHLAL 60
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
0.313 0.127 0.348
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,939,557
Number of Sequences: 62578
Number of extensions: 162191
Number of successful extensions: 452
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 440
Number of HSP's gapped (non-prelim): 20
length of query: 206
length of database: 14,973,337
effective HSP length: 94
effective length of query: 112
effective length of database: 9,091,005
effective search space: 1018192560
effective search space used: 1018192560
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 49 (23.5 bits)