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= 031002
(167 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 = 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 = 77.8 bits (190), Expect = 3e-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|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 = 77.8 bits (190), Expect = 3e-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|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 = 77.0 bits (188), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 35/74 (47%), Positives = 55/74 (74%)
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 SMQETIERYLKHTK 74
M + +Y ++++
Sbjct: 61 DMDRVLLKYTEYSE 74
>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 = 76.3 bits (186), Expect = 8e-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 = 75.5 bits (184), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 34/72 (47%), Positives = 54/72 (75%)
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 QETIERYLKHTK 74
+ +Y ++++
Sbjct: 62 DRVLLKYTEYSE 73
>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 = 57.4 bits (137), Expect = 3e-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|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 = 52.4 bits (124), Expect = 1e-07, 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|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 = 52.0 bits (123), Expect = 2e-07, 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|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 = 30.8 bits (68), Expect = 0.37, Method: Composition-based stats.
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 = 5.0, 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
>pdb|2F43|A Chain A, Rat Liver F1-atpase
Length = 510
Score = 26.2 bits (56), Expect = 8.0, Method: Composition-based stats.
Identities = 22/100 (22%), Positives = 45/100 (45%), Gaps = 8/100 (8%)
Query: 11 IENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRG--------KLSEFASSSM 62
++ AT + ++ R LLK+ + + +VAVI RG K+++F S+ +
Sbjct: 410 LDAATQQLLSRGVRLTELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFESAFL 469
Query: 63 QETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIE 102
+ ++ + R+ + +EQ+ LK N + E
Sbjct: 470 SHVVSQHQSLLGNIRSDGKISEQSDAKLKEIVTNFLAGFE 509
>pdb|1MAB|A Chain A, Rat Liver F1-Atpase
Length = 510
Score = 26.2 bits (56), Expect = 9.3, Method: Composition-based stats.
Identities = 22/100 (22%), Positives = 44/100 (44%), Gaps = 8/100 (8%)
Query: 11 IENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRG--------KLSEFASSSM 62
++ AT + ++ R LLK+ + + +VAVI RG K+++F S+ +
Sbjct: 410 LDAATQQLLSRGVRLTELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFESAFL 469
Query: 63 QETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIE 102
+ ++ + R + +EQ+ LK N + E
Sbjct: 470 SHVVSQHQSLLGNIRTDGKISEQSDAKLKEIVTNFLAGFE 509
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
0.317 0.127 0.344
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,450,825
Number of Sequences: 62578
Number of extensions: 101572
Number of successful extensions: 427
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 411
Number of HSP's gapped (non-prelim): 27
length of query: 167
length of database: 14,973,337
effective HSP length: 92
effective length of query: 75
effective length of database: 9,216,161
effective search space: 691212075
effective search space used: 691212075
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)