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= 034384
(96 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 81.6 bits (200), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 38/74 (51%), Positives = 56/74 (75%)
Query: 1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
M R+KIQI +I + RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF++ +LF+Y+S+
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 SMKEILEKHRVHSK 74
M +L K+ +S+
Sbjct: 61 DMDRVLLKYTEYSE 74
>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 = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 37/71 (52%), Positives = 55/71 (77%)
Query: 2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
R+KIQI +I + RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF+++ KLF+Y+S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 MKEILEKHRVH 72
M ++L K+ +
Sbjct: 61 MDKVLLKYTAY 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 = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 37/68 (54%), Positives = 54/68 (79%)
Query: 2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
R+KIQI +I + RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF+++ KLF+Y+S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 MKEILEKH 69
M ++L K+
Sbjct: 61 MDKVLLKY 68
>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 = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 37/68 (54%), Positives = 54/68 (79%)
Query: 2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
R+KIQI +I + RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF+++ KLF+Y+S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 MKEILEKH 69
M ++L K+
Sbjct: 61 MDKVLLKY 68
>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 = 79.7 bits (195), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 43/93 (46%), Positives = 65/93 (69%), Gaps = 2/93 (2%)
Query: 2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
R+KIQI +I + RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF++ +LF+Y+S+
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 62 MKEILEKHRVHSKNLE-RVDQPSVE-LQVSGLG 92
M +L K+ +S+ E R + +E L+ G+G
Sbjct: 61 MDRVLLKYTEYSEPHESRTNTDILETLKRRGIG 93
>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 = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 37/68 (54%), Positives = 54/68 (79%)
Query: 2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
R+KIQI +I + RQVTF+KR+ G+ KKA ELSVL DA++ALIIF+++ KLF+Y+S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 62 MKEILEKH 69
M ++L K+
Sbjct: 61 MDKVLLKY 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 = 62.8 bits (151), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 43/64 (67%)
Query: 3 REKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSM 62
R KI+IK I+N T R VTFSKR+ GI KKA ELSVL V L++ S TG ++ +S+
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
Query: 63 KEIL 66
+ I+
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 = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 41/65 (63%)
Query: 2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
R KI+++ IDN R TFSKR+ GI KKA ELS L V L++ S TG ++ +++
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRK 70
Query: 62 MKEIL 66
++ ++
Sbjct: 71 LQPMI 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 = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 41/65 (63%)
Query: 2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
R KI+++ IDN R TFSKR+ GI KKA ELS L V L++ S TG ++ +++
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRK 69
Query: 62 MKEIL 66
++ ++
Sbjct: 70 LQPMI 74
>pdb|3I0Z|A Chain A, Crystal Structure Of Putative Putative
Tagatose-6-Phosphate KetoseALDOSE ISOMERASE
(NP_344614.1) FROM STREPTOCOCCUS PNEUMONIAE Tigr4 At
1.70 A Resolution
pdb|3I0Z|B Chain B, Crystal Structure Of Putative Putative
Tagatose-6-Phosphate KetoseALDOSE ISOMERASE
(NP_344614.1) FROM STREPTOCOCCUS PNEUMONIAE Tigr4 At
1.70 A Resolution
Length = 389
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 22/46 (47%)
Query: 22 SKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILE 67
S R + KAE++ L D D +I+ G F + + +ILE
Sbjct: 209 SSLARKVLDKAEDVKELVDLDFNRVIYLGAGPFFGLAHEAQLKILE 254
>pdb|3IBD|A Chain A, Crystal Structure Of A Cytochrome P450 2b6 Genetic Variant
In Complex With The Inhibitor
4-(4-Chlorophenyl)imidazole
pdb|3QOA|A Chain A, Crystal Structure Of A Human Cytochrome P450 2b6
(Y226hK262R) IN Complex With The Inhibitor
4-Benzylpyridine.
pdb|3QU8|A Chain A, Crystal Structure Of A Human Cytochrome P450 2b6
(Y226hK262R) IN Complex With The Inhibitor
4-(4-Nitrobenzyl)pyridine.
pdb|3QU8|B Chain B, Crystal Structure Of A Human Cytochrome P450 2b6
(Y226hK262R) IN Complex With The Inhibitor
4-(4-Nitrobenzyl)pyridine.
pdb|3QU8|C Chain C, Crystal Structure Of A Human Cytochrome P450 2b6
(Y226hK262R) IN Complex With The Inhibitor
4-(4-Nitrobenzyl)pyridine.
pdb|3QU8|D Chain D, Crystal Structure Of A Human Cytochrome P450 2b6
(Y226hK262R) IN Complex With The Inhibitor
4-(4-Nitrobenzyl)pyridine.
pdb|3QU8|E Chain E, Crystal Structure Of A Human Cytochrome P450 2b6
(Y226hK262R) IN Complex With The Inhibitor
4-(4-Nitrobenzyl)pyridine.
pdb|3QU8|F Chain F, Crystal Structure Of A Human Cytochrome P450 2b6
(Y226hK262R) IN Complex With The Inhibitor
4-(4-Nitrobenzyl)pyridine.
pdb|3UA5|A Chain A, Crystal Structure Of P450 2b6 (Y226hK262R) IN COMPLEX WITH
TWO Molecules Of Amlodipine
pdb|3UA5|B Chain B, Crystal Structure Of P450 2b6 (Y226hK262R) IN COMPLEX WITH
TWO Molecules Of Amlodipine
Length = 476
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 19/35 (54%)
Query: 46 IIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVD 80
+I S G+LFE S +K HR KNL+ ++
Sbjct: 189 LISSVFGQLFELFSGFLKHFPGAHRQVYKNLQEIN 223
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 0.132 0.354
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,226,835
Number of Sequences: 62578
Number of extensions: 68280
Number of successful extensions: 210
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 199
Number of HSP's gapped (non-prelim): 11
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
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: 45 (21.9 bits)