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= 033826
(111 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 = 85.5 bits (210), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 38/77 (49%), Positives = 59/77 (76%)
Query: 1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
M R KIQ+ +I + +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+ RL++++S+
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 EMQKTLERYYRYTEERQ 77
+M + L +Y Y+E +
Sbjct: 61 DMDRVLLKYTEYSEPHE 77
>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 = 85.1 bits (209), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 37/75 (49%), Positives = 58/75 (77%)
Query: 3 RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+ +L++++S++M
Sbjct: 2 RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QKTLERYYRYTEERQ 77
K L +Y Y E +
Sbjct: 62 DKVLLKYTEYNEPHE 76
>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 = 85.1 bits (209), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 37/75 (49%), Positives = 58/75 (77%)
Query: 3 RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+ +L++++S++M
Sbjct: 2 RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QKTLERYYRYTEERQ 77
K L +Y Y E +
Sbjct: 62 DKVLLKYTEYNEPHE 76
>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 = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 37/75 (49%), Positives = 58/75 (77%)
Query: 3 RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
R KIQ+ +I + +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+ RL++++S++M
Sbjct: 2 RKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTDM 61
Query: 63 QKTLERYYRYTEERQ 77
+ L +Y Y+E +
Sbjct: 62 DRVLLKYTEYSEPHE 76
>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 = 83.2 bits (204), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 37/75 (49%), Positives = 58/75 (77%)
Query: 3 RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVL DAE+A+IIF+ +L++++S++M
Sbjct: 2 RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTDM 61
Query: 63 QKTLERYYRYTEERQ 77
K L +Y Y E +
Sbjct: 62 DKVLLKYTEYNEPHE 76
>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 = 82.4 bits (202), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 36/70 (51%), Positives = 56/70 (80%)
Query: 3 RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+ +L++++S++M
Sbjct: 2 RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QKTLERYYRY 72
K L +Y Y
Sbjct: 62 DKVLLKYTAY 71
>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 = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 30/61 (49%), Positives = 46/61 (75%)
Query: 3 RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
R KI++K IEN T R VTFSKR++G++KKA+ELSVL +V +++ S+ G +Y FS+ +
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
Query: 63 Q 63
+
Sbjct: 78 E 78
>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 = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 27/61 (44%), Positives = 43/61 (70%)
Query: 3 RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
R KI+M+ I+N R TFSKR+ G++KKAYELS L +V +++ S+ G +Y F++ ++
Sbjct: 12 RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 71
Query: 63 Q 63
Q
Sbjct: 72 Q 72
>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 = 1e-09, Method: Compositional matrix adjust.
Identities = 27/61 (44%), Positives = 43/61 (70%)
Query: 3 RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
R KI+M+ I+N R TFSKR+ G++KKAYELS L +V +++ S+ G +Y F++ ++
Sbjct: 11 RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 70
Query: 63 Q 63
Q
Sbjct: 71 Q 71
>pdb|1YTU|A Chain A, Structural Basis For 5'-end-specific Recognition Of The
Guide Rna Strand By The A. Fulgidus Piwi Protein
pdb|1YTU|B Chain B, Structural Basis For 5'-end-specific Recognition Of The
Guide Rna Strand By The A. Fulgidus Piwi Protein
Length = 427
Score = 25.8 bits (55), Expect = 5.9, Method: Composition-based stats.
Identities = 9/46 (19%), Positives = 26/46 (56%)
Query: 53 RLYEFSSSEMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLIT 98
R + + ++++ + +RY + + RNG+E ++PL + +++
Sbjct: 307 RFHPYEGTKVKLSSKRYLLTLLQPYLKRNGLEXVTPIKPLSVEIVS 352
>pdb|4AP6|A Chain A, Crystal Structure Of Human Pofut2 E54a Mutant In Complex
With Gdp- Fucose
pdb|4AP6|B Chain B, Crystal Structure Of Human Pofut2 E54a Mutant In Complex
With Gdp- Fucose
pdb|4AP6|C Chain C, Crystal Structure Of Human Pofut2 E54a Mutant In Complex
With Gdp- Fucose
pdb|4AP6|D Chain D, Crystal Structure Of Human Pofut2 E54a Mutant In Complex
With Gdp- Fucose
Length = 422
Score = 25.8 bits (55), Expect = 5.9, Method: Composition-based stats.
Identities = 15/68 (22%), Positives = 32/68 (47%)
Query: 14 DTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYT 73
D + F+ RR+ ++ A L L E V++ GRLY + S ++ + + +
Sbjct: 42 DVNPPAGFNLRRDVYIRIASLLKTLLKTEEWVLVLPPWGRLYHWQSPDIHQVRIPWSEFF 101
Query: 74 EERQIDRN 81
+ +++N
Sbjct: 102 DLPSLNKN 109
>pdb|1W9H|A Chain A, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus.
pdb|2BGG|A Chain A, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus Complexed With A 16nt Sirna Duplex.
pdb|2BGG|B Chain B, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus Complexed With A 16nt Sirna Duplex.
pdb|2W42|A Chain A, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus Complexed With A 16nt Dna Duplex.
pdb|2W42|B Chain B, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus Complexed With A 16nt Dna Duplex
Length = 427
Score = 25.4 bits (54), Expect = 7.4, Method: Composition-based stats.
Identities = 9/46 (19%), Positives = 26/46 (56%)
Query: 53 RLYEFSSSEMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLIT 98
R + + ++++ + +RY + + RNG+E ++PL + +++
Sbjct: 307 RFHPYEGTKVKLSSKRYLLTLLQPYLKRNGLEMVTPIKPLSVEIVS 352
>pdb|1YCD|A Chain A, Crystal Structure Of Yeast Fsh1/yhr049w, A Member Of The
Serine Hydrolase Family
pdb|1YCD|B Chain B, Crystal Structure Of Yeast Fsh1/yhr049w, A Member Of The
Serine Hydrolase Family
Length = 243
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 25/48 (52%)
Query: 20 TFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLE 67
FS++ +G+ K + +V CD A ++ +K +E + Q TL+
Sbjct: 20 VFSEKSSGIRKLLKKANVQCDYIDAPVLLEKKDLPFEMDDEKWQATLD 67
>pdb|4AP5|A Chain A, Crystal Structure Of Human Pofut2
pdb|4AP5|B Chain B, Crystal Structure Of Human Pofut2
Length = 408
Score = 25.4 bits (54), Expect = 8.1, Method: Composition-based stats.
Identities = 14/61 (22%), Positives = 30/61 (49%)
Query: 21 FSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEERQIDR 80
F+ RR+ ++ A L L E V++ GRLY + S ++ + + + + +++
Sbjct: 35 FNLRRDVYIRIASLLKTLLKTEEWVLVLPPWGRLYHWQSPDIHQVRIPWSEFFDLPSLNK 94
Query: 81 N 81
N
Sbjct: 95 N 95
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
0.321 0.134 0.364
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,765,658
Number of Sequences: 62578
Number of extensions: 91967
Number of successful extensions: 265
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 249
Number of HSP's gapped (non-prelim): 19
length of query: 111
length of database: 14,973,337
effective HSP length: 75
effective length of query: 36
effective length of database: 10,279,987
effective search space: 370079532
effective search space used: 370079532
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)