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= 037149
(244 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 = 87.0 bits (214), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 38/68 (55%), Positives = 55/68 (80%)
Query: 2 GRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSAG 61
GR ++++ RI ++ NRQVTF+KR+ GL+KKAYELSVLCD E+ALIIF+S KL+++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 INKTLERY 69
++K L +Y
Sbjct: 61 MDKVLLKY 68
>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 = 87.0 bits (214), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 38/68 (55%), Positives = 55/68 (80%)
Query: 2 GRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSAG 61
GR ++++ RI ++ NRQVTF+KR+ GL+KKAYELSVLCD E+ALIIF+S KL+++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 INKTLERY 69
++K L +Y
Sbjct: 61 MDKVLLKY 68
>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 = 86.3 bits (212), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 37/69 (53%), Positives = 56/69 (81%)
Query: 1 MGRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSA 60
MGR ++++ RI ++ NRQVTF+KR+ GL+KKAYELSVLCD E+ALIIF+S +L+++ S
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 GINKTLERY 69
+++ L +Y
Sbjct: 61 DMDRVLLKY 69
>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 = 85.5 bits (210), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 38/68 (55%), Positives = 55/68 (80%)
Query: 2 GRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSAG 61
GR ++++ RI ++ NRQVTF+KR+ GL+KKAYELSVL DAE+ALIIF+S KL+++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 62 INKTLERY 69
++K L +Y
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 = 83.6 bits (205), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 55/68 (80%)
Query: 2 GRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSAG 61
GR ++++ RI ++ NRQVTF+KR+ GL+KKAYELSVLCD E+ALIIF+S +L+++ S
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 62 INKTLERY 69
+++ L +Y
Sbjct: 61 MDRVLLKY 68
>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 = 83.2 bits (204), Expect = 1e-16, Method: Composition-based stats.
Identities = 38/68 (55%), Positives = 55/68 (80%)
Query: 2 GRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSAG 61
GR ++++ RI ++ NRQVTF+KR+ GL+KKAYELSVLCD E+ALIIF+S KL+++ S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 INKTLERY 69
++K L +Y
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 = 65.9 bits (159), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 50/82 (60%), Gaps = 5/82 (6%)
Query: 3 RGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSAGI 62
R ++E+K IENK R VTFSKR++G++KKA+ELSVL +V L++ S G +Y F +
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
Query: 63 NKTLERYQ-----RCCFNPQDN 79
+ + + + C N D+
Sbjct: 78 EPIVTQQEGRNLIQACLNAPDD 99
>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 = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 51/84 (60%), Gaps = 7/84 (8%)
Query: 3 RGRVELKR--IENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSA 60
RGRV++K I+NK+ R TFSKR+ G++KKAYELS L +V L++ S G +Y F +
Sbjct: 9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 68
Query: 61 GI-----NKTLERYQRCCFNPQDN 79
+ ++T + + C N D+
Sbjct: 69 KLQPMITSETGKALIQTCLNSPDS 92
>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 = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 29/59 (49%), Positives = 41/59 (69%), Gaps = 2/59 (3%)
Query: 3 RGRVELKR--IENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGS 59
RGRV++K I+NK+ R TFSKR+ G++KKAYELS L +V L++ S G +Y F +
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 68
>pdb|3S4L|A Chain A, The Crispr-Associated Cas3 Hd Domain Protein Mj0384 From
Methanocaldococcus Jannaschii
Length = 244
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 53/118 (44%), Gaps = 12/118 (10%)
Query: 53 KLYEFGSAGINKTLERYQRCCFNPQDN--SIERETQSWYQEATKLKAKY--ESLQRTQRH 108
KL++ G A + YQR N Q+ E S Y L K+ ++L
Sbjct: 64 KLHDIGKAS-----KIYQRAIINDQEKLMGFRHELVSAYYTYHILLKKFGDKNLAFIGAL 118
Query: 109 LLGEDLGPLSVKELQNLEK-QLEGALALARQRKTQIMIEQVEDLRKK--ERQLGDINK 163
+ P+ + +++NL+K +L + L + +K MIE EDL KK +GDI K
Sbjct: 119 TVMLHHEPIIMGQIRNLKKKELTAEVVLDKLKKFDGMIEDFEDLIKKLIGYSIGDIIK 176
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
0.316 0.133 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,437,261
Number of Sequences: 62578
Number of extensions: 229384
Number of successful extensions: 644
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 631
Number of HSP's gapped (non-prelim): 28
length of query: 244
length of database: 14,973,337
effective HSP length: 96
effective length of query: 148
effective length of database: 8,965,849
effective search space: 1326945652
effective search space used: 1326945652
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)