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= 024640
(265 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 = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 34/61 (55%), Positives = 50/61 (81%)
Query: 1 MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSS 60
MGR ++++ RI ++ NRQVTF KR+ GL+KKAYELSVLCD E+ALIIF++ +L+++ S+
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 P 61
Sbjct: 61 D 61
>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: Composition-based stats.
Identities = 37/69 (53%), Positives = 54/69 (78%), Gaps = 1/69 (1%)
Query: 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSP 61
GR ++++ RI ++ NRQVTF KR+ GL+KKAYELSVLCD E+ALIIF++ KL+++ S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAST- 59
Query: 62 SIMKTLERY 70
+ K L +Y
Sbjct: 60 DMDKVLLKY 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 = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 37/69 (53%), Positives = 54/69 (78%), Gaps = 1/69 (1%)
Query: 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSP 61
GR ++++ RI ++ NRQVTF KR+ GL+KKAYELSVLCD E+ALIIF++ KL+++ +S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQY-AST 59
Query: 62 SIMKTLERY 70
+ K L +Y
Sbjct: 60 DMDKVLLKY 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 = 77.0 bits (188), Expect = 1e-14, Method: Composition-based stats.
Identities = 37/69 (53%), Positives = 54/69 (78%), Gaps = 1/69 (1%)
Query: 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSP 61
GR ++++ RI ++ NRQVTF KR+ GL+KKAYELSVLCD E+ALIIF++ KL+++ S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAST- 59
Query: 62 SIMKTLERY 70
+ K L +Y
Sbjct: 60 DMDKVLLKY 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 = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 33/60 (55%), Positives = 49/60 (81%)
Query: 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSP 61
GR ++++ RI ++ NRQVTF KR+ GL+KKAYELSVLCD E+ALIIF++ +L+++ S+
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
>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 = 74.7 bits (182), Expect = 5e-14, Method: Composition-based stats.
Identities = 37/69 (53%), Positives = 54/69 (78%), Gaps = 1/69 (1%)
Query: 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSP 61
GR ++++ RI ++ NRQVTF KR+ GL+KKAYELSVL DAE+ALIIF++ KL+++ S+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYAST- 59
Query: 62 SIMKTLERY 70
+ K L +Y
Sbjct: 60 DMDKVLLKY 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 = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/57 (49%), Positives = 42/57 (73%)
Query: 3 RGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 59
R ++E+K IENK R VTF+KR++G++KKA+ELSVL +V L++ S G +Y F +
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFST 74
>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 = 60.8 bits (146), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 28/59 (47%), Positives = 41/59 (69%), Gaps = 2/59 (3%)
Query: 3 RGRVELKR--IENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 59
RGRV++K I+NK+ R TF+KR+ G++KKAYELS L +V L++ S G +Y F +
Sbjct: 9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 67
>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 = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/59 (47%), Positives = 41/59 (69%), Gaps = 2/59 (3%)
Query: 3 RGRVELKR--IENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 59
RGRV++K I+NK+ R TF+KR+ G++KKAYELS L +V L++ S G +Y F +
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 68
>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 = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%)
Query: 22 AKRRNGLLKKAYELSVLCDAEVALIIFSNRGK 53
AK R G+L+K ++L + ++ALI+ S +GK
Sbjct: 91 AKERAGILRKWFDLIIANADDIALIMTSEQGK 122
>pdb|4FK7|A Chain A, Crystal Structure Of Certhrax Catalytic Domain
Length = 229
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 112 LGEDLDPLSTKELEQLEHQ---LETSLKHVRSTKTQCMVDQLSDLQ 154
+G DLD S K LE++E+Q L+ +L+ + T+ + ++S+LQ
Sbjct: 62 IGGDLDKKSKKALEKIENQIKNLDAALQKSKITENLIVYRRVSELQ 107
>pdb|4FXQ|A Chain A, Full-Length Certhrax Toxin From Bacillus Cereus In Complex
With Inhibitor P6
pdb|4FXQ|B Chain B, Full-Length Certhrax Toxin From Bacillus Cereus In Complex
With Inhibitor P6
pdb|4GF1|A Chain A, Crystal Structure Of Certhrax
pdb|4GF1|B Chain B, Crystal Structure Of Certhrax
Length = 460
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 112 LGEDLDPLSTKELEQLEHQ---LETSLKHVRSTKTQCMVDQLSDLQ 154
+G DLD S K LE++E+Q L+ +L+ + T+ + ++S+LQ
Sbjct: 285 IGGDLDKKSKKALEKIENQIKNLDAALQKSKITENLIVYRRVSELQ 330
>pdb|4DOK|A Chain A, Crystal Structure Of Arabidopsis Thaliana
Chalcone-Isomerase Like Protein At5g05270 (Atchil)
pdb|4DOK|B Chain B, Crystal Structure Of Arabidopsis Thaliana
Chalcone-Isomerase Like Protein At5g05270 (Atchil)
Length = 208
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 21/55 (38%), Gaps = 12/55 (21%)
Query: 223 GFFQP------------LSGGTPILQIGYNPMGSEEAHIPVHAQNVTGFIPGWML 265
GFFQ S I +IG+ G EE + V NV G + W L
Sbjct: 131 GFFQSKYFKANSVITYHFSAKDGICEIGFETEGKEEEKLKVENANVVGMMQRWYL 185
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
0.318 0.134 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,704,952
Number of Sequences: 62578
Number of extensions: 298085
Number of successful extensions: 664
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 649
Number of HSP's gapped (non-prelim): 16
length of query: 265
length of database: 14,973,337
effective HSP length: 97
effective length of query: 168
effective length of database: 8,903,271
effective search space: 1495749528
effective search space used: 1495749528
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: 50 (23.9 bits)