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= 037016
(70 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 = 72.0 bits (175), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 33/62 (53%), Positives = 48/62 (77%)
Query: 1 MGRGKIVIQKINNSTSRQVTFSKRRKGLIKKAKELSILCDAEVGLAIFSSTAKLYEFANT 60
MGR KI I +I + +RQVTF+KR+ GL+KKA ELS+LCD E+ L IF+S +L+++A+T
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 RL 62
+
Sbjct: 61 DM 62
>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 = 72.0 bits (175), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 33/61 (54%), Positives = 48/61 (78%)
Query: 2 GRGKIVIQKINNSTSRQVTFSKRRKGLIKKAKELSILCDAEVGLAIFSSTAKLYEFANTR 61
GR KI I +I + +RQVTF+KR+ GL+KKA ELS+LCD E+ L IF+S+ KL+++A+T
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 L 62
+
Sbjct: 61 M 61
>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 = 72.0 bits (175), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 33/61 (54%), Positives = 48/61 (78%)
Query: 2 GRGKIVIQKINNSTSRQVTFSKRRKGLIKKAKELSILCDAEVGLAIFSSTAKLYEFANTR 61
GR KI I +I + +RQVTF+KR+ GL+KKA ELS+LCD E+ L IF+S+ KL+++A+T
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 L 62
+
Sbjct: 61 M 61
>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 = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 33/61 (54%), Positives = 48/61 (78%)
Query: 2 GRGKIVIQKINNSTSRQVTFSKRRKGLIKKAKELSILCDAEVGLAIFSSTAKLYEFANTR 61
GR KI I +I + +RQVTF+KR+ GL+KKA ELS+LCD E+ L IF+S+ KL+++A+T
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 L 62
+
Sbjct: 61 M 61
>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 = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 33/61 (54%), Positives = 48/61 (78%)
Query: 2 GRGKIVIQKINNSTSRQVTFSKRRKGLIKKAKELSILCDAEVGLAIFSSTAKLYEFANTR 61
GR KI I +I + +RQVTF+KR+ GL+KKA ELS+L DAE+ L IF+S+ KL+++A+T
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 62 L 62
+
Sbjct: 61 M 61
>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 = 69.3 bits (168), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 32/61 (52%), Positives = 47/61 (77%)
Query: 2 GRGKIVIQKINNSTSRQVTFSKRRKGLIKKAKELSILCDAEVGLAIFSSTAKLYEFANTR 61
GR KI I +I + +RQVTF+KR+ GL+KKA ELS+LCD E+ L IF+S +L+++A+T
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 62 L 62
+
Sbjct: 61 M 61
>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 = 53.1 bits (126), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/60 (46%), Positives = 38/60 (63%)
Query: 3 RGKIVIQKINNSTSRQVTFSKRRKGLIKKAKELSILCDAEVGLAIFSSTAKLYEFANTRL 62
R KI I+ I N T R VTFSKR+ G++KKA ELS+L +V L + S T +Y F+ +
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
>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 = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 41/67 (61%)
Query: 2 GRGKIVIQKINNSTSRQVTFSKRRKGLIKKAKELSILCDAEVGLAIFSSTAKLYEFANTR 61
GR KI ++ I+N R TFSKR+ G++KKA ELS L +V L + S T +Y FA +
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRK 69
Query: 62 LLCSLTT 68
L +T+
Sbjct: 70 LQPMITS 76
>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 = 6e-08, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 41/67 (61%)
Query: 2 GRGKIVIQKINNSTSRQVTFSKRRKGLIKKAKELSILCDAEVGLAIFSSTAKLYEFANTR 61
GR KI ++ I+N R TFSKR+ G++KKA ELS L +V L + S T +Y FA +
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRK 70
Query: 62 LLCSLTT 68
L +T+
Sbjct: 71 LQPMITS 77
>pdb|3VGG|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(E283q) Complexed With Maltoheptaose
pdb|3VGH|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(E283q) Complexed With Maltotriosyltrehalose
Length = 558
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 17/62 (27%)
Query: 26 KGLIKKAKELSILCDAEV-----------------GLAIFSSTAKLYEFANTRLLCSLTT 68
K LIK KELSI CD V L +FS ++ +++ T LL S +
Sbjct: 478 KILIKMRKELSIACDRRVNVVNGENWLIIKGREYFSLYVFSKSSIEVKYSGTLLLSSNNS 537
Query: 69 VP 70
P
Sbjct: 538 FP 539
>pdb|3VGE|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(D252s)
pdb|3VGF|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(D252s) Complexed With Maltotriosyltrehalose
Length = 558
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 17/62 (27%)
Query: 26 KGLIKKAKELSILCDAEV-----------------GLAIFSSTAKLYEFANTRLLCSLTT 68
K LIK KELSI CD V L +FS ++ +++ T LL S +
Sbjct: 478 KILIKMRKELSIACDRRVNVVNGENWLIIKGREYFSLYVFSKSSIEVKYSGTLLLSSNNS 537
Query: 69 VP 70
P
Sbjct: 538 FP 539
>pdb|3VGD|A Chain A, Ctystal Structure Of Glycosyltrehalose Trehalohydrolase
(D252e)
Length = 558
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 17/62 (27%)
Query: 26 KGLIKKAKELSILCDAEV-----------------GLAIFSSTAKLYEFANTRLLCSLTT 68
K LIK KELSI CD V L +FS ++ +++ T LL S +
Sbjct: 478 KILIKMRKELSIACDRRVNVVNGENWLIIKGREYFSLYVFSKSSIEVKYSGTLLLSSNNS 537
Query: 69 VP 70
P
Sbjct: 538 FP 539
>pdb|1EHA|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
From Sulfolobus Solfataricus
Length = 558
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 17/62 (27%)
Query: 26 KGLIKKAKELSILCDAEV-----------------GLAIFSSTAKLYEFANTRLLCSLTT 68
K LIK KELSI CD V L +FS ++ +++ T LL S +
Sbjct: 478 KILIKMRKELSIACDRRVNVVNGENWLIIKGREYFSLYVFSKSSIEVKYSGTLLLSSNNS 537
Query: 69 VP 70
P
Sbjct: 538 FP 539
>pdb|1EH9|A Chain A, Crystal Structure Of Sulfolobus Solfataricus
Glycosyltrehalose Trehalohydrolase
pdb|3VGB|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(Gthase) From Sulfolobus Solfataricus Km1
Length = 558
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 17/62 (27%)
Query: 26 KGLIKKAKELSILCDAEV-----------------GLAIFSSTAKLYEFANTRLLCSLTT 68
K LIK KELSI CD V L +FS ++ +++ T LL S +
Sbjct: 478 KILIKMRKELSIACDRRVNVVNGENWLIIKGREYFSLYVFSKSSIEVKYSGTLLLSSNNS 537
Query: 69 VP 70
P
Sbjct: 538 FP 539
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 0.359
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,480,887
Number of Sequences: 62578
Number of extensions: 36809
Number of successful extensions: 88
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 79
Number of HSP's gapped (non-prelim): 14
length of query: 70
length of database: 14,973,337
effective HSP length: 40
effective length of query: 30
effective length of database: 12,470,217
effective search space: 374106510
effective search space used: 374106510
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)