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= 036452
(244 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 = 84.3 bits (207), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 38/69 (55%), Positives = 53/69 (76%)
Query: 20 MGRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEYSNN 79
MGR KI+I RI + NRQVTF KR+ GL+KKAYELSVLCD E++LI+F+S RL++Y++
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 80 SVKSTIDRY 88
+ + +Y
Sbjct: 61 DMDRVLLKY 69
>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 = 81.6 bits (200), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 52/68 (76%)
Query: 21 GRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEYSNNS 80
GR KI+I RI + NRQVTF KR+ GL+KKAYELSVLCD E++LI+F+S +L++Y++
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 81 VKSTIDRY 88
+ + +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 = 81.6 bits (200), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 52/68 (76%)
Query: 21 GRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEYSNNS 80
GR KI+I RI + NRQVTF KR+ GL+KKAYELSVLCD E++LI+F+S +L++Y++
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 81 VKSTIDRY 88
+ + +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 = 81.6 bits (200), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 37/68 (54%), Positives = 52/68 (76%)
Query: 21 GRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEYSNNS 80
GR KI+I RI + NRQVTF KR+ GL+KKAYELSVLCD E++LI+F+S RL++Y++
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 81 VKSTIDRY 88
+ + +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 = 81.6 bits (200), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 52/68 (76%)
Query: 21 GRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEYSNNS 80
GR KI+I RI + NRQVTF KR+ GL+KKAYELSVLCD E++LI+F+S +L++Y++
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 81 VKSTIDRY 88
+ + +Y
Sbjct: 61 MDKVLLKY 68
>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 = 80.5 bits (197), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 52/68 (76%)
Query: 21 GRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEYSNNS 80
GR KI+I RI + NRQVTF KR+ GL+KKAYELSVL DAE++LI+F+S +L++Y++
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 81 VKSTIDRY 88
+ + +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 = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/57 (56%), Positives = 41/57 (71%)
Query: 22 RGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEYSN 78
R KIEIK IEN T R VTF KR++G++KKA+ELSVL +V L+V S G +Y +S
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 = 57.8 bits (138), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 43/69 (62%)
Query: 17 KRKMGRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEY 76
K+ GR KI+++ I+N R TF KR+ G++KKAYELS L +V L+V S G +Y +
Sbjct: 6 KKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 65
Query: 77 SNNSVKSTI 85
+ ++ I
Sbjct: 66 ATRKLQPMI 74
>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 = 57.4 bits (137), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 43/69 (62%)
Query: 17 KRKMGRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEY 76
K+ GR KI+++ I+N R TF KR+ G++KKAYELS L +V L+V S G +Y +
Sbjct: 7 KKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 66
Query: 77 SNNSVKSTI 85
+ ++ I
Sbjct: 67 ATRKLQPMI 75
>pdb|3SIS|A Chain A, Crystal Structure Of Porcine Crw-8 Rotavirus Vp8 In
Complex With Aceramido-Gm3_gc
pdb|3SIS|B Chain B, Crystal Structure Of Porcine Crw-8 Rotavirus Vp8 In
Complex With Aceramido-Gm3_gc
pdb|3SIT|A Chain A, Crystal Structure Of Porcine Crw-8 Rotavirus Vp8 In
Complex With Aceramido-Gm3
pdb|3SIT|B Chain B, Crystal Structure Of Porcine Crw-8 Rotavirus Vp8 In
Complex With Aceramido-Gm3
Length = 163
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 71 GRLYEYSNNSVKSTIDRYKKATADTSNTGSICE 103
GR+Y Y+ + +T Y DT N S C+
Sbjct: 111 GRIYTYNGTTPNATTGYYSTTNYDTVNMTSFCD 143
>pdb|1O5I|A Chain A, Crystal Structure Of 3-Oxoacyl-(Acyl Carrier Protein)
Reductase (Tm1169) From Thermotoga Maritima At 2.50 A
Resolution
pdb|1O5I|B Chain B, Crystal Structure Of 3-Oxoacyl-(Acyl Carrier Protein)
Reductase (Tm1169) From Thermotoga Maritima At 2.50 A
Resolution
pdb|1O5I|C Chain C, Crystal Structure Of 3-Oxoacyl-(Acyl Carrier Protein)
Reductase (Tm1169) From Thermotoga Maritima At 2.50 A
Resolution
pdb|1O5I|D Chain D, Crystal Structure Of 3-Oxoacyl-(Acyl Carrier Protein)
Reductase (Tm1169) From Thermotoga Maritima At 2.50 A
Resolution
Length = 249
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 37/89 (41%), Gaps = 19/89 (21%)
Query: 14 LSPKRKMGRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDA------------E 61
L+ R +GR ++ E +VT C R LLK++ V+CD E
Sbjct: 25 LAASRGIGRAVADVLSQEGA---EVTICARNEELLKRSGHRYVVCDLRKDLDLLFEKVKE 81
Query: 62 VSLIVFSSRGR----LYEYSNNSVKSTID 86
V ++V ++ G E +N K ID
Sbjct: 82 VDILVLNAGGPKAGFFDELTNEDFKEAID 110
>pdb|2I2S|A Chain A, Crystal Structure Of The Porcine Crw-8 Rotavirus Vp8
Carbohydrate- Recognising Domain
pdb|2I2S|B Chain B, Crystal Structure Of The Porcine Crw-8 Rotavirus Vp8
Carbohydrate- Recognising Domain
pdb|3TAY|A Chain A, Crystal Structure Of Porcine Rotavirus Crw-8 Vp8 In
Complex With N- Glycolylneuraminic Acid
pdb|3TAY|B Chain B, Crystal Structure Of Porcine Rotavirus Crw-8 Vp8 In
Complex With N- Glycolylneuraminic Acid
Length = 163
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 71 GRLYEYSNNSVKSTIDRYKKATADTSNTGSICE 103
GR+Y Y+ + +T Y DT N S C+
Sbjct: 111 GRIYTYNGTTPNATTGYYSTTNYDTVNMTSFCD 143
>pdb|1MU2|A Chain A, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 555
Score = 26.9 bits (58), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 28/49 (57%)
Query: 22 RGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSR 70
RGK ++K++E TTN+Q L +++++ D++ + + +S+
Sbjct: 460 RGKDKVKKLEQTTNQQAELEAFAMALTDSGPKVNIIVDSQYVMGIVASQ 508
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
0.314 0.128 0.345
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,121,746
Number of Sequences: 62578
Number of extensions: 217304
Number of successful extensions: 511
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 499
Number of HSP's gapped (non-prelim): 15
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 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)