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= psy5448
(322 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 174 bits (441), Expect = 5e-44, Method: Compositional matrix adjust.
Identities = 89/105 (84%), Positives = 93/105 (88%), Gaps = 4/105 (3%)
Query: 126 GSPPSNGKKTKGRVKIKMEYIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVMLLVASE 185
G+ P GKKT+GRVKIKME+IDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQV+LLVASE
Sbjct: 1 GAKP--GKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASE 58
Query: 186 TGHVYTFATRKLQPMITSEAGKALIQTCLNSPDPCPSG--AGDQR 228
TGHVYTFATRKLQPMITSE GKALIQTCLNSPD P DQR
Sbjct: 59 TGHVYTFATRKLQPMITSETGKALIQTCLNSPDSPPRSDPTTDQR 103
>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 = 174 bits (440), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 85/93 (91%), Positives = 89/93 (95%), Gaps = 2/93 (2%)
Query: 126 GSPPSNGKKTKGRVKIKMEYIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVMLLVASE 185
G+ P GKKT+GRVKIKME+IDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQV+LLVASE
Sbjct: 2 GAKP--GKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASE 59
Query: 186 TGHVYTFATRKLQPMITSEAGKALIQTCLNSPD 218
TGHVYTFATRKLQPMITSE GKALIQTCLNSPD
Sbjct: 60 TGHVYTFATRKLQPMITSETGKALIQTCLNSPD 92
>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 = 121 bits (303), Expect = 6e-28, Method: Composition-based stats.
Identities = 58/95 (61%), Positives = 79/95 (83%), Gaps = 1/95 (1%)
Query: 124 QKGSPPSNGKKTKGRVKIKMEYIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVMLLVA 183
++G+P +NG++ K R KI++++I+NK RR+ TFSKRK GIMKKA+ELS LTGTQV+LLV
Sbjct: 5 EEGTPTNNGQQ-KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVV 63
Query: 184 SETGHVYTFATRKLQPMITSEAGKALIQTCLNSPD 218
SETG VYTF+T K +P++T + G+ LIQ CLN+PD
Sbjct: 64 SETGLVYTFSTPKFEPIVTQQEGRNLIQACLNAPD 98
>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 = 52.4 bits (124), Expect = 4e-07, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 42/65 (64%)
Query: 137 GRVKIKMEYIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVMLLVASETGHVYTFATRK 196
GR KI++ I ++ R TF+KRK G+MKKAYELS L ++ L++ + + ++ +A+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 197 LQPMI 201
+ ++
Sbjct: 61 MDKVL 65
>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 = 52.0 bits (123), Expect = 5e-07, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 42/65 (64%)
Query: 137 GRVKIKMEYIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVMLLVASETGHVYTFATRK 196
GR KI++ I ++ R TF+KRK G+MKKAYELS L ++ L++ + + ++ +A+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 197 LQPMI 201
+ ++
Sbjct: 61 MDKVL 65
>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 = 51.6 bits (122), Expect = 6e-07, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 42/65 (64%)
Query: 137 GRVKIKMEYIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVMLLVASETGHVYTFATRK 196
GR KI++ I ++ R TF+KRK G+MKKAYELS L ++ L++ + + ++ +A+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 197 LQPMI 201
+ ++
Sbjct: 61 MDKVL 65
>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 = 51.2 bits (121), Expect = 7e-07, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 42/65 (64%)
Query: 137 GRVKIKMEYIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVMLLVASETGHVYTFATRK 196
GR KI++ I ++ R TF+KRK G+MKKAYELS L ++ L++ + + ++ +A+
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 197 LQPMI 201
+ ++
Sbjct: 61 MDKVL 65
>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 = 50.8 bits (120), Expect = 9e-07, Method: Composition-based stats.
Identities = 23/61 (37%), Positives = 39/61 (63%)
Query: 137 GRVKIKMEYIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVMLLVASETGHVYTFATRK 196
GR KI++ I ++ R TF+KRK G+MKKAYELS L ++ L++ + ++ +A+
Sbjct: 2 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 61
Query: 197 L 197
+
Sbjct: 62 M 62
>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 = 50.8 bits (120), Expect = 1e-06, Method: Composition-based stats.
Identities = 23/61 (37%), Positives = 39/61 (63%)
Query: 137 GRVKIKMEYIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVMLLVASETGHVYTFATRK 196
GR KI++ I ++ R TF+KRK G+MKKAYELS L ++ L++ + ++ +A+
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 197 L 197
+
Sbjct: 61 M 61
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
0.313 0.128 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,880,444
Number of Sequences: 62578
Number of extensions: 326503
Number of successful extensions: 471
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 462
Number of HSP's gapped (non-prelim): 9
length of query: 322
length of database: 14,973,337
effective HSP length: 99
effective length of query: 223
effective length of database: 8,778,115
effective search space: 1957519645
effective search space used: 1957519645
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)