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= 048697
(168 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 = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 39/62 (62%), Gaps = 9/62 (14%)
Query: 3 AKKTKGRQKIEM---------IITFSKRRSWIYKNASELVTLTGSEIAIVVFSQSGKPYT 53
KKT+GR KI+M TFSKR++ I K A EL TLTG+++ ++V S++G YT
Sbjct: 5 GKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYT 64
Query: 54 FG 55
F
Sbjct: 65 FA 66
>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 = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 39/61 (63%), Gaps = 9/61 (14%)
Query: 3 AKKTKGRQKIEM---------IITFSKRRSWIYKNASELVTLTGSEIAIVVFSQSGKPYT 53
KKT+GR KI+M TFSKR++ I K A EL TLTG+++ ++V S++G YT
Sbjct: 6 GKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYT 65
Query: 54 F 54
F
Sbjct: 66 F 66
>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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 34/55 (61%)
Query: 16 ITFSKRRSWIYKNASELVTLTGSEIAIVVFSQSGKPYTFGHPSVEAVANRFLGMN 70
+TFSKR+ I K A EL LTG+++ ++V S++G YTF P E + + G N
Sbjct: 34 VTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGRN 88
>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 = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 9/73 (12%)
Query: 8 GRQKIEMI---------ITFSKRRSWIYKNASELVTLTGSEIAIVVFSQSGKPYTFGHPS 58
GR+KI++ +TF+KR+ + K A EL L EIA+++F+ S K + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 59 VEAVANRFLGMNQ 71
++ V ++ N+
Sbjct: 61 MDKVLLKYTEYNE 73
>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 = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 9/73 (12%)
Query: 8 GRQKIEMI---------ITFSKRRSWIYKNASELVTLTGSEIAIVVFSQSGKPYTFGHPS 58
GR+KI++ +TF+KR+ + K A EL L EIA+++F+ S K + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 59 VEAVANRFLGMNQ 71
++ V ++ N+
Sbjct: 61 MDKVLLKYTEYNE 73
>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 = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 40/73 (54%), Gaps = 9/73 (12%)
Query: 8 GRQKIEMI---------ITFSKRRSWIYKNASELVTLTGSEIAIVVFSQSGKPYTFGHPS 58
GR+KI++ +TF+KR+ + K A EL L +EIA+++F+ S K + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 59 VEAVANRFLGMNQ 71
++ V ++ N+
Sbjct: 61 MDKVLLKYTEYNE 73
>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 = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 35/64 (54%), Gaps = 9/64 (14%)
Query: 8 GRQKIEMI---------ITFSKRRSWIYKNASELVTLTGSEIAIVVFSQSGKPYTFGHPS 58
GR+KI++ +TF+KR+ + K A EL L EIA+++F+ S K + +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 59 VEAV 62
++ V
Sbjct: 61 MDKV 64
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 9/64 (14%)
Query: 8 GRQKIEMI---------ITFSKRRSWIYKNASELVTLTGSEIAIVVFSQSGKPYTFGHPS 58
GR+KI++ +TF+KR+ + K A EL L EIA+++F+ + + + +
Sbjct: 2 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 61
Query: 59 VEAV 62
++ V
Sbjct: 62 MDRV 65
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 9/64 (14%)
Query: 8 GRQKIEMI---------ITFSKRRSWIYKNASELVTLTGSEIAIVVFSQSGKPYTFGHPS 58
GR+KI++ +TF+KR+ + K A EL L EIA+++F+ + + + +
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 59 VEAV 62
++ V
Sbjct: 61 MDRV 64
>pdb|4AIE|A Chain A, Structure Of Glucan-1,6-Alpha-Glucosidase From
Lactobacillus Acidophilus Ncfm
Length = 549
Score = 29.6 bits (65), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 6/42 (14%)
Query: 108 EQEKILTQMRRGKETQPR---MWETPVDEHNLQEQLQMDSAF 146
+Q K + ++GK+ Q R +W PVDEH E + SAF
Sbjct: 107 DQHKWFVEAKKGKDNQYRDYYIWRDPVDEH---EPNDLKSAF 145
>pdb|1ZI0|A Chain A, A Superhelical Spiral In Escherichia Coli Dna Gyrase A C-
Terminal Domain Imparts Unidirectional Supercoiling Bias
pdb|1ZI0|B Chain B, A Superhelical Spiral In Escherichia Coli Dna Gyrase A C-
Terminal Domain Imparts Unidirectional Supercoiling Bias
Length = 307
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 33 VTLTGSEIAIVVFSQSGKPYTFGHPSVEAVANRFLGMNQL---PNDNIHSLVV 82
V LT E +++FS GK F SV A+ G+ + D + SL+V
Sbjct: 151 VDLTSGEDEVMLFSAEGKVVRFKESSVRAMGCNTTGVRGIRLGEGDKVVSLIV 203
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
0.317 0.131 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,730,164
Number of Sequences: 62578
Number of extensions: 177195
Number of successful extensions: 567
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 550
Number of HSP's gapped (non-prelim): 25
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
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: 48 (23.1 bits)