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= 040635
(177 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 = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 4/76 (5%)
Query: 1 MGRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWP- 59
MGR+++Q I + R+VTF KR+ GL KK EL+ LC C I F+ ++
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCD---CEIALIIFNSANRLFQY 57
Query: 60 SPAEAVRVLDKFNNFP 75
+ + RVL K+ +
Sbjct: 58 ASTDMDRVLLKYTEYS 73
>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 = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 40/74 (54%), Gaps = 4/74 (5%)
Query: 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWP-S 60
GR+++Q I E R+VTF KR+ GL KK EL+ LC C I F+ +++ +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCD---CEIALIIFNSSNKLFQYA 57
Query: 61 PAEAVRVLDKFNNF 74
+ +VL K+ +
Sbjct: 58 STDMDKVLLKYTEY 71
>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 = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 40/74 (54%), Gaps = 4/74 (5%)
Query: 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWP-S 60
GR+++Q I E R+VTF KR+ GL KK EL+ LC C I F+ +++ +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCD---CEIALIIFNSSNKLFQYA 57
Query: 61 PAEAVRVLDKFNNF 74
+ +VL K+ +
Sbjct: 58 STDMDKVLLKYTAY 71
>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 = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 40/74 (54%), Gaps = 4/74 (5%)
Query: 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWP-S 60
GR+++Q I E R+VTF KR+ GL KK EL+ LC C I F+ +++ +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCD---CEIALIIFNSSNKLFQYA 57
Query: 61 PAEAVRVLDKFNNF 74
+ +VL K+ +
Sbjct: 58 STDMDKVLLKYTEY 71
>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 = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 39/75 (52%), Gaps = 4/75 (5%)
Query: 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDHQPEIWP-S 60
GR+++Q I + R+VTF KR+ GL KK EL+ LC C I F+ ++ +
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCD---CEIALIIFNSANRLFQYA 57
Query: 61 PAEAVRVLDKFNNFP 75
+ RVL K+ +
Sbjct: 58 STDMDRVLLKYTEYS 72
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%)
Query: 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDH 53
GR +++ E I + R TF KR+ G+ KK EL+TL G ++ + H
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGH 61
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%)
Query: 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICASFDH 53
GR +++ E I + R TF KR+ G+ KK EL+TL G ++ + H
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGH 62
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 27/49 (55%)
Query: 2 GRRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICAS 50
GR+++Q I E R+VTF KR+ GL KK EL+ L II S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNS 49
>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 = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 28/47 (59%)
Query: 3 RRRVQHELISKESVRKVTFKKRRAGLKKKLSELTTLCGVTACAIICA 49
RR+++ + I ++ R VTF KR+ G+ KK EL+ L G ++ +
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVS 64
>pdb|1STO|A Chain A, Crystal Structure Of Orotate Phosphoribosyltransferase
Length = 213
Score = 30.8 bits (68), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 70 KFNNFPIK--RRGKYMMNQNTFLSKKISNLFERMRKERKKNRGLEMDLMFTQCLAG 123
KF F +K R+ Y N F + + L R E + G+E DL+F G
Sbjct: 19 KFGEFTLKSGRKSPYFFNAGLFNTGRDLALLGRFYAEALVDSGIEFDLLFGPAYKG 74
>pdb|1LH0|A Chain A, Crystal Structure Of Salmonella Typhimurium Omp Synthase
In Complex With Mgprpp And Orotate
pdb|1LH0|B Chain B, Crystal Structure Of Salmonella Typhimurium Omp Synthase
In Complex With Mgprpp And Orotate
pdb|1OPR|A Chain A, The Crystal Structure Of The Orotate
Phosphoribosyltransferase Complexed With Orotate And
Alpha-D-5-Phosphoribosyl-1-Pyrophosphate
Length = 213
Score = 30.8 bits (68), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 70 KFNNFPIK--RRGKYMMNQNTFLSKKISNLFERMRKERKKNRGLEMDLMFTQCLAG 123
KF F +K R+ Y N F + + L R E + G+E DL+F G
Sbjct: 19 KFGEFTLKSGRKSPYFFNAGLFNTGRDLALLGRFYAEALVDSGIEFDLLFGPAYKG 74
>pdb|1ORO|A Chain A, A Flexible Loop At The Dimer Interface Is A Part Of The
Active Site Of The Adjacent Monomer Of Escherichia Coli
Orotate Phosphoribosyltransferase
pdb|1ORO|B Chain B, A Flexible Loop At The Dimer Interface Is A Part Of The
Active Site Of The Adjacent Monomer Of Escherichia Coli
Orotate Phosphoribosyltransferase
Length = 213
Score = 30.8 bits (68), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 70 KFNNFPIK--RRGKYMMNQNTFLSKKISNLFERMRKERKKNRGLEMDLMFTQCLAG 123
KF F +K R+ Y N F + + L R E + G+E DL+F G
Sbjct: 19 KFGEFTLKSGRKSPYFFNAGLFNTGRDLALLGRFYAEALVDSGIEFDLLFGPAYKG 74
>pdb|2P2Q|A Chain A, Acetyl-Coa Synthetase, R584e Mutation
pdb|2P2Q|B Chain B, Acetyl-Coa Synthetase, R584e Mutation
Length = 652
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 38 LCGVTACAIICASFDHQPEIWPSPAEAVRVLDK 70
L G AC F+ P WP+PA +V+DK
Sbjct: 317 LYGPLACGATTLMFEGVPN-WPTPARMCQVVDK 348
>pdb|2P2B|A Chain A, Acetyl-coa Synthetase, V386a Mutation
pdb|2P2B|B Chain B, Acetyl-coa Synthetase, V386a Mutation
Length = 652
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 38 LCGVTACAIICASFDHQPEIWPSPAEAVRVLDK 70
L G AC F+ P WP+PA +V+DK
Sbjct: 317 LYGPLACGATTLMFEGVPN-WPTPARMCQVVDK 348
>pdb|2P2J|A Chain A, Acetyl-Coa Synthetase, K609a Mutation
pdb|2P2J|B Chain B, Acetyl-Coa Synthetase, K609a Mutation
Length = 652
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 38 LCGVTACAIICASFDHQPEIWPSPAEAVRVLDK 70
L G AC F+ P WP+PA +V+DK
Sbjct: 317 LYGPLACGATTLMFEGVPN-WPTPARMCQVVDK 348
>pdb|2P2M|A Chain A, Acetyl-Coa Synthetase, R194a Mutation
pdb|2P2M|B Chain B, Acetyl-Coa Synthetase, R194a Mutation
Length = 652
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 38 LCGVTACAIICASFDHQPEIWPSPAEAVRVLDK 70
L G AC F+ P WP+PA +V+DK
Sbjct: 317 LYGPLACGATTLMFEGVPN-WPTPARMCQVVDK 348
>pdb|2P20|A Chain A, Acetyl-Coa Synthetase, R584a Mutation
pdb|2P20|B Chain B, Acetyl-Coa Synthetase, R584a Mutation
Length = 652
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 38 LCGVTACAIICASFDHQPEIWPSPAEAVRVLDK 70
L G AC F+ P WP+PA +V+DK
Sbjct: 317 LYGPLACGATTLMFEGVPN-WPTPARMCQVVDK 348
>pdb|2P2F|A Chain A, Acetyl-coa Synthetase, Wild-type With Acetate, Amp, And
Coa Bound
pdb|2P2F|B Chain B, Acetyl-coa Synthetase, Wild-type With Acetate, Amp, And
Coa Bound
Length = 652
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 38 LCGVTACAIICASFDHQPEIWPSPAEAVRVLDK 70
L G AC F+ P WP+PA +V+DK
Sbjct: 317 LYGPLACGATTLMFEGVPN-WPTPARMCQVVDK 348
>pdb|1PG3|A Chain A, Acetyl Coa Synthetase, Acetylated On Lys609
pdb|1PG3|B Chain B, Acetyl Coa Synthetase, Acetylated On Lys609
pdb|1PG4|A Chain A, Acetyl Coa Synthetase, Salmonella Enterica
pdb|1PG4|B Chain B, Acetyl Coa Synthetase, Salmonella Enterica
Length = 652
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 38 LCGVTACAIICASFDHQPEIWPSPAEAVRVLDK 70
L G AC F+ P WP+PA +V+DK
Sbjct: 317 LYGPLACGATTLMFEGVPN-WPTPARMCQVVDK 348
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
0.322 0.136 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,470,730
Number of Sequences: 62578
Number of extensions: 147989
Number of successful extensions: 262
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 253
Number of HSP's gapped (non-prelim): 19
length of query: 177
length of database: 14,973,337
effective HSP length: 92
effective length of query: 85
effective length of database: 9,216,161
effective search space: 783373685
effective search space used: 783373685
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: 48 (23.1 bits)