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= 040096
(212 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 = 2e-13, Method: Compositional matrix adjust.
Identities = 41/98 (41%), Positives = 65/98 (66%), Gaps = 10/98 (10%)
Query: 1 MGRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSP 60
MGR KI+I RI + NRQVT++KR+ G++KKA E++VLCD +++LII+ S+ ++ Y
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQY--A 58
Query: 61 STSLVDILEQYHRQSGRRLWDPKHENLSNE--IERIKR 96
ST + +L +Y S +P HE+ +N +E +KR
Sbjct: 59 STDMDRVLLKYTEYS-----EP-HESRTNTDILETLKR 90
>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 = 3e-13, Method: Compositional matrix adjust.
Identities = 34/70 (48%), Positives = 51/70 (72%), Gaps = 2/70 (2%)
Query: 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPS 61
GR KI+I RI + NRQVT++KR+ G++KKA E++VLCD +++LII+ SS K+ Y S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQY--AS 58
Query: 62 TSLVDILEQY 71
T + +L +Y
Sbjct: 59 TDMDKVLLKY 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 = 71.6 bits (174), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 34/70 (48%), Positives = 51/70 (72%), Gaps = 2/70 (2%)
Query: 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPS 61
GR KI+I RI + NRQVT++KR+ G++KKA E++VLCD +++LII+ SS K+ Y S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQY--AS 58
Query: 62 TSLVDILEQY 71
T + +L +Y
Sbjct: 59 TDMDKVLLKY 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 = 71.2 bits (173), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 34/70 (48%), Positives = 51/70 (72%), Gaps = 2/70 (2%)
Query: 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPS 61
GR KI+I RI + NRQVT++KR+ G++KKA E++VLCD +++LII+ SS K+ Y S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQY--AS 58
Query: 62 TSLVDILEQY 71
T + +L +Y
Sbjct: 59 TDMDKVLLKY 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 = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 34/70 (48%), Positives = 51/70 (72%), Gaps = 2/70 (2%)
Query: 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPS 61
GR KI+I RI + NRQVT++KR+ G++KKA E++VL DA+++LII+ SS K+ Y S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYA--S 58
Query: 62 TSLVDILEQY 71
T + +L +Y
Sbjct: 59 TDMDKVLLKY 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 = 69.3 bits (168), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 40/97 (41%), Positives = 64/97 (65%), Gaps = 10/97 (10%)
Query: 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPS 61
GR KI+I RI + NRQVT++KR+ G++KKA E++VLCD +++LII+ S+ ++ Y S
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQY--AS 58
Query: 62 TSLVDILEQYHRQSGRRLWDPKHENLSNE--IERIKR 96
T + +L +Y S +P HE+ +N +E +KR
Sbjct: 59 TDMDRVLLKYTEYS-----EP-HESRTNTDILETLKR 89
>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 = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 43/58 (74%)
Query: 3 RGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSP 60
R KIEIK IEN + R VT+SKR++GI+KKA E++VL +V L++ + +G ++ + +P
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75
>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 = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 39/58 (67%)
Query: 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCS 59
GR KI+++ I+N R T+SKR+ GI+KKA E++ L +V L++ + +G ++ + +
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 67
>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 = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 39/58 (67%)
Query: 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCS 59
GR KI+++ I+N R T+SKR+ GI+KKA E++ L +V L++ + +G ++ + +
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 68
>pdb|1Y1U|A Chain A, Structure Of Unphosphorylated Stat5a
pdb|1Y1U|B Chain B, Structure Of Unphosphorylated Stat5a
pdb|1Y1U|C Chain C, Structure Of Unphosphorylated Stat5a
Length = 585
Score = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 27/117 (23%), Positives = 59/117 (50%), Gaps = 7/117 (5%)
Query: 59 SPSTSLVDILEQYHRQSGRRLWDPK--HENLSNEIERIKRENDRMQIKLR-----HLNGE 111
SP+ LVD + Q H Q +R + + ++ NE++++++ + I+ +
Sbjct: 1 SPAGVLVDAMSQKHLQINQRFEELRLITQDTENELKKLQQTQEYFIIQYQESLRIQAQFA 60
Query: 112 DISSLNPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQE 168
+ LNP+E ++ E AL+ VS+ + +T+++ + E+H +LR+Q+
Sbjct: 61 QLGQLNPQERMSRETALQQKQVSLETWLQREAQTLQQYRVELAEKHQKTLQLLRKQQ 117
>pdb|3RJ1|F Chain F, Architecture Of The Mediator Head Module
pdb|3RJ1|M Chain M, Architecture Of The Mediator Head Module
pdb|3RJ1|T Chain T, Architecture Of The Mediator Head Module
Length = 210
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%)
Query: 117 NPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQEIARQQ 173
P L L+DAL N ++S+RD S T R + K + + + L + + RQ
Sbjct: 13 TPATLTELKDALSNSILSVRDPWSIDFRTYRCSIKNLPADVSKLXYSITFHHHGRQT 69
>pdb|2HZS|A Chain A, Structure Of The Mediator Head Submodule Med8c1820
pdb|2HZS|C Chain C, Structure Of The Mediator Head Submodule Med8c1820
pdb|2HZS|E Chain E, Structure Of The Mediator Head Submodule Med8c1820
pdb|2HZS|G Chain G, Structure Of The Mediator Head Submodule Med8c1820
Length = 209
Score = 30.0 bits (66), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%)
Query: 117 NPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQEIARQQ 173
P L L+DAL N ++S+RD S T R + K + + + L + + RQ
Sbjct: 12 TPATLTELKDALSNSILSVRDPWSIDFRTYRCSIKNLPADVSKLMYSITFHHHGRQT 68
>pdb|2HZM|A Chain A, Structure Of The Mediator Head Subcomplex Med18/20
pdb|2HZM|C Chain C, Structure Of The Mediator Head Subcomplex Med18/20
pdb|2HZM|E Chain E, Structure Of The Mediator Head Subcomplex Med18/20
pdb|2HZM|G Chain G, Structure Of The Mediator Head Subcomplex Med18/20
Length = 212
Score = 30.0 bits (66), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%)
Query: 117 NPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQEIARQQ 173
P L L+DAL N ++S+RD S T R + K + + + L + + RQ
Sbjct: 15 TPATLTELKDALSNSILSVRDPWSIDFRTYRCSIKNLPADVSKLMYSITFHHHGRQT 71
>pdb|4GWP|F Chain F, Structure Of The Mediator Head Module From S. Cerevisiae
pdb|4GWQ|F Chain F, Structure Of The Mediator Head Module From S. Cerevisiae
In Complex With The Carboxy-Terminal Domain (Ctd) Of Rna
Polymerase Ii Rpb1 Subunit
Length = 210
Score = 30.0 bits (66), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%)
Query: 117 NPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQEIARQQ 173
P L L+DAL N ++S+RD S T R + K + + + L + + RQ
Sbjct: 13 TPATLTELKDALSNSILSVRDPWSIDFRTYRCSIKNLPADVSKLMYSITFHHHGRQT 69
>pdb|2VFA|A Chain A, Crystal Structure Of A Chimera Of Plasmodium Falciparum
And Human Hypoxanthine-Guanine Phosphoribosyl
Transferases
pdb|2VFA|B Chain B, Crystal Structure Of A Chimera Of Plasmodium Falciparum
And Human Hypoxanthine-Guanine Phosphoribosyl
Transferases
Length = 229
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 38/69 (55%), Gaps = 7/69 (10%)
Query: 64 LVDILEQYHRQSGRRLWDPKHENLSNEIERIKRE-NDRMQIKLRHLNGEDISSLNPKELI 122
L+D ++ +R S R + ++ + R+K ND+ ++ + G+D+S+L K ++
Sbjct: 86 LLDYIKALNRNSDRSI------PMTVDFIRLKSYCNDQSTGDIKVIGGDDLSTLTGKNVL 139
Query: 123 ALEDALENG 131
+ED ++ G
Sbjct: 140 IVEDIIDTG 148
>pdb|1HMP|A Chain A, The Crystal Structure Of Human Hypoxanthine-Guanine
Phosphoribosyltransferase With Bound Gmp
pdb|1HMP|B Chain B, The Crystal Structure Of Human Hypoxanthine-Guanine
Phosphoribosyltransferase With Bound Gmp
pdb|1BZY|A Chain A, Human Hgprtase With Transition State Inhibitor
pdb|1BZY|B Chain B, Human Hgprtase With Transition State Inhibitor
pdb|1BZY|C Chain C, Human Hgprtase With Transition State Inhibitor
pdb|1BZY|D Chain D, Human Hgprtase With Transition State Inhibitor
pdb|1Z7G|A Chain A, Free Human Hgprt
pdb|1Z7G|B Chain B, Free Human Hgprt
pdb|1Z7G|C Chain C, Free Human Hgprt
pdb|1Z7G|D Chain D, Free Human Hgprt
pdb|3GEP|A Chain A, Human Hypoxanthine Guanine Phosphoribosyltranserfase In
Complex With (S)-9-(3-Hydroxy-2-Phosphonylmethoxypropyl)
Guanine
pdb|3GEP|B Chain B, Human Hypoxanthine Guanine Phosphoribosyltranserfase In
Complex With (S)-9-(3-Hydroxy-2-Phosphonylmethoxypropyl)
Guanine
pdb|3GGC|A Chain A, Human Hypoxanthine-guanine Phosphoribosyltransferase In
Complex With 9-(2-phosphonoethoxyethyl)hypoxanthine
pdb|3GGC|B Chain B, Human Hypoxanthine-guanine Phosphoribosyltransferase In
Complex With 9-(2-phosphonoethoxyethyl)hypoxanthine
pdb|3GGJ|A Chain A, Human Hypoxanthine-guanine Phosphoribosyltransferase In
Complex With 9-(2-phosphonoethoxyethyl)guanine
pdb|3GGJ|B Chain B, Human Hypoxanthine-guanine Phosphoribosyltransferase In
Complex With 9-(2-phosphonoethoxyethyl)guanine
Length = 217
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 38/69 (55%), Gaps = 7/69 (10%)
Query: 64 LVDILEQYHRQSGRRLWDPKHENLSNEIERIKRE-NDRMQIKLRHLNGEDISSLNPKELI 122
L+D ++ +R S R + ++ + R+K ND+ ++ + G+D+S+L K ++
Sbjct: 77 LLDYIKALNRNSDRSI------PMTVDFIRLKSYCNDQSTGDIKVIGGDDLSTLTGKNVL 130
Query: 123 ALEDALENG 131
+ED ++ G
Sbjct: 131 IVEDIIDTG 139
>pdb|1J8F|C Chain C, Human Sirt2 Histone Deacetylase
pdb|1J8F|B Chain B, Human Sirt2 Histone Deacetylase
Length = 323
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 30 KKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYH 72
++ + + L A +S +S + D+ SPST L D LE+YH
Sbjct: 41 ERCRRVICLVGAGIS-----TSAGIPDFRSPSTGLYDNLEKYH 78
>pdb|1J8F|A Chain A, Human Sirt2 Histone Deacetylase
Length = 323
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 30 KKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYH 72
++ + + L A +S +S + D+ SPST L D LE+YH
Sbjct: 41 ERCRRVICLVGAGIS-----TSAGIPDFRSPSTGLYDNLEKYH 78
>pdb|1D6N|A Chain A, Ternary Complex Structure Of Human Hgprtase, Prpp, Mg2+,
And The Inhibitor Hpp Reveals The Involvement Of The
Flexible Loop In Substrate Binding
pdb|1D6N|B Chain B, Ternary Complex Structure Of Human Hgprtase, Prpp, Mg2+,
And The Inhibitor Hpp Reveals The Involvement Of The
Flexible Loop In Substrate Binding
Length = 214
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 43/90 (47%), Gaps = 13/90 (14%)
Query: 43 VSLIIYASSGKMHDYCSPSTSLVDILEQYHRQSGRRLWDPKHENLSNEIERIKRE-NDRM 101
V+L + A K L+D ++ +R S R + ++ + R+ ND+
Sbjct: 59 VALCVLAGGYKFF------ADLLDYIKALNRNSDRSI------PMTVDFIRLGSYCNDQS 106
Query: 102 QIKLRHLNGEDISSLNPKELIALEDALENG 131
++ + G+D+S+L K ++ +ED ++ G
Sbjct: 107 TGDIKVIGGDDLSTLTGKNVLIVEDIIDTG 136
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 0.130 0.358
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,974,698
Number of Sequences: 62578
Number of extensions: 224865
Number of successful extensions: 649
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 629
Number of HSP's gapped (non-prelim): 44
length of query: 212
length of database: 14,973,337
effective HSP length: 95
effective length of query: 117
effective length of database: 9,028,427
effective search space: 1056325959
effective search space used: 1056325959
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: 49 (23.5 bits)