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= 036652
(240 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 43/84 (51%), Positives = 57/84 (67%), Gaps = 6/84 (7%)
Query: 2 GRGKIAIKRIENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKLCQYCTEP 61
GR KI I RI + RQVTF+KR+ GL+KK +ELSVLCD +I LIIF+S+ KL QY +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 FRMEQIIERRLKVTGTRIPEHDSR 85
M++++ LK T P H+SR
Sbjct: 61 --MDKVL---LKYTEYNEP-HESR 78
>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 = 76.3 bits (186), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 43/84 (51%), Positives = 57/84 (67%), Gaps = 6/84 (7%)
Query: 2 GRGKIAIKRIENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKLCQYCTEP 61
GR KI I RI + RQVTF+KR+ GL+KK +ELSVL DA+I LIIF+S+ KL QY +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 62 FRMEQIIERRLKVTGTRIPEHDSR 85
M++++ LK T P H+SR
Sbjct: 61 --MDKVL---LKYTEYNEP-HESR 78
>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 = 75.1 bits (183), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 35/58 (60%), Positives = 44/58 (75%)
Query: 2 GRGKIAIKRIENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKLCQYCT 59
GR KI I RI + RQVTF+KR+ GL+KK +ELSVLCD +I LIIF+S+ KL QY +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS 58
>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 = 75.1 bits (183), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 43/85 (50%), Positives = 57/85 (67%), Gaps = 6/85 (7%)
Query: 1 MGRGKIAIKRIENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKLCQYCTE 60
MGR KI I RI + RQVTF+KR+ GL+KK +ELSVLCD +I LIIF+S +L QY +
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 PFRMEQIIERRLKVTGTRIPEHDSR 85
M++++ LK T P H+SR
Sbjct: 61 D--MDRVL---LKYTEYSEP-HESR 79
>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 = 72.8 bits (177), Expect = 2e-13, Method: Composition-based stats.
Identities = 35/58 (60%), Positives = 44/58 (75%)
Query: 2 GRGKIAIKRIENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKLCQYCT 59
GR KI I RI + RQVTF+KR+ GL+KK +ELSVLCD +I LIIF+S+ KL QY +
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS 58
>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 = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/84 (50%), Positives = 56/84 (66%), Gaps = 6/84 (7%)
Query: 2 GRGKIAIKRIENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKLCQYCTEP 61
GR KI I RI + RQVTF+KR+ GL+KK +ELSVLCD +I LIIF+S +L QY +
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 62 FRMEQIIERRLKVTGTRIPEHDSR 85
M++++ LK T P H+SR
Sbjct: 61 --MDRVL---LKYTEYSEP-HESR 78
>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 = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/60 (51%), Positives = 39/60 (65%)
Query: 3 RGKIAIKRIENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKLCQYCTEPF 62
R KI IK IEN T R VTFSKR+ G++KK ELSVL Q+ L++ S TG + + T F
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
>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 = 50.8 bits (120), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 37/58 (63%)
Query: 2 GRGKIAIKRIENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKLCQYCT 59
GR KI ++ I+N R TFSKR+ G++KK +ELS L Q+ L++ S TG + + T
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 = 50.4 bits (119), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 37/58 (63%)
Query: 2 GRGKIAIKRIENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSTGKLCQYCT 59
GR KI ++ I+N R TFSKR+ G++KK +ELS L Q+ L++ S TG + + T
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 68
>pdb|1VCY|A Chain A, Vva2 Isoform
Length = 213
Score = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 50/116 (43%), Gaps = 8/116 (6%)
Query: 102 LQLSMRRYTGEDLGSIPYD--DLDQLEHELESSVNKVRDRKNELLQQQLDNLRRKERMLE 159
+ ++ YTGEDL YD ++Q E E+ S V+K+ + +D + +L
Sbjct: 60 FKTAIDNYTGEDLSFDKYDQSTINQREQEVGSMVDKIAKFLRDAFSAVVDLSKLGAIIL- 118
Query: 160 EENSNMYRWIQEHRAALEYQQAAMEAKPAEEHHHQVLDHFPFLGDQQPSSVLQLAT 215
N + ++E ++ Q + K ++VL PF GD PS L T
Sbjct: 119 ----NTFTNLEEESSSGFLQFSTNNVKKNSSWEYRVLFSVPF-GDNAPSYFYSLVT 169
>pdb|1R66|A Chain A, Crystal Structure Of Desiv (Dtdp-Glucose 4,6-Dehydratase)
From Streptomyces Venezuelae With Nad And Tyd Bound
Length = 337
Score = 30.4 bits (67), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 39/94 (41%), Gaps = 16/94 (17%)
Query: 102 LQLSMRRYTGEDLGSIPYDDLDQLEHELESSVNKVRDRKNELLQQQLDNLR-------RK 154
L+L+ R TG L S+ D SSV KV DRK L+ LD + R
Sbjct: 246 LELTNRELTGILLDSLGAD---------WSSVRKVADRKGHDLRYSLDGGKIERELGYRP 296
Query: 155 ERMLEEENSNMYRWIQEHRAALEYQQAAMEAKPA 188
+ + + RW +E+R E +A PA
Sbjct: 297 QVSFADGLARTVRWYRENRGWWEPLKATAPQLPA 330
>pdb|1R6D|A Chain A, Crystal Structure Of Desiv Double Mutant (Dtdp-Glucose
4,6- Dehydratase) From Streptomyces Venezuelae With Nad
And Dau Bound
Length = 337
Score = 30.4 bits (67), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 39/94 (41%), Gaps = 16/94 (17%)
Query: 102 LQLSMRRYTGEDLGSIPYDDLDQLEHELESSVNKVRDRKNELLQQQLDNLR-------RK 154
L+L+ R TG L S+ D SSV KV DRK L+ LD + R
Sbjct: 246 LELTNRELTGILLDSLGAD---------WSSVRKVADRKGHDLRYSLDGGKIERELGYRP 296
Query: 155 ERMLEEENSNMYRWIQEHRAALEYQQAAMEAKPA 188
+ + + RW +E+R E +A PA
Sbjct: 297 QVSFADGLARTVRWYRENRGWWEPLKATAPQLPA 330
>pdb|3EFV|A Chain A, Crystal Structure Of A Putative Succinate-Semialdehyde
Dehydrogenase From Salmonella Typhimurium Lt2 With Bound
Nad
pdb|3EFV|B Chain B, Crystal Structure Of A Putative Succinate-Semialdehyde
Dehydrogenase From Salmonella Typhimurium Lt2 With Bound
Nad
pdb|3EFV|C Chain C, Crystal Structure Of A Putative Succinate-Semialdehyde
Dehydrogenase From Salmonella Typhimurium Lt2 With Bound
Nad
pdb|3EFV|D Chain D, Crystal Structure Of A Putative Succinate-Semialdehyde
Dehydrogenase From Salmonella Typhimurium Lt2 With Bound
Nad
pdb|3ETF|A Chain A, Crystal Structure Of A Putative Succinate-Semialdehyde
Dehydrogenase From Salmonella Typhimurium Lt2
pdb|3ETF|B Chain B, Crystal Structure Of A Putative Succinate-Semialdehyde
Dehydrogenase From Salmonella Typhimurium Lt2
pdb|3ETF|C Chain C, Crystal Structure Of A Putative Succinate-Semialdehyde
Dehydrogenase From Salmonella Typhimurium Lt2
pdb|3ETF|D Chain D, Crystal Structure Of A Putative Succinate-Semialdehyde
Dehydrogenase From Salmonella Typhimurium Lt2
Length = 462
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 104 LSMRRYTGEDLGSIPYDDLDQLEHELESSVNKVRDRKNELLQQQLDNLR 152
LS+ TG+ L + P+ + ++EH L + + + K + Q+ LR
Sbjct: 10 LSVNPATGQTLAAXPWANAQEIEHALSLAASGFKKWKXTSVAQRAQTLR 58
>pdb|1WS0|A Chain A, Structure Analysis Of Peptide Deformylase From Bacillus
Cereus
pdb|1WS1|A Chain A, Structure Analysis Of Peptide Deformylase From Bacillus
Cereus
Length = 156
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 11 IENPTTRQVTFSKRRAGLLKKTHELSVLCDAQIGL 45
+E P R + F K+ LLK HE ++ D +GL
Sbjct: 14 LETPCERVINFDKKLVKLLKDMHETMLIADG-VGL 47
>pdb|3A7O|A Chain A, The Crystal Structure Of The Coiled-Coil Domain Of
Saccharomyces Cerevisiae Atg16
pdb|3A7O|B Chain B, The Crystal Structure Of The Coiled-Coil Domain Of
Saccharomyces Cerevisiae Atg16
pdb|3A7O|C Chain C, The Crystal Structure Of The Coiled-Coil Domain Of
Saccharomyces Cerevisiae Atg16
pdb|3A7O|D Chain D, The Crystal Structure Of The Coiled-Coil Domain Of
Saccharomyces Cerevisiae Atg16
pdb|3A7O|E Chain E, The Crystal Structure Of The Coiled-Coil Domain Of
Saccharomyces Cerevisiae Atg16
pdb|3A7O|F Chain F, The Crystal Structure Of The Coiled-Coil Domain Of
Saccharomyces Cerevisiae Atg16
Length = 75
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 43/78 (55%), Gaps = 9/78 (11%)
Query: 76 GTRIPEHDSREQIFNELAVLRKETRRLQLSMRRYTGEDLGSIPYDDLDQLEHELESSVNK 135
G I HD + + N LA+L+KE + + +RR +++ ++ + ++L EL S
Sbjct: 6 GGNIVSHD--DALLNTLAILQKELKSKEQEIRRL--KEVIALKNKNTERLNDELISGT-- 59
Query: 136 VRDRKNELLQQQLDNLRR 153
+N +LQQ+L +L++
Sbjct: 60 ---IENNVLQQKLSDLKK 74
>pdb|3A7P|A Chain A, The Crystal Structure Of Saccharomyces Cerevisiae Atg16
pdb|3A7P|B Chain B, The Crystal Structure Of Saccharomyces Cerevisiae Atg16
Length = 152
Score = 26.9 bits (58), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 25/110 (22%), Positives = 54/110 (49%), Gaps = 15/110 (13%)
Query: 76 GTRIPEHDSREQIFNELAVLRKETRRLQLSMRRYTGEDLGSIPYDDLDQLEHELESSVNK 135
G I HD + + N LA+L+KE + + +RR +++ ++ + ++L L S
Sbjct: 56 GGNIVSHD--DALLNTLAILQKELKSKEQEIRRL--KEVIALKNKNTERLNAALISGT-- 109
Query: 136 VRDRKNELLQQQLDNLRRKERMLEEENSNMYRWIQEHRAALEYQQAAMEA 185
+N +LQQ+L +L+++ L + RW+++ E + ++
Sbjct: 110 ---IENNVLQQKLSDLKKEHSQL------VARWLKKTEKETEAMNSEIDG 150
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
0.318 0.133 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,930,017
Number of Sequences: 62578
Number of extensions: 259722
Number of successful extensions: 961
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 936
Number of HSP's gapped (non-prelim): 50
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)