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= 018135
(360 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 = 72.4 bits (176), Expect = 4e-13, Method: Composition-based stats.
Identities = 34/92 (36%), Positives = 60/92 (65%), Gaps = 2/92 (2%)
Query: 1 MGRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQ 60
MGR K++I R+ NRQVT++KR+ G++KKA ELS+LCD +I L++F+ R LF
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANR--LFQYA 58
Query: 61 RSNIEEVIARFAQLTPQERAKRKLESLEALKK 92
++++ V+ ++ + + ++ + LE LK+
Sbjct: 59 STDMDRVLLKYTEYSEPHESRTNTDILETLKR 90
>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 = 70.5 bits (171), Expect = 2e-12, Method: Composition-based stats.
Identities = 33/91 (36%), Positives = 59/91 (64%), Gaps = 2/91 (2%)
Query: 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQR 61
GR K++I R+ NRQVT++KR+ G++KKA ELS+LCD +I L++F+ R LF
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANR--LFQYAS 58
Query: 62 SNIEEVIARFAQLTPQERAKRKLESLEALKK 92
++++ V+ ++ + + ++ + LE LK+
Sbjct: 59 TDMDRVLLKYTEYSEPHESRTNTDILETLKR 89
>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 = 67.4 bits (163), Expect = 1e-11, Method: Composition-based stats.
Identities = 32/91 (35%), Positives = 60/91 (65%), Gaps = 2/91 (2%)
Query: 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQR 61
GR K++I R+ NRQVT++KR+ G++KKA ELS+LCD +I L++F+ + + LF
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNK--LFQYAS 58
Query: 62 SNIEEVIARFAQLTPQERAKRKLESLEALKK 92
+++++V+ ++ + ++ + +EAL K
Sbjct: 59 TDMDKVLLKYTEYNEPHESRTNSDIVEALNK 89
>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 = 64.7 bits (156), Expect = 9e-11, Method: Composition-based stats.
Identities = 28/70 (40%), Positives = 51/70 (72%), Gaps = 2/70 (2%)
Query: 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQR 61
GR K++I R+ NRQVT++KR+ G++KKA ELS+LCD +I L++F+ + + LF
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNK--LFQYAS 58
Query: 62 SNIEEVIARF 71
+++++V+ ++
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 = 63.2 bits (152), Expect = 2e-10, Method: Composition-based stats.
Identities = 30/78 (38%), Positives = 54/78 (69%), Gaps = 3/78 (3%)
Query: 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQR 61
GR K++I R+ NRQVT++KR+ G++KKA ELS+LCD +I L++F+ + + LF
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNK--LFQYAS 58
Query: 62 SNIEEVIARFAQLT-PQE 78
+++++V+ ++ + P E
Sbjct: 59 TDMDKVLLKYTEYNEPHE 76
>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 = 58.5 bits (140), Expect = 6e-09, Method: Composition-based stats.
Identities = 28/87 (32%), Positives = 56/87 (64%), Gaps = 2/87 (2%)
Query: 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQR 61
GR K++I R+ NRQVT++KR+ G++KKA ELS+L D +I L++F+ + + LF
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNK--LFQYAS 58
Query: 62 SNIEEVIARFAQLTPQERAKRKLESLE 88
+++++V+ ++ + ++ + +E
Sbjct: 59 TDMDKVLLKYTEYNEPHESRTNSDIVE 85
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/55 (47%), Positives = 39/55 (70%)
Query: 3 RVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLF 57
R K++IK +E+ + R VT+SKR++GI+KKA ELS+L ++LL+ S TG F
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTF 72
>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 = 50.8 bits (120), Expect = 1e-06, Method: Composition-based stats.
Identities = 25/56 (44%), Positives = 37/56 (66%)
Query: 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLF 57
GRVK+K++ +++ R T+SKR+ GI+KKA ELS L ++LL+ S TG F
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 66
>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 = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 25/56 (44%), Positives = 37/56 (66%)
Query: 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLF 57
GRVK+K++ +++ R T+SKR+ GI+KKA ELS L ++LL+ S TG F
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTF 65
>pdb|2QAG|A Chain A, Crystal Structure Of Human Septin Trimer 267
Length = 361
Score = 31.6 bits (70), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 38/138 (27%), Positives = 61/138 (44%), Gaps = 29/138 (21%)
Query: 61 RSNIEEVIARFAQLTPQERAKRKLESLEALKKTFKKLDHDVNIQDFLGASTQTVEELTHQ 120
+ NI VIA+ LT +ER + K L+ ++ +H++ I A + E+ Q
Sbjct: 174 KVNIVPVIAKADTLTLKERERLKKRILDEIE------EHNIKIYHLPDAESDEDEDFKEQ 227
Query: 121 VRILQA----------QLTE-----VHQRLSYWSNPGNIESIEH-----LRQMENSLRES 160
R+L+A QL E V RL W +E+ EH LR M + +
Sbjct: 228 TRLLKASIPFSVVGSNQLIEAKGKKVRGRLYPWG-VVEVENPEHNDFLKLRTMLITHMQD 286
Query: 161 INQIC--LHKENFGKQQL 176
+ ++ LH ENF ++L
Sbjct: 287 LQEVTQDLHYENFRSERL 304
>pdb|3FTQ|A Chain A, Crystal Structure Of Septin 2 In Complex With Gppnhp And
Mg2+
pdb|3FTQ|B Chain B, Crystal Structure Of Septin 2 In Complex With Gppnhp And
Mg2+
pdb|3FTQ|C Chain C, Crystal Structure Of Septin 2 In Complex With Gppnhp And
Mg2+
pdb|3FTQ|D Chain D, Crystal Structure Of Septin 2 In Complex With Gppnhp And
Mg2+
Length = 274
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 38/138 (27%), Positives = 60/138 (43%), Gaps = 29/138 (21%)
Query: 61 RSNIEEVIARFAQLTPQERAKRKLESLEALKKTFKKLDHDVNIQDFLGASTQTVEELTHQ 120
+ NI VIA+ LT +ER + K L+ ++ +H + I A + E+ Q
Sbjct: 142 KVNIVPVIAKADTLTLKERERLKKRILDEIE------EHSIKIYHLPDAESDEDEDFKEQ 195
Query: 121 VRILQA----------QLTE-----VHQRLSYWSNPGNIESIEH-----LRQMENSLRES 160
R+L+A QL E V RL W +E+ EH LR M + +
Sbjct: 196 TRLLKASIPFSVVGSNQLIEAKGKKVRGRLYPWG-VVEVENPEHNDFLKLRTMLITHMQD 254
Query: 161 INQIC--LHKENFGKQQL 176
+ ++ LH ENF ++L
Sbjct: 255 LQEVTQDLHYENFRSERL 272
>pdb|2CRC|A Chain A, Solution Structure Of The Zf-Ranbp Domain Of The Protein
Hbv Associated Factor
Length = 52
Score = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 297 DKKLKPDAEMNLQGNPAVYQVNSNFELSGPMYG 329
+K +P EM + P YQV ++++ SGP G
Sbjct: 20 NKPTRPGCEMCCRARPEAYQVPASYQPSGPSSG 52
>pdb|2QA5|A Chain A, Crystal Structure Of Sept2 G-Domain
pdb|2QA5|B Chain B, Crystal Structure Of Sept2 G-Domain
Length = 315
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 60/138 (43%), Gaps = 29/138 (21%)
Query: 61 RSNIEEVIARFAQLTPQERAKRKLESLEALKKTFKKLDHDVNIQDFLGASTQTVEELTHQ 120
+ NI VIA+ LT +ER + K L+ ++ +H++ I A + E+ Q
Sbjct: 174 KVNIVPVIAKADTLTLKERERLKKRILDEIE------EHNIKIYHLPDAESDEDEDFKEQ 227
Query: 121 VRILQA----------QLTE-----VHQRLSYWSNPGNIESIEH-----LRQMENSLRES 160
R+L+A QL E V RL W +E+ EH LR + +
Sbjct: 228 TRLLKASIPFSVVGSNQLIEAKGKKVRGRLYPWG-VVEVENPEHNDFLKLRTXLITHXQD 286
Query: 161 INQIC--LHKENFGKQQL 176
+ ++ LH ENF ++L
Sbjct: 287 LQEVTQDLHYENFRSERL 304
>pdb|2QNR|A Chain A, Human Septin 2 In Complex With Gdp
pdb|2QNR|B Chain B, Human Septin 2 In Complex With Gdp
Length = 301
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 60/138 (43%), Gaps = 29/138 (21%)
Query: 61 RSNIEEVIARFAQLTPQERAKRKLESLEALKKTFKKLDHDVNIQDFLGASTQTVEELTHQ 120
+ NI VIA+ LT +ER + K L+ ++ +H++ I A + E+ Q
Sbjct: 155 KVNIVPVIAKADTLTLKERERLKKRILDEIE------EHNIKIYHLPDAESDEDEDFKEQ 208
Query: 121 VRILQA----------QLTE-----VHQRLSYWSNPGNIESIEH-----LRQMENSLRES 160
R+L+A QL E V RL W +E+ EH LR + +
Sbjct: 209 TRLLKASIPFSVVGSNQLIEAKGKKVRGRLYPWG-VVEVENPEHNDFLKLRTXLITHXQD 267
Query: 161 INQIC--LHKENFGKQQL 176
+ ++ LH ENF ++L
Sbjct: 268 LQEVTQDLHYENFRSERL 285
>pdb|1HR6|A Chain A, Yeast Mitochondrial Processing Peptidase
pdb|1HR6|C Chain C, Yeast Mitochondrial Processing Peptidase
pdb|1HR6|E Chain E, Yeast Mitochondrial Processing Peptidase
pdb|1HR6|G Chain G, Yeast Mitochondrial Processing Peptidase
pdb|1HR7|A Chain A, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
pdb|1HR7|C Chain C, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
pdb|1HR7|E Chain E, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
pdb|1HR7|G Chain G, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
pdb|1HR8|A Chain A, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Cytochrome C Oxidase Iv Signal Peptide
pdb|1HR8|C Chain C, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Cytochrome C Oxidase Iv Signal Peptide
pdb|1HR8|E Chain E, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Cytochrome C Oxidase Iv Signal Peptide
pdb|1HR8|G Chain G, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Cytochrome C Oxidase Iv Signal Peptide
pdb|1HR9|A Chain A, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Malate Dehydrogenase Signal Peptide
pdb|1HR9|C Chain C, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Malate Dehydrogenase Signal Peptide
pdb|1HR9|E Chain E, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Malate Dehydrogenase Signal Peptide
pdb|1HR9|G Chain G, Yeast Mitochondrial Processing Peptidase Beta-E73q Mutant
Complexed With Malate Dehydrogenase Signal Peptide
Length = 475
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 36 SILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQLTPQERAK 81
S+L +++ L+ GR L HG++ + E+I++ L P + ++
Sbjct: 364 SLLMNLESKLVELEDMGRQVLMHGRKIPVNEMISKIEDLKPDDISR 409
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
0.315 0.131 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,240,362
Number of Sequences: 62578
Number of extensions: 401150
Number of successful extensions: 988
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 973
Number of HSP's gapped (non-prelim): 17
length of query: 360
length of database: 14,973,337
effective HSP length: 100
effective length of query: 260
effective length of database: 8,715,537
effective search space: 2266039620
effective search space used: 2266039620
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)