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= 031283
(162 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 = 63.2 bits (152), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 28/59 (47%), Positives = 44/59 (74%)
Query: 1 MGRGKMEMKRIENATNRQVTFSKRRNGLFKKARELTILCDAKVSILICSSTAKAHEYIS 59
MGR K+++ RI + NRQVTF+KR+ GL KKA EL++LCD +++++I +S + +Y S
Sbjct: 1 MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAS 59
>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 = 62.8 bits (151), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 44/58 (75%)
Query: 2 GRGKMEMKRIENATNRQVTFSKRRNGLFKKARELTILCDAKVSILICSSTAKAHEYIS 59
GR K+++ RI + NRQVTF+KR+ GL KKA EL++LCD +++++I +S+ K +Y S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS 58
>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 = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 44/58 (75%)
Query: 2 GRGKMEMKRIENATNRQVTFSKRRNGLFKKARELTILCDAKVSILICSSTAKAHEYIS 59
GR K+++ RI + NRQVTF+KR+ GL KKA EL++LCD +++++I +S+ K +Y S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS 58
>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 = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 44/58 (75%)
Query: 2 GRGKMEMKRIENATNRQVTFSKRRNGLFKKARELTILCDAKVSILICSSTAKAHEYIS 59
GR K+++ RI + NRQVTF+KR+ GL KKA EL++LCD +++++I +S+ K +Y S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS 58
>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 = 62.0 bits (149), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 44/58 (75%)
Query: 2 GRGKMEMKRIENATNRQVTFSKRRNGLFKKARELTILCDAKVSILICSSTAKAHEYIS 59
GR K+++ RI + NRQVTF+KR+ GL KKA EL++L DA+++++I +S+ K +Y S
Sbjct: 1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYAS 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 = 60.5 bits (145), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 43/58 (74%)
Query: 2 GRGKMEMKRIENATNRQVTFSKRRNGLFKKARELTILCDAKVSILICSSTAKAHEYIS 59
GR K+++ RI + NRQVTF+KR+ GL KKA EL++LCD +++++I +S + +Y S
Sbjct: 1 GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAS 58
>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 = 57.0 bits (136), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 40/58 (68%)
Query: 3 RGKMEMKRIENATNRQVTFSKRRNGLFKKARELTILCDAKVSILICSSTAKAHEYISP 60
R K+E+K IEN T R VTFSKR++G+ KKA EL++L +V +L+ S T + + +P
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75
>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 = 3e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 36/58 (62%)
Query: 2 GRGKMEMKRIENATNRQVTFSKRRNGLFKKARELTILCDAKVSILICSSTAKAHEYIS 59
GR K++M+ I+N R TFSKR+ G+ KKA EL+ L +V +L+ S T + + +
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 68
>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 = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 36/58 (62%)
Query: 2 GRGKMEMKRIENATNRQVTFSKRRNGLFKKARELTILCDAKVSILICSSTAKAHEYIS 59
GR K++M+ I+N R TFSKR+ G+ KKA EL+ L +V +L+ S T + + +
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 67
>pdb|1WTH|A Chain A, Crystal Structure Of Gp5-S351l Mutant And Gp27 Complex
Length = 584
Score = 28.5 bits (62), Expect = 1.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 96 QVNRILKKQIRQRMGESLNDLTLEELTGL-EQDILDGLKIIHECKVIKP 143
Q+N++L KQ+ + + + +T+EE T L E+D+ D + I + P
Sbjct: 216 QINKVLSKQVGREITGNPGSITMEEATTLFERDLADMQRDIKSHSKVGP 264
>pdb|1PDL|A Chain A, Fitting Of Gp5 In The Cryoem Reconstruction Of The
Bacteriophage T4 Baseplate
pdb|1PDL|B Chain B, Fitting Of Gp5 In The Cryoem Reconstruction Of The
Bacteriophage T4 Baseplate
pdb|1PDL|C Chain C, Fitting Of Gp5 In The Cryoem Reconstruction Of The
Bacteriophage T4 Baseplate
Length = 575
Score = 28.5 bits (62), Expect = 1.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 96 QVNRILKKQIRQRMGESLNDLTLEELTGL-EQDILDGLKIIHECKVIKP 143
Q+N++L KQ+ + + + +T+EE T L E+D+ D + I + P
Sbjct: 216 QINKVLSKQVGREITGNPGSITMEEATTLFERDLADMQRDIKSHSKVGP 264
>pdb|2Z6B|A Chain A, Crystal Structure Analysis Of (Gp27-Gp5)3 Conjugated With
Fe(Iii) Protoporphyrin
Length = 584
Score = 28.5 bits (62), Expect = 1.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 96 QVNRILKKQIRQRMGESLNDLTLEELTGL-EQDILDGLKIIHECKVIKP 143
Q+N++L KQ+ + + + +T+EE T L E+D+ D + I + P
Sbjct: 216 QINKVLSKQVGREITGNPGSITMEEATTLFERDLADMQRDIKSHSKVGP 264
>pdb|1K28|A Chain A, The Structure Of The Bacteriophage T4 Cell-Puncturing
Device
Length = 584
Score = 28.5 bits (62), Expect = 1.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 96 QVNRILKKQIRQRMGESLNDLTLEELTGL-EQDILDGLKIIHECKVIKP 143
Q+N++L KQ+ + + + +T+EE T L E+D+ D + I + P
Sbjct: 216 QINKVLSKQVGREITGNPGSITMEEATTLFERDLADMQRDIKSHSKVGP 264
>pdb|2P67|A Chain A, Crystal Structure Of LaoAO TRANSPORT SYSTEM KINASE
Length = 341
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 7 EMKRIENATNRQVTFSKRRNGLFKKARELTILCDA 41
++ R E A R V S G ++AREL +LC+A
Sbjct: 112 DLARAEAAFIRPVPSSGHLGGASQRARELMLLCEA 146
>pdb|2QEZ|A Chain A, Crystal Structure Of Ethanolamine Ammonia-Lyase Heavy
Chain (Yp_013784.1) From Listeria Monocytogenes 4b F2365
At 2.15 A Resolution
pdb|2QEZ|B Chain B, Crystal Structure Of Ethanolamine Ammonia-Lyase Heavy
Chain (Yp_013784.1) From Listeria Monocytogenes 4b F2365
At 2.15 A Resolution
pdb|2QEZ|C Chain C, Crystal Structure Of Ethanolamine Ammonia-Lyase Heavy
Chain (Yp_013784.1) From Listeria Monocytogenes 4b F2365
At 2.15 A Resolution
pdb|2QEZ|D Chain D, Crystal Structure Of Ethanolamine Ammonia-Lyase Heavy
Chain (Yp_013784.1) From Listeria Monocytogenes 4b F2365
At 2.15 A Resolution
pdb|2QEZ|E Chain E, Crystal Structure Of Ethanolamine Ammonia-Lyase Heavy
Chain (Yp_013784.1) From Listeria Monocytogenes 4b F2365
At 2.15 A Resolution
pdb|2QEZ|F Chain F, Crystal Structure Of Ethanolamine Ammonia-Lyase Heavy
Chain (Yp_013784.1) From Listeria Monocytogenes 4b F2365
At 2.15 A Resolution
Length = 455
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 20/27 (74%)
Query: 95 EQVNRILKKQIRQRMGESLNDLTLEEL 121
++V RI++ Q+ R+ +S+ + T+EEL
Sbjct: 71 DEVTRIIQDQVNDRIHDSIKNWTVEEL 97
>pdb|1EKE|A Chain A, Crystal Structure Of Class Ii Ribonuclease H (Rnase Hii)
With Mes Ligand
pdb|1EKE|B Chain B, Crystal Structure Of Class Ii Ribonuclease H (Rnase Hii)
With Mes Ligand
Length = 230
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 35/55 (63%), Gaps = 4/55 (7%)
Query: 82 SHYEKMLENLGAVEQVNRILKKQIRQRMGES--LNDLTLEELTGLEQDILDGLKI 134
++ +K+LENLG VE+ RIL+ + ++ S LND+ + + + +++++ L I
Sbjct: 50 AYLKKLLENLGYVEK--RILEAEEINQLXNSINLNDIEINAFSKVAKNLIEKLNI 102
>pdb|3DAX|A Chain A, Crystal Structure Of Human Cyp7a1
pdb|3DAX|B Chain B, Crystal Structure Of Human Cyp7a1
Length = 491
Score = 27.3 bits (59), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 37 ILC-----DAKVSILICSSTAKAHEYISP--STTTKQLLDLYQKTLRVDLWSSHYEKMLE 89
+LC D K S+ A H I P TT+ + D + KTL+ +S E M+E
Sbjct: 71 VLCHGKYFDWKKFHFATSAKAFGHRSIDPMDGNTTENINDTFIKTLQGHALNSLTESMME 130
Query: 90 NL 91
NL
Sbjct: 131 NL 132
>pdb|3SN5|A Chain A, Crystal Structure Of Human Cyp7a1 In Complex With
Cholest-4-En-3-One
pdb|3SN5|B Chain B, Crystal Structure Of Human Cyp7a1 In Complex With
Cholest-4-En-3-One
pdb|3V8D|A Chain A, Crystal Structure Of Human Cyp7a1 In Complex With
7-Ketocholesterol
pdb|3V8D|B Chain B, Crystal Structure Of Human Cyp7a1 In Complex With
7-Ketocholesterol
Length = 491
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 37 ILC-----DAKVSILICSSTAKAHEYISP--STTTKQLLDLYQKTLRVDLWSSHYEKMLE 89
+LC D K S+ A H I P TT+ + D + KTL+ +S E M+E
Sbjct: 71 VLCHGKYFDWKKFHFALSAKAFGHRSIDPMDGNTTENINDTFIKTLQGHALNSLTESMME 130
Query: 90 NL 91
NL
Sbjct: 131 NL 132
>pdb|2YP7|A Chain A, Haemagglutinin Of 2005 Human H3n2 Virus
pdb|2YP8|A Chain A, Haemagglutinin Of 2005 Human H3n2 Virus In Complex With
Human Receptor Analogue 6sln
pdb|2YP9|A Chain A, Haemagglutinin Of 2005 Human H3n2 Virus In Complex With
Avian Receptor Analogue 3sln
Length = 503
Score = 26.2 bits (56), Expect = 8.7, Method: Composition-based stats.
Identities = 27/105 (25%), Positives = 49/105 (46%), Gaps = 15/105 (14%)
Query: 40 DAKVSILICSSTAKAHEY---ISPSTTTKQLLDLYQKTLRVDLWSSHYEKM--LENLGAV 94
+ K++ LI + K H+ S Q L+ Y + ++DLWS + E + LEN +
Sbjct: 378 NGKLNRLIGKTNEKFHQIEKEFSEVEGRIQDLEKYVEDTKIDLWSYNAELLVALENQHTI 437
Query: 95 EQVNRILKKQIRQRMGESLNDLTLEELTGLEQDILDG-LKIIHEC 138
+ + + K L + T ++L +D+ +G KI H+C
Sbjct: 438 DLTDSEMNK---------LFERTKKQLRENAEDMGNGCFKIYHKC 473
>pdb|2YP2|A Chain A, Haemagglutinin Of 2004 Human H3n2 Virus
pdb|2YP3|A Chain A, Haemagglutinin Of 2004 Human H3n2 Virus In Complex With
Human Receptor Analogue 6sln
pdb|2YP4|A Chain A, Haemagglutinin Of 2004 Human H3n2 Virus In Complex With
Human Receptor Analogue Lstc
pdb|2YP5|A Chain A, Haemagglutinin Of 2004 Human H3n2 Virus In Complex With
Avian Receptor Analogue 3sln
Length = 503
Score = 26.2 bits (56), Expect = 9.3, Method: Composition-based stats.
Identities = 27/105 (25%), Positives = 49/105 (46%), Gaps = 15/105 (14%)
Query: 40 DAKVSILICSSTAKAHEY---ISPSTTTKQLLDLYQKTLRVDLWSSHYEKM--LENLGAV 94
+ K++ LI + K H+ S Q L+ Y + ++DLWS + E + LEN +
Sbjct: 378 NGKLNRLIGKTNEKFHQIEKEFSEVEGRIQDLEKYVEDTKIDLWSYNAELLVALENQHTI 437
Query: 95 EQVNRILKKQIRQRMGESLNDLTLEELTGLEQDILDG-LKIIHEC 138
+ + + K L + T ++L +D+ +G KI H+C
Sbjct: 438 DLTDSEMNK---------LFERTKKQLRENAEDMGNGCFKIYHKC 473
>pdb|1EF1|A Chain A, Crystal Structure Of The Moesin Ferm DomainTAIL DOMAIN
COMPLEX
pdb|1EF1|B Chain B, Crystal Structure Of The Moesin Ferm DomainTAIL DOMAIN
COMPLEX
Length = 294
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 43 VSILICSSTAKAHEYISPSTTTKQLLDLYQKTL 75
+S+ + + A+ I P+TT KQL D KT+
Sbjct: 2 ISVRVTTXDAELEFAIQPNTTGKQLFDQVVKTI 34
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
0.319 0.134 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,902,835
Number of Sequences: 62578
Number of extensions: 133572
Number of successful extensions: 567
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 556
Number of HSP's gapped (non-prelim): 25
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)