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= 047467
(146 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/57 (45%), Positives = 37/57 (64%)
Query: 20 RLITFSKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFGHPSVEAVANRFLGMN 76
R +TFSKR+ GI KKA EL LTG+++ ++V S++G YTF P E + + G N
Sbjct: 32 RHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGRN 88
>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 = 49.7 bits (117), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 20 RLITFSKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFG 61
R TFSKR++GI KKA EL TLTG+++ ++V S++G YTF
Sbjct: 25 RYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA 66
>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 = 49.7 bits (117), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 20 RLITFSKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFG 61
R TFSKR++GI KKA EL TLTG+++ ++V S++G YTF
Sbjct: 26 RYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA 67
>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 = 47.0 bits (110), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 35/58 (60%)
Query: 20 RLITFSKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFGHPSVEAVANRFLGMNH 77
R +TF+KR+ G+ KKA EL L +EIA+++F+ S K + + ++ V ++ N
Sbjct: 16 RQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNE 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 = 45.8 bits (107), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 34/58 (58%)
Query: 20 RLITFSKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFGHPSVEAVANRFLGMNH 77
R +TF+KR+ G+ KKA EL L EIA+++F+ S K + + ++ V ++ N
Sbjct: 16 RQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNE 73
>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 = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 34/58 (58%)
Query: 20 RLITFSKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFGHPSVEAVANRFLGMNH 77
R +TF+KR+ G+ KKA EL L EIA+++F+ S K + + ++ V ++ N
Sbjct: 16 RQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNE 73
>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 = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 33/53 (62%)
Query: 20 RLITFSKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFGHPSVEAVANRF 72
R +TF+KR+ G+ KKA EL L EIA+++F+ S K + + ++ V ++
Sbjct: 16 RQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKY 68
>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 = 9e-05, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 33/53 (62%)
Query: 20 RLITFSKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFGHPSVEAVANRF 72
R +TF+KR+ G+ KKA EL L EIA+++F+ + + + + ++ V ++
Sbjct: 17 RQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTDMDRVLLKY 69
>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 = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 33/53 (62%)
Query: 20 RLITFSKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFGHPSVEAVANRF 72
R +TF+KR+ G+ KKA EL L EIA+++F+ + + + + ++ V ++
Sbjct: 16 RQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTDMDRVLLKY 68
>pdb|3EK1|A Chain A, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|B Chain B, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|C Chain C, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|D Chain D, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|E Chain E, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|F Chain F, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|G Chain G, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|H Chain H, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
Length = 504
Score = 30.8 bits (68), Expect = 0.28, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 22/33 (66%)
Query: 25 SKRRSGIYKKACELVTLTGSEIAVVVFSQSGKP 57
+K R+GI +K +L+ +IA+++ S+ GKP
Sbjct: 91 AKERAGILRKWFDLIIANADDIALIMTSEQGKP 123
>pdb|3U66|A Chain A, Crystal Structure Of T6ss ScipTSSL FROM ESCHERICHIA COLI
Enteroaggregative 042
Length = 183
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 30 GIYKKACELVTLTGSEIAVVVFSQSGKP---YTFGHPSVEAVANR 71
+Y++AC+LV E+A FSQ Y F E+V NR
Sbjct: 34 ALYRRACQLVKQAREELAEAGFSQKSSDIXLYAFCALLDESVLNR 78
>pdb|1ZI0|A Chain A, A Superhelical Spiral In Escherichia Coli Dna Gyrase A C-
Terminal Domain Imparts Unidirectional Supercoiling Bias
pdb|1ZI0|B Chain B, A Superhelical Spiral In Escherichia Coli Dna Gyrase A C-
Terminal Domain Imparts Unidirectional Supercoiling Bias
Length = 307
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 39 VTLTGSEIAVVVFSQSGKPYTFGHPSVEAVANRFLGMNHL---PNDNIHSLVV 88
V LT E V++FS GK F SV A+ G+ + D + SL+V
Sbjct: 151 VDLTSGEDEVMLFSAEGKVVRFKESSVRAMGCNTTGVRGIRLGEGDKVVSLIV 203
>pdb|3L6V|A Chain A, Crystal Structure Of The Xanthomonas Campestris Gyrase A
C- Terminal Domain
pdb|3L6V|B Chain B, Crystal Structure Of The Xanthomonas Campestris Gyrase A
C- Terminal Domain
Length = 370
Score = 26.6 bits (57), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 39 VTLTGSEIAVVVFSQSGKPYTFGHPSVEAVANRFLGMNHL---PNDNIHSLVVGHR 91
V LT + V++F+ +GK FG +V ++ G+ + + + SL+V R
Sbjct: 155 VALTDGDRDVLLFASNGKTVRFGESTVRSMGRTATGVRGIRLAKGEEVVSLIVSER 210
>pdb|2W8P|A Chain A, The Crystal Structure Of Human C340a Ssadh
pdb|2W8Q|A Chain A, The Crystal Structure Of Human Ssadh In Complex With Ssa.
pdb|2W8R|A Chain A, The Crystal Structure Of Human Ssadh In Complex With Nad+
Length = 487
Score = 26.2 bits (56), Expect = 7.4, Method: Composition-based stats.
Identities = 11/41 (26%), Positives = 22/41 (53%)
Query: 25 SKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFGHPSV 65
+K RS + +K L+ ++A ++ ++SGKP H +
Sbjct: 69 AKERSSLLRKWYNLMIQNKDDLARIITAESGKPLKEAHGEI 109
>pdb|2W8N|A Chain A, The Crytal Structure Of The Oxidized Form Of Human Ssadh
pdb|2W8O|A Chain A, The Crystal Structure Of The Reduced Form Of Human Ssadh
Length = 487
Score = 26.2 bits (56), Expect = 7.4, Method: Composition-based stats.
Identities = 11/41 (26%), Positives = 22/41 (53%)
Query: 25 SKRRSGIYKKACELVTLTGSEIAVVVFSQSGKPYTFGHPSV 65
+K RS + +K L+ ++A ++ ++SGKP H +
Sbjct: 69 AKERSSLLRKWYNLMIQNKDDLARIITAESGKPLKEAHGEI 109
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
0.320 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,303,214
Number of Sequences: 62578
Number of extensions: 103108
Number of successful extensions: 276
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 264
Number of HSP's gapped (non-prelim): 15
length of query: 146
length of database: 14,973,337
effective HSP length: 90
effective length of query: 56
effective length of database: 9,341,317
effective search space: 523113752
effective search space used: 523113752
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: 46 (22.3 bits)