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= 038824
(187 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 82.8 bits (203), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 35/69 (50%), Positives = 52/69 (75%)
Query: 18 RCGKSCRLRWTNYLRPDLKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNY 77
R GK CR RW N+L P++K S+T +E+ +I + H +G+RW+ IA+ LPGRTDN VKN+
Sbjct: 60 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNH 119
Query: 78 WNTKLRKKL 86
WN+ +R+K+
Sbjct: 120 WNSTMRRKV 128
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 82.4 bits (202), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 34/69 (49%), Positives = 51/69 (73%)
Query: 18 RCGKSCRLRWTNYLRPDLKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNY 77
R GK CR RW N+L P++K S+T +E+ +I H +G+RW+ IA+ LPGRTDN VKN+
Sbjct: 40 RLGKQCRERWHNHLNPEVKKSSWTEEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNH 99
Query: 78 WNTKLRKKL 86
WN+ +++K+
Sbjct: 100 WNSTIKRKV 108
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 33 PDLKHESFTPQEEEMIIRLHAAIGSR-WSIIAQQLPGRTDNDVKNYWNTKL 82
PDL +T +E++ +I L G++ W++IA+ L GR + W+ L
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHL 53
>pdb|1H88|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex1
pdb|1H89|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex2
Length = 159
Score = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 34/69 (49%), Positives = 52/69 (75%)
Query: 18 RCGKSCRLRWTNYLRPDLKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNY 77
R GK CR RW N+L P++K S+T +E+ +I + H +G+RW+ IA+ LPGRTDN +KN+
Sbjct: 91 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 150
Query: 78 WNTKLRKKL 86
WN+ +R+K+
Sbjct: 151 WNSTMRRKV 159
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 40 FTPQEEEMIIRLHAAIGSR-WSIIAQQLPGRTDNDVKNYWNTKLRKKLTEMGIDPVTHKP 98
+T +E+E + +L G+ W +IA LP RTD ++ W L +L + +
Sbjct: 9 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELIKGPWTKEEDQR 68
Query: 99 FSQILADYG 107
+++ YG
Sbjct: 69 VIKLVQKYG 77
>pdb|1MSE|C Chain C, Solution Structure Of A Specific Dna Complex Of The Myb
Dna- Binding Domain With Cooperative Recognition Helices
pdb|1MSF|C Chain C, Solution Structure Of A Specific Dna Complex Of The Myb
Dna- Binding Domain With Cooperative Recognition Helices
Length = 105
Score = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 34/69 (49%), Positives = 52/69 (75%)
Query: 18 RCGKSCRLRWTNYLRPDLKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNY 77
R GK CR RW N+L P++K S+T +E+ +I + H +G+RW+ IA+ LPGRTDN +KN+
Sbjct: 37 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 96
Query: 78 WNTKLRKKL 86
WN+ +R+K+
Sbjct: 97 WNSTMRRKV 105
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 40 FTPQEEEMIIRLHAAIG-SRWSIIAQQLPGRTDNDVKNYWNTKL 82
+T +E++ +I+L G RWS+IA+ L GR + W+ L
Sbjct: 7 WTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 50
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 81.6 bits (200), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 34/69 (49%), Positives = 52/69 (75%)
Query: 18 RCGKSCRLRWTNYLRPDLKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNY 77
R GK CR RW N+L P++K S+T +E+ +I + H +G+RW+ IA+ LPGRTDN +KN+
Sbjct: 37 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 96
Query: 78 WNTKLRKKL 86
WN+ +R+K+
Sbjct: 97 WNSTMRRKV 105
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 40 FTPQEEEMIIRLHAAIG-SRWSIIAQQLPGRTDNDVKNYWNTKL 82
+T +E++ +I+L G RWS+IA+ L GR + W+ L
Sbjct: 7 WTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 50
>pdb|3ZQC|A Chain A, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
pdb|3ZQC|D Chain D, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
pdb|3ZQC|G Chain G, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
pdb|3ZQC|J Chain J, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
Length = 131
Score = 78.2 bits (191), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 50/70 (71%)
Query: 18 RCGKSCRLRWTNYLRPDLKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNY 77
R K CR RW N+L P + ++TP+E+E I R + +GS+WS+IA+ +PGRTDN +KN
Sbjct: 35 RSPKQCRERWFNHLDPAVVKHAWTPEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNR 94
Query: 78 WNTKLRKKLT 87
WN+ + K+++
Sbjct: 95 WNSSISKRIS 104
>pdb|3OSF|A Chain A, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSF|D Chain D, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSG|A Chain A, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-1-12 Dna
pdb|3OSG|D Chain D, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-1-12 Dna
Length = 126
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 39/63 (61%)
Query: 18 RCGKSCRLRWTNYLRPDLKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNY 77
R + CR RW NYL P + H +T +E+ ++++ G +W+IIA+ PGRTD +KN
Sbjct: 43 RNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNR 102
Query: 78 WNT 80
W T
Sbjct: 103 WVT 105
Score = 39.7 bits (91), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 32/72 (44%)
Query: 36 KHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNYWNTKLRKKLTEMGIDPVT 95
K + FTP+E+EM+ R A GS W +IA P R ++ W L ++
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEE 69
Query: 96 HKPFSQILADYG 107
Q + +YG
Sbjct: 70 DALLVQKIQEYG 81
>pdb|1IDY|A Chain A, Structure Of Myb Transforming Protein, Nmr, Minimized
Average Structure
pdb|1IDZ|A Chain A, Structure Of Myb Transforming Protein, Nmr, 20
Structures
Length = 54
Score = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 41/53 (77%)
Query: 34 DLKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNYWNTKLRKKL 86
++K S+T +E+ ++ + H +G+RW+ IA+ LPGRTDN +KN+WN+ +R+K+
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>pdb|1MBJ|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 3
pdb|1MBK|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 3
Length = 53
Score = 59.3 bits (142), Expect = 1e-09, Method: Composition-based stats.
Identities = 24/52 (46%), Positives = 40/52 (76%)
Query: 35 LKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNYWNTKLRKKL 86
+K S+T +E+ +I + H +G+RW+ IA+ LPGRTDN +KN+WN+ +R+K+
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>pdb|2K9N|A Chain A, Solution Nmr Structure Of The R2r3 Dna Binding Domain Of
Myb1 Protein From Protozoan Parasite Trichomonas
Vaginalis
pdb|2KDZ|A Chain A, Structure Of The R2r3 Dna Binding Domain Of Myb1 Protein
From Protozoan Parasite Trichomonas Vaginalis In
Complex With Mre-1MRE-2r Dna
Length = 107
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 41/61 (67%)
Query: 18 RCGKSCRLRWTNYLRPDLKHESFTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNY 77
R + CR RW NY+ P L+ + ++P+E+ ++ + +A G +W+ I++ L R+DN+++N
Sbjct: 34 RNPRQCRERWNNYINPALRTDPWSPEEDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNR 93
Query: 78 W 78
W
Sbjct: 94 W 94
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 33.1 bits (74), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 40 FTPQEEEMIIRLHAAIG-SRWSIIAQQLPGRTDNDVKNYWNTKL 82
+T +E++ +I+L G RWS+IA+ L GR + W+ L
Sbjct: 6 WTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 18 RCGKSCRLRWTNYLRPD 34
R GK CR RW N+L P+
Sbjct: 36 RIGKQCRERWHNHLNPE 52
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 40 FTPQEEEMIIRLHAAIG-SRWSIIAQQLPGRTDNDVKNYWNTKL 82
+T +E++ +I+L G RWS+IA+ L GR + W+ L
Sbjct: 6 WTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 18 RCGKSCRLRWTNYLRPD 34
R GK CR RW N+L P+
Sbjct: 36 RIGKQCRERWHNHLNPE 52
>pdb|1MBG|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 2
pdb|1MBH|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 2
Length = 53
Score = 32.0 bits (71), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 40 FTPQEEEMIIRLHAAIG-SRWSIIAQQLPGRTDNDVKNYWNTKL 82
+T +E++ +I L G RWS+IA+ L GR + W+ L
Sbjct: 6 WTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 18 RCGKSCRLRWTNYLRPD 34
R GK CR RW N+L P+
Sbjct: 36 RIGKQCRERWHNHLNPE 52
>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915
Protein
Length = 72
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 40 FTPQEEEMIIRLHAAIGSRWSIIAQQLPGRTDNDVKNYWNTKLRKKLTEMGIDPVT 95
+T +E+E+ + A G RW+ I++ + RT VK+Y + K+ + G+D T
Sbjct: 12 WTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKV-KCGLDKET 66
>pdb|1MBE|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 1
pdb|1MBF|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 1
Length = 53
Score = 27.3 bits (59), Expect = 5.2, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 40 FTPQEEEMIIRLHAAIGSR-WSIIAQQLPGRTDNDVKNYWNTKL 82
+T +E+E + +L G+ W +IA LP RTD ++ W L
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVL 49
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 27.3 bits (59), Expect = 5.2, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 40 FTPQEEEMIIRLHAAIGSR-WSIIAQQLPGRTDNDVKNYWNTKL 82
+T +E+E + +L G+ W +IA LP RTD ++ W L
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVL 49
>pdb|2PNQ|A Chain A, Crystal Structure Of Pyruvate Dehydrogenase Phosphatase 1
(Pdp1)
pdb|2PNQ|B Chain B, Crystal Structure Of Pyruvate Dehydrogenase Phosphatase 1
(Pdp1)
Length = 467
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 66 LPGRTDNDVKNYWNTKLRKKLTEMGIDPVTHKPFSQIL 103
+P R DVK W+ L+K++ E G D + +++ +
Sbjct: 277 MPFRAFGDVKFKWSIDLQKRVIESGPDQLNDNEYTKFI 314
>pdb|3MQ3|A Chain A, Crystal Structure Of Native Bovine Pdp1c
pdb|3N3C|A Chain A, Crystal Structure Of Native Bovine Pdp1c
Length = 467
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 66 LPGRTDNDVKNYWNTKLRKKLTEMGIDPVTHKPFSQIL 103
+P R DVK W+ L+K++ E G D + +++ +
Sbjct: 277 MPFRAFGDVKFKWSIDLQKRVIESGPDQLNDNEYTKFI 314
>pdb|2FSZ|A Chain A, A Second Binding Site For Hydroxytamoxifen Within The
Coactivator-Binding Groove Of Estrogen Receptor Beta
pdb|2FSZ|B Chain B, A Second Binding Site For Hydroxytamoxifen Within The
Coactivator-Binding Groove Of Estrogen Receptor Beta
Length = 246
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 152 HLMTMVSPNVEPIKDTLLNHYNDH 175
HL+ M S NV P+ D LL N H
Sbjct: 219 HLLNMKSKNVVPVYDLLLEMLNAH 242
>pdb|2LTP|A Chain A, Solution Structure Of The Sant2 Domain Of The Human
Nuclear Receptor Corepressor 2 (Ncor2), Northeast
Structural Genomics Consortium (Nesg) Target Id Hr4636e
Length = 89
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 5/61 (8%)
Query: 32 RPDLKHESFTPQEEEMIIRLHAAI--GSRWSIIAQQLPGRTDNDVKN-YWNTKLRKKLTE 88
R +L + +T EEEM + G WS IA+ + +T + KN Y+N K R+ L E
Sbjct: 11 RENLYFQGWT--EEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNYKKRQNLDE 68
Query: 89 M 89
+
Sbjct: 69 I 69
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 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,978,293
Number of Sequences: 62578
Number of extensions: 236561
Number of successful extensions: 494
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 464
Number of HSP's gapped (non-prelim): 32
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
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: 48 (23.1 bits)