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= 023677
(279 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/69 (50%), Positives = 50/69 (72%)
Query: 67 RTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNY 126
R GK CR RW N+L+P +K+ T +E+R++ + H + GNRW+ IA+ LPGRTDN IKN+
Sbjct: 91 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 150
Query: 127 WRTHMRKKA 135
W + MR+K
Sbjct: 151 WNSTMRRKV 159
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/69 (50%), Positives = 50/69 (72%)
Query: 67 RTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNY 126
R GK CR RW N+L+P +K+ T +E+R++ + H + GNRW+ IA+ LPGRTDN IKN+
Sbjct: 37 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 96
Query: 127 WRTHMRKKA 135
W + MR+K
Sbjct: 97 WNSTMRRKV 105
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 84 LKRGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHM 131
L +G T +E++ V++L K+G RWS IA+ L GR + + W H+
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 50
>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 = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/69 (50%), Positives = 50/69 (72%)
Query: 67 RTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNY 126
R GK CR RW N+L+P +K+ T +E+R++ + H + GNRW+ IA+ LPGRTDN IKN+
Sbjct: 37 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 96
Query: 127 WRTHMRKKA 135
W + MR+K
Sbjct: 97 WNSTMRRKV 105
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 84 LKRGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHM 131
L +G T +E++ V++L K+G RWS IA+ L GR + + W H+
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 50
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 34/69 (49%), Positives = 50/69 (72%)
Query: 67 RTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNY 126
R GK CR RW N+L+P +K+ T +E+R++ + H + GNRW+ IA+ LPGRTDN +KN+
Sbjct: 60 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNH 119
Query: 127 WRTHMRKKA 135
W + MR+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 = 78.2 bits (191), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 33/69 (47%), Positives = 49/69 (71%)
Query: 67 RTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNY 126
R GK CR RW N+L+P +K+ T +E+R++ E H GNRW+ IA+ LPGRTDN +KN+
Sbjct: 40 RLGKQCRERWHNHLNPEVKKSSWTEEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNH 99
Query: 127 WRTHMRKKA 135
W + +++K
Sbjct: 100 WNSTIKRKV 108
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 82 PGLKRGKMTPQEERLVLELHAKWGNR-WSRIARKLPGRTDNEIKNYWRTHM 131
P L +G T +E++ V+EL K+G + W+ IA+ L GR + + W H+
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHL 53
>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 = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 30/69 (43%), Positives = 45/69 (65%)
Query: 66 NRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 125
NR+ K CR RW N+L P + + TP+E+ + + K G++WS IA+ +PGRTDN IKN
Sbjct: 34 NRSPKQCRERWFNHLDPAVVKHAWTPEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKN 93
Query: 126 YWRTHMRKK 134
W + + K+
Sbjct: 94 RWNSSISKR 102
>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 = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 54/84 (64%)
Query: 56 NYMKYFVVGLNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARKL 115
++++ + + R + CR RW NY++P L+ +P+E+ L+ + +A++G +W++I++ L
Sbjct: 23 DWIRISQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQKYAEYGPKWNKISKFL 82
Query: 116 PGRTDNEIKNYWRTHMRKKAQERK 139
R+DN I+N W R +A+ +K
Sbjct: 83 KNRSDNNIRNRWMMIARHRAKHQK 106
>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 = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/64 (42%), Positives = 39/64 (60%)
Query: 66 NRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 125
NR + CR RW NYL P + T +E+ L+++ ++G +W+ IA+ PGRTD IKN
Sbjct: 42 NRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKN 101
Query: 126 YWRT 129
W T
Sbjct: 102 RWVT 105
Score = 31.6 bits (70), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 26/47 (55%)
Query: 85 KRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHM 131
K+ K TP+E+ ++ A+ G+ W IA P R + ++ W+ ++
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYL 56
>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 = 2e-09, Method: Compositional matrix adjust.
Identities = 25/52 (48%), Positives = 38/52 (73%)
Query: 84 LKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKA 135
+K+ T +E+R++ + H + GNRW+ IA+ LPGRTDN IKN+W + MR+K
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>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 = 58.5 bits (140), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 25/52 (48%), Positives = 38/52 (73%)
Query: 84 LKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKA 135
+K+ T +E+R++ + H + GNRW+ IA+ LPGRTDN IKN+W + MR+K
Sbjct: 3 VKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>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 = 36.6 bits (83), Expect = 0.014, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 84 LKRGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHM 131
L +G T +E++ V+EL K+G RWS IA+ L GR + + W H+
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 35.0 bits (79), Expect = 0.043, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 84 LKRGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHM 131
L +G T +E++ V++L K+G RWS IA+ L GR + + W H+
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915
Protein
Length = 72
Score = 33.9 bits (76), Expect = 0.091, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 31/49 (63%)
Query: 88 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKAQ 136
K T +E+ L + AK+G RW++I++ + RT ++K+Y R + + K +
Sbjct: 11 KWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVK 59
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 33.9 bits (76), Expect = 0.098, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 84 LKRGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHM 131
L +G T +E++ +++L K+G RWS IA+ L GR + + W H+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|2LLK|A Chain A, Solution Nmr Structure Of The N-Terminal Myb-Like 1 Domain
Of The Human Cyclin-D-Binding Transcription Factor 1
(Hdmp1), Northeast Structural Genomics Consortium (Nesg)
Target Id Hr8011a
Length = 73
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 87 GKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWR 128
GK TP+E + EL K GN W+ I L GR+ + +K+ R
Sbjct: 24 GKYTPEEIEKLKELRIKHGNDWATIGAAL-GRSASSVKDRCR 64
>pdb|1N8Y|C Chain C, Crystal Structure Of The Extracellular Region Of Rat Her2
Length = 608
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 27/68 (39%), Gaps = 7/68 (10%)
Query: 184 ETRVAAALVEEYETSCYSMDDIWKDIELSEEKIMKQDGNGNVNFACPSPMAAPA-----C 238
E L+ CY +WKD+ ++ D + N + ACP APA C
Sbjct: 126 EILKGGVLIRGNPQLCYQDMVLWKDVFRKNNQLAPVDIDTNRSRACPP--CAPACKDNHC 183
Query: 239 WGYSSWDS 246
WG S D
Sbjct: 184 WGESPEDC 191
>pdb|2BMM|A Chain A, X-Ray Structure Of A Novel Thermostable Hemoglobin From
The Actinobacterium Thermobifida Fusca
Length = 123
Score = 27.3 bits (59), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 25/62 (40%), Gaps = 9/62 (14%)
Query: 80 LHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARK---------LPGRTDNEIKNYWRTH 130
L P + P EERL L L WG + R+ P R E ++ W TH
Sbjct: 30 LRPMYPEEDLGPAEERLRLFLMQYWGGPRTYSERRGHPRLRMRHFPYRIGAEERDRWLTH 89
Query: 131 MR 132
MR
Sbjct: 90 MR 91
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 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,787,401
Number of Sequences: 62578
Number of extensions: 344326
Number of successful extensions: 873
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 840
Number of HSP's gapped (non-prelim): 31
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
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: 51 (24.3 bits)