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= 046093
(474 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 = 80.9 bits (198), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 40/105 (38%), Positives = 62/105 (59%), Gaps = 1/105 (0%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNXX 71
L KG WT +ED+ + +++Q G + W + K R GK CR RW N+L ++++ +
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 83
Query: 72 XXXXXXXXKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKI 116
+ H LGNRW+ IA LPGRTDN +KN+WN+ + +K+
Sbjct: 84 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
>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 = 3e-15, Method: Compositional matrix adjust.
Identities = 42/105 (40%), Positives = 62/105 (59%), Gaps = 1/105 (0%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNXX 71
L KG WT +ED+ + K +Q G + W S+ K R GK CR RW N+L ++++ +
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRW-SVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWT 114
Query: 72 XXXXXXXXKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKI 116
+ H LGNRW+ IA LPGRTDN +KN+WN+ + +K+
Sbjct: 115 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 42/105 (40%), Positives = 62/105 (59%), Gaps = 1/105 (0%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNXX 71
L KG WT +ED+ + K +Q G + W S+ K R GK CR RW N+L ++++ +
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRW-SVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWT 60
Query: 72 XXXXXXXXKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKI 116
+ H LGNRW+ IA LPGRTDN +KN+WN+ + +K+
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>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 = 5e-15, Method: Compositional matrix adjust.
Identities = 42/105 (40%), Positives = 62/105 (59%), Gaps = 1/105 (0%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNXX 71
L KG WT +ED+ + K +Q G + W S+ K R GK CR RW N+L ++++ +
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRW-SVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWT 60
Query: 72 XXXXXXXXKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKI 116
+ H LGNRW+ IA LPGRTDN +KN+WN+ + +K+
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 41/107 (38%), Positives = 63/107 (58%), Gaps = 1/107 (0%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNXX 71
L KG WT +ED+ + + ++ G + W +L K R GK CR RW N+L ++++ +
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQW-TLIAKHLKGRLGKQCRERWHNHLNPEVKKSSWT 63
Query: 72 XXXXXXXXKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKIHT 118
+ H LGNRW+ IA LPGRTDN +KN+WN+ + +K+ T
Sbjct: 64 EEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKVDT 110
>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 = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 40/107 (37%), Positives = 62/107 (57%), Gaps = 5/107 (4%)
Query: 14 KGKWTAKEDEILTKYIQANGIESWRSLPKKAGLL--RCGKSCRLRWVNYLRTDLRRGNXX 71
KG +T ED+++ +Y++ NG ++W P+ L R K CR RW N+L + +
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAWT 58
Query: 72 XXXXXXXXKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKIHT 118
+ + LG++WSVIA +PGRTDN +KN WN+ +SK+I T
Sbjct: 59 PEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRIST 105
>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 = 53.1 bits (126), Expect = 3e-07, Method: Composition-based stats.
Identities = 32/102 (31%), Positives = 47/102 (46%), Gaps = 10/102 (9%)
Query: 13 KKGKWTAKEDEILTKYIQANGIESWR----SLPKKAGLLRCGKSCRLRWVNYLRTDLRRG 68
KK K+T +EDE+L + + +G W+ + P R + CR RW NYL +
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHG-SDWKMIAATFPN-----RNARQCRDRWKNYLAPSISHT 63
Query: 69 NXXXXXXXXXXKLHASLGNRWSVIASHLPGRTDNELKNYWNT 110
+ G +W++IA PGRTD +KN W T
Sbjct: 64 PWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 105
>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 = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 20/35 (57%), Positives = 27/35 (77%)
Query: 82 HASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKI 116
H LGNRW+ IA LPGRTDN +KN+WN+ + +K+
Sbjct: 20 HKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 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 = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/35 (57%), Positives = 27/35 (77%)
Query: 82 HASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKI 116
H LGNRW+ IA LPGRTDN +KN+WN+ + +K+
Sbjct: 18 HKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 1/95 (1%)
Query: 14 KGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNXXXX 73
K K+T +ED L + + G + W + + + R + CR RW NY+ LR
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQ-LMITRNPRQCRERWNNYINPALRTDPWSPE 59
Query: 74 XXXXXXKLHASLGNRWSVIASHLPGRTDNELKNYW 108
+ +A G +W+ I+ L R+DN ++N W
Sbjct: 60 EDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 41.6 bits (96), Expect = 9e-04, Method: Composition-based stats.
Identities = 22/50 (44%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYL 61
L KG WT +ED+ L K +Q G + W + K R GK CR RW N+L
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHL 49
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 88 RWSVIASHLPGRTDNELKNYWNTHLS 113
RWSVIA HL GR + + W+ HL+
Sbjct: 25 RWSVIAKHLKGRIGKQCRERWHNHLN 50
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 21/50 (42%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYL 61
L KG WT +ED+ + K +Q G + W + K R GK CR RW N+L
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHL 49
Score = 34.3 bits (77), Expect = 0.17, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 88 RWSVIASHLPGRTDNELKNYWNTHLS 113
RWSVIA HL GR + + W+ HL+
Sbjct: 25 RWSVIAKHLKGRIGKQCRERWHNHLN 50
>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 = 38.9 bits (89), Expect = 0.007, Method: Composition-based stats.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTD 64
L KG WT +ED+ + + +Q G + W + K R GK CR RW N+L +
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 33.9 bits (76), Expect = 0.20, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 88 RWSVIASHLPGRTDNELKNYWNTHLS 113
RWSVIA HL GR + + W+ HL+
Sbjct: 25 RWSVIAKHLKGRIGKQCRERWHNHLN 50
>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 = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLL--RCGKSCRLRWVNYL 61
L K +WT +EDE L K ++ NG + W+ + A L R C+ RW L
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVI---ANYLPNRTDVQCQHRWQKVL 49
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLL--RCGKSCRLRWVNYL 61
L K +WT +EDE L K ++ NG + W+ + A L R C+ RW L
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVI---ANYLPNRTDVQCQHRWQKVL 49
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 29.6 bits (65), Expect = 4.0, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 14 KGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYL 61
K KWT +EDE L ++ G + W+ L R + C+ RW+ L
Sbjct: 8 KVKWTHEEDEQLRALVRQFGQQDWKFLASHFP-NRTDQQCQYRWLRVL 54
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
0.311 0.127 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,411,952
Number of Sequences: 62578
Number of extensions: 447650
Number of successful extensions: 744
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 694
Number of HSP's gapped (non-prelim): 28
length of query: 474
length of database: 14,973,337
effective HSP length: 102
effective length of query: 372
effective length of database: 8,590,381
effective search space: 3195621732
effective search space used: 3195621732
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)