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= 040726
(375 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 99.8 bits (247), Expect = 2e-21, Method: Composition-based stats.
Identities = 47/105 (44%), Positives = 66/105 (62%), Gaps = 1/105 (0%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIA 91
L +GPWT EED+ + + K G RW + K R GK CR RW N+L P VK+
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 60
Query: 92 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKL 136
+E+ +I + H+ LGNRW+ IA +PGRTDN IKN+WN+ + +K+
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 99.4 bits (246), Expect = 3e-21, Method: Composition-based stats.
Identities = 47/105 (44%), Positives = 66/105 (62%), Gaps = 1/105 (0%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIA 91
L +GPWT EED+ + + K G RW + K R GK CR RW N+L P VK+
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 60
Query: 92 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKL 136
+E+ +I + H+ LGNRW+ IA +PGRTDN IKN+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 = 99.4 bits (246), Expect = 3e-21, Method: Composition-based stats.
Identities = 45/105 (42%), Positives = 66/105 (62%), Gaps = 1/105 (0%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIA 91
L +GPWT EED+ + + K G +W + K R GK CR RW N+L P VK+
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG-RLGKQCRERWHNHLNPEVKKSSWT 63
Query: 92 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKL 136
+E+ +I H++LGNRW+ IA +PGRTDN +KN+WN+ + +K+
Sbjct: 64 EEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 98.2 bits (243), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 46/105 (43%), Positives = 67/105 (63%), Gaps = 1/105 (0%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIA 91
L +GPWT EED+ + ++ K G RW + K R GK CR RW N+L P VK+
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 83
Query: 92 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKL 136
+E+ +I + H+ LGNRW+ IA +PGRTDN +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 = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 47/105 (44%), Positives = 66/105 (62%), Gaps = 1/105 (0%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIA 91
L +GPWT EED+ + + K G RW + K R GK CR RW N+L P VK+
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 114
Query: 92 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKL 136
+E+ +I + H+ LGNRW+ IA +PGRTDN IKN+WN+ + +K+
Sbjct: 115 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>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 = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 45/105 (42%), Positives = 66/105 (62%), Gaps = 5/105 (4%)
Query: 34 RGPWTPEEDELLANYINKEGEGRWRTLPKRAGLL--RCGKSCRLRWMNYLRPSVKRGHIA 91
+GP+T ED+L+ Y+ + G W P+ L R K CR RW N+L P+V +
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAWT 58
Query: 92 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKL 136
P+E++ I R + LG++WS+IA IPGRTDN IKN WN+ +SK++
Sbjct: 59 PEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRI 103
>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 = 69.3 bits (168), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 46/121 (38%), Positives = 66/121 (54%), Gaps = 15/121 (12%)
Query: 33 KRGPWTPEEDELLANYINKEGEGRWR----TLPKRAGLLRCGKSCRLRWMNYLRPSVKRG 88
K+ +TPEEDE+L + + G W+ T P R + CR RW NYL PS+
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSD-WKMIAATFPNRNA-----RQCRDRWKNYLAPSISHT 63
Query: 89 HIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKLISQGIDPRTHKP 148
+E+ L+++ + G +W++IA PGRTD IKN W T +S KL GI P+T +
Sbjct: 64 PWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT-ISNKL---GI-PQTQQM 118
Query: 149 L 149
L
Sbjct: 119 L 119
Score = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 32/71 (45%), Gaps = 8/71 (11%)
Query: 84 SVKRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKLISQGIDP 143
+ K+ P+E++++ R G+ W +IA P R + ++ W +L+ +
Sbjct: 8 AAKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLAPSI------- 60
Query: 144 RTHKPLNQELD 154
+H P E D
Sbjct: 61 -SHTPWTAEED 70
>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 = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 37/52 (71%)
Query: 85 VKRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKL 136
VK+ +E+ +I + H+ LGNRW+ IA +PGRTDN IKN+WN+ + +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 = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 37/52 (71%)
Query: 85 VKRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLSKKL 136
VK+ +E+ ++ + H+ LGNRW+ IA +PGRTDN IKN+WN+ + +K+
Sbjct: 3 VKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 50.8 bits (120), Expect = 1e-06, Method: Composition-based stats.
Identities = 24/52 (46%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRP 83
L +GPWT EED+ L + K G RW + K R GK CR RW N+L P
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 87 RGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLS 133
+G +E+ +++L + G RWS+IA + GR + + W+ HL+
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLN 50
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 49.7 bits (117), Expect = 3e-06, Method: Composition-based stats.
Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRP 83
L +GPWT EED+ + + K G RW + K R GK CR RW N+L P
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 87 RGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLS 133
+G +E+ +++L + G RWS+IA + GR + + W+ HL+
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLN 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 = 49.3 bits (116), Expect = 3e-06, Method: Composition-based stats.
Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRP 83
L +GPWT EED+ + + K G RW + K R GK CR RW N+L P
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 30.0 bits (66), Expect = 2.2, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 87 RGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLS 133
+G +E+ ++ L + G RWS+IA + GR + + W+ HL+
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLN 50
>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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 49/91 (53%), Gaps = 1/91 (1%)
Query: 38 TPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYLRPSVKRGHIAPDEEDL 97
T EED L + + G W + + + R + CR RW NY+ P+++ +P+E+ L
Sbjct: 5 TEEEDLKLQQLVMRYGAKDWIRISQ-LMITRNPRQCRERWNNYINPALRTDPWSPEEDML 63
Query: 98 ILRLHRLLGNRWSLIAGRIPGRTDNEIKNYW 128
+ + + G +W+ I+ + R+DN I+N W
Sbjct: 64 LDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 35.8 bits (81), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 37 WTPEEDELLANYINKEGEGRWRTLPKRAGLL--RCGKSCRLRWMNYLRPSVKR 87
W EDE+L + K G+ +W + A LL + K C+ RW +L PS+K+
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRI---ASLLHRKSAKQCKARWYEWLDPSIKK 61
>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 = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 9/56 (16%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRT----LPKRAGLLRCGKSCRLRWMNYLRP 83
L + WT EEDE L + + G W+ LP R + C+ RW L P
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDV-----QCQHRWQKVLNP 51
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 9/56 (16%)
Query: 32 LKRGPWTPEEDELLANYINKEGEGRWRT----LPKRAGLLRCGKSCRLRWMNYLRP 83
L + WT EEDE L + + G W+ LP R + C+ RW L P
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDV-----QCQHRWQKVLNP 51
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 37 WTPEEDELLANYINKEGEGRWRTLPKRAGLLRCGKSCRLRWMNYL 81
WT EEDE L + + G+ W+ L R + C+ RW+ L
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHFP-NRTDQQCQYRWLRVL 54
>pdb|2ROH|A Chain A, The Dna Binding Domain Of Rtbp1
Length = 122
Score = 29.3 bits (64), Expect = 3.9, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 34 RGPWTPEEDELLANYINKEGEGRWRTLPKRA 64
R P+T E ELL + G GRWR + RA
Sbjct: 31 RRPFTVAEVELLVEAVEHLGTGRWRDVKFRA 61
>pdb|1W0U|A Chain A, Htrf2 Dna-Binding Domain In Complex With Telomeric Dna.
pdb|1W0U|B Chain B, Htrf2 Dna-Binding Domain In Complex With Telomeric Dna
Length = 55
Score = 28.5 bits (62), Expect = 6.9, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 33 KRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLL-RCGKSCRLRWMNYLR 82
K+ WT EE E + + K GEG W + K + R + RW R
Sbjct: 1 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 51
>pdb|3SJM|A Chain A, Crystal Structure Analysis Of Trf2-Dbd-Dna Complex
pdb|3SJM|B Chain B, Crystal Structure Analysis Of Trf2-Dbd-Dna Complex
Length = 64
Score = 28.1 bits (61), Expect = 8.3, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 33 KRGPWTPEEDELLANYINKEGEGRWRTLPKRAGLL-RCGKSCRLRWMNYLR 82
K+ WT EE E + + K GEG W + K + R + RW R
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 60
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2
Length = 64
Score = 27.7 bits (60), Expect = 9.6, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 33 KRGPWTPEEDELLANYINKEGEGRWRTLPK 62
K+ WT EE E + + K GEG W + K
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISK 39
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
0.313 0.130 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,765,454
Number of Sequences: 62578
Number of extensions: 359202
Number of successful extensions: 562
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 506
Number of HSP's gapped (non-prelim): 40
length of query: 375
length of database: 14,973,337
effective HSP length: 100
effective length of query: 275
effective length of database: 8,715,537
effective search space: 2396772675
effective search space used: 2396772675
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)