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= 036215
(289 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 100 bits (248), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 46/103 (44%), Positives = 68/103 (66%), Gaps = 1/103 (0%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPD 86
KGPWT EED+ + +K+ G QW TL + R GK CR RW N+L P +K+ +
Sbjct: 7 KGPWTKEEDQKVIELVKKYGTKQW-TLIAKHLKGRLGKQCRERWHNHLNPEVKKSSWTEE 65
Query: 87 EEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKL 129
E+ +I H++LGNRW+ IA +PGRTDN +KN+WN+ +++K+
Sbjct: 66 EDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 96.3 bits (238), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 44/105 (41%), Positives = 69/105 (65%), Gaps = 1/105 (0%)
Query: 25 IKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIA 84
+ KGPWT EED+ + ++++ G +W + K R GK CR RW N+L P +K+
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 83
Query: 85 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKL 129
+E+ +I + H+ LGNRW+ IA +PGRTDN +KN+WN+ +R+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 = 95.5 bits (236), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 45/103 (43%), Positives = 67/103 (65%), Gaps = 1/103 (0%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPD 86
KGPWT EED+ + +++ G +W + K R GK CR RW N+L P +K+ +
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWTEE 116
Query: 87 EEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKL 129
E+ +I + H+ LGNRW+ IA +PGRTDN IKN+WN+ +R+K+
Sbjct: 117 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>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 = 95.1 bits (235), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 45/103 (43%), Positives = 67/103 (65%), Gaps = 1/103 (0%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPD 86
KGPWT EED+ + +++ G +W + K R GK CR RW N+L P +K+ +
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 87 EEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKL 129
E+ +I + H+ LGNRW+ IA +PGRTDN IKN+WN+ +R+K+
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 95.1 bits (235), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 45/103 (43%), Positives = 67/103 (65%), Gaps = 1/103 (0%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPD 86
KGPWT EED+ + +++ G +W + K R GK CR RW N+L P +K+ +
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 87 EEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKL 129
E+ +I + H+ LGNRW+ IA +PGRTDN IKN+WN+ +R+K+
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>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 = 89.7 bits (221), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 44/105 (41%), Positives = 65/105 (61%), Gaps = 5/105 (4%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLL--RCGKSCRLRWMNYLRPSIKRGHIA 84
KGP+T ED+++ Y+K G W P+ L R K CR RW N+L P++ +
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAWT 58
Query: 85 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKL 129
P+E++ I R + LG++WS+IA IPGRTDN IKN WN+ + K++
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 = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 40/104 (38%), Positives = 55/104 (52%), Gaps = 10/104 (9%)
Query: 24 GIKKGPWTPEEDEILSNYIKREGEGQWR----TLPKRAGLLRCGKSCRLRWMNYLRPSIK 79
KK +TPEEDE+L + + G W+ T P R + CR RW NYL PSI
Sbjct: 8 AAKKQKFTPEEDEMLKRAVAQHG-SDWKMIAATFPNR-----NARQCRDRWKNYLAPSIS 61
Query: 80 RGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNT 123
+E+ L+++ + G +W++IA PGRTD IKN W T
Sbjct: 62 HTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 105
>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 = 57.4 bits (137), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 38/52 (73%)
Query: 78 IKRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKL 129
+K+ +E+ +I + H+ LGNRW+ IA +PGRTDN IKN+WN+ +R+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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 38/52 (73%)
Query: 78 IKRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKL 129
+K+ +E+ ++ + H+ LGNRW+ IA +PGRTDN IKN+WN+ +R+K+
Sbjct: 3 VKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>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 = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 51/95 (53%), Gaps = 1/95 (1%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPD 86
K +T EED L + R G W + + + R + CR RW NY+ P+++ +P+
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQ-LMITRNPRQCRERWNNYINPALRTDPWSPE 59
Query: 87 EEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYW 121
E+ L+ + + G +W+ I+ + R+DN I+N W
Sbjct: 60 EDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 46.2 bits (108), Expect = 2e-05, Method: Composition-based stats.
Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRP 76
KGPWT EED+ + +++ G +W + K R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
>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 = 46.2 bits (108), Expect = 2e-05, Method: Composition-based stats.
Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRP 76
KGPWT EED+ + +++ G +W + K R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPS 77
KGPWT EED+ L +++ G +W + K R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 30 WTPEEDEILSNYIKREGEGQWRTLPKRAGLL--RCGKSCRLRWMNYLRPSIKR 80
W EDEIL + + G+ QW + A LL + K C+ RW +L PSIK+
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 = 31.6 bits (70), Expect = 0.47, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 9/54 (16%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRT----LPKRAGLLRCGKSCRLRWMNYLRP 76
K WT EEDE L +++ G W+ LP R + C+ RW L P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDV-----QCQHRWQKVLNP 51
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 31.6 bits (70), Expect = 0.47, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 9/54 (16%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRT----LPKRAGLLRCGKSCRLRWMNYLRP 76
K WT EEDE L +++ G W+ LP R + C+ RW L P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDV-----QCQHRWQKVLNP 51
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 30.8 bits (68), Expect = 0.82, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYL 74
K WT EEDE L +++ G+ W+ L R + C+ RW+ L
Sbjct: 8 KVKWTHEEDEQLRALVRQFGQQDWKFLASHFP-NRTDQQCQYRWLRVL 54
>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 = 29.3 bits (64), Expect = 3.0, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 26 KKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLL-RCGKSCRLRWMNYLR 75
KK WT EE E + +++ 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 = 28.9 bits (63), Expect = 3.3, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 26 KKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLL-RCGKSCRLRWMNYLR 75
KK WT EE E + +++ GEG W + K + R + RW R
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 60
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2
Length = 64
Score = 28.9 bits (63), Expect = 3.4, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 26 KKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLL-RCGKSCRLRWMNYLR 75
KK WT EE E + +++ GEG W + K + R + RW R
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 60
>pdb|1XG1|A Chain A, Solution Structure Of Myb-Domain Of Human Trf2
Length = 67
Score = 28.9 bits (63), Expect = 3.7, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 26 KKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLL-RCGKSCRLRWMNYLR 75
KK WT EE E + +++ GEG W + K + R + RW R
Sbjct: 13 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 63
>pdb|1VFC|A Chain A, Solution Structure Of The Dna Complex Of Human Trf2
Length = 63
Score = 28.9 bits (63), Expect = 3.7, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 26 KKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLL-RCGKSCRLRWMNYLR 75
KK WT EE E + +++ GEG W + K + R + RW R
Sbjct: 9 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 59
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
0.318 0.137 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,787,949
Number of Sequences: 62578
Number of extensions: 358661
Number of successful extensions: 643
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 584
Number of HSP's gapped (non-prelim): 42
length of query: 289
length of database: 14,973,337
effective HSP length: 98
effective length of query: 191
effective length of database: 8,840,693
effective search space: 1688572363
effective search space used: 1688572363
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)