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= 029398
(194 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 40.4 bits (93), Expect = 7e-04, Method: Composition-based stats.
Identities = 18/40 (45%), Positives = 28/40 (70%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHLKKK 42
++LY + +RW+ IA LPGRTDN IKN W++ +++K
Sbjct: 14 RILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 53
>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 = 39.7 bits (91), Expect = 0.001, Method: Composition-based stats.
Identities = 16/29 (55%), Positives = 23/29 (79%)
Query: 14 SRWSAIAGRLPGRTDNEIKNVWHTHLKKK 42
+RW+ IA LPGRTDN IKN W++ +++K
Sbjct: 23 NRWAEIAKLLPGRTDNAIKNHWNSTMRRK 51
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/31 (51%), Positives = 23/31 (74%)
Query: 14 SRWSAIAGRLPGRTDNEIKNVWHTHLKKKAA 44
S+WS IA +PGRTDN IKN W++ + K+ +
Sbjct: 74 SKWSVIAKLIPGRTDNAIKNRWNSSISKRIS 104
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 28/41 (68%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHLKKKA 43
+++Y + +RW+ IA LPGRTDN IKN W++ +++K
Sbjct: 119 RIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHL 39
+V+ L+ RWS IA L GR + + WH HL
Sbjct: 68 RVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 104
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 28/41 (68%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHLKKKA 43
+++Y + +RW+ IA LPGRTDN IKN W++ +++K
Sbjct: 65 RIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHL 39
+V+ L+ RWS IA L GR + + WH HL
Sbjct: 14 RVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 28/41 (68%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHLKKKA 43
+++Y + +RW+ IA LPGRTDN IKN W++ +++K
Sbjct: 65 RIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
Score = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHL 39
+V+ L+ RWS IA L GR + + WH HL
Sbjct: 14 RVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 50
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 28/41 (68%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHLKKKA 43
+++Y + +RW+ IA LPGRTDN +KN W++ +++K
Sbjct: 88 RIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
Score = 30.0 bits (66), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 4 VLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHL 39
+ ++ + P RWS IA L GR + + WH HL
Sbjct: 39 IEHVQKYGP-KRWSDIAKHLKGRIGKQCRERWHNHL 73
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 23/30 (76%)
Query: 14 SRWSAIAGRLPGRTDNEIKNVWHTHLKKKA 43
+RW+ IA LPGRTDN +KN W++ +K+K
Sbjct: 79 NRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHL 39
+V+ L+ +W+ IA L GR + + WH HL
Sbjct: 17 KVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHL 53
>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 = 31.6 bits (70), Expect = 0.25, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 15 RWSAIAGRLPGRTDNEIKNVWHTHL 39
RWS IA L GR + + WH HL
Sbjct: 25 RWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 31.6 bits (70), Expect = 0.25, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 15 RWSAIAGRLPGRTDNEIKNVWHTHL 39
RWS IA L GR + + WH HL
Sbjct: 25 RWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 31.6 bits (70), Expect = 0.25, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 3 QVLYLINFAPFSRWSAIAGRLPGRTDNEIKNVWHTHL 39
+V+ L+ RWS IA L GR + + WH HL
Sbjct: 13 RVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>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 = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 15/23 (65%)
Query: 15 RWSAIAGRLPGRTDNEIKNVWHT 37
+W+ IA PGRTD IKN W T
Sbjct: 83 QWAIIAKFFPGRTDIHIKNRWVT 105
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
0.317 0.133 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,206,733
Number of Sequences: 62578
Number of extensions: 165029
Number of successful extensions: 287
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 266
Number of HSP's gapped (non-prelim): 21
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
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: 49 (23.5 bits)