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= 039547
(67 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 = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKNTKLKRK 43
EDR+I + +RW+ IA LPGRTDN N++ N+ +KRK
Sbjct: 66 EDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHW-NSTIKRK 107
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKNTKLKRK 43
EDR+I + +RW+ IA LPGRTDN N++ N+ ++RK
Sbjct: 86 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHW-NSTMRRK 127
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKNTKLKRK 43
EDR+I + +RW+ IA LPGRTDN N++ N+ ++RK
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHW-NSTMRRK 104
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 1 EDRLICRLFA-ISESRWSVIAAHLPGRTDNETNNYYKN 37
ED+ + +L RWSVIA HL GR + + N
Sbjct: 11 EDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHN 48
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKNTKLKRK 43
EDR+I + +RW+ IA LPGRTDN N++ N+ ++RK
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHW-NSTMRRK 104
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 1 EDRLICRLFA-ISESRWSVIAAHLPGRTDNETNNYYKN 37
ED+ + +L RWSVIA HL GR + + N
Sbjct: 11 EDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHN 48
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKNTKLKRK 43
EDR+I + +RW+ IA LPGRTDN N++ N+ ++RK
Sbjct: 117 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHW-NSTMRRK 158
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 1 EDRLICRLFA-ISESRWSVIAAHLPGRTDNETNNYYKN 37
ED+ + +L RWSVIA HL GR + + N
Sbjct: 65 EDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHN 102
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 25/42 (59%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKNTKLKR 42
ED I R + S+WSVIA +PGRTDN N + ++ KR
Sbjct: 61 EDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKR 102
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKNTKLKRK 43
EDR+I + +RW+ IA LPGRTDN N++ N+ ++RK
Sbjct: 10 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHW-NSTMRRK 51
>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 = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKNTKLKRK 43
EDR++ + +RW+ IA LPGRTDN N++ N+ ++RK
Sbjct: 12 EDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHW-NSTMRRK 53
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKN 37
+ RLI + RWSVIA HL GR + + N
Sbjct: 11 DQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHN 47
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 1 EDRLICRLFA-ISESRWSVIAAHLPGRTDNETNNYYKN 37
ED+ + +L RWSVIA HL GR + + N
Sbjct: 10 EDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHN 47
>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 = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYY 35
ED L+ + +W++IA PGRTD N +
Sbjct: 69 EDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRW 103
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKN 37
ED ++ R A S W +IAA P R + + +KN
Sbjct: 18 EDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKN 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 = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 1 EDRLICRLFAISESRWSVIAAHLPGRTDNETNNYYKN 37
+ R+I + RWSVIA HL GR + + N
Sbjct: 11 DQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHN 47
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 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,061,919
Number of Sequences: 62578
Number of extensions: 64558
Number of successful extensions: 227
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 207
Number of HSP's gapped (non-prelim): 22
length of query: 67
length of database: 14,973,337
effective HSP length: 38
effective length of query: 29
effective length of database: 12,595,373
effective search space: 365265817
effective search space used: 365265817
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: 45 (21.9 bits)