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= 025072
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/24 (66%), Positives = 19/24 (79%)
Query: 2 SRWAAIASYLPQRTDNDIKNYWNT 25
+RWA IA LP RTDN IKN+WN+
Sbjct: 76 NRWAEIAKLLPGRTDNAIKNHWNS 99
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 16/24 (66%), Positives = 19/24 (79%)
Query: 2 SRWAAIASYLPQRTDNDIKNYWNT 25
+RWA IA LP RTDN IKN+WN+
Sbjct: 76 NRWAEIAKLLPGRTDNAIKNHWNS 99
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/24 (66%), Positives = 19/24 (79%)
Query: 2 SRWAAIASYLPQRTDNDIKNYWNT 25
+RWA IA LP RTDN IKN+WN+
Sbjct: 130 NRWAEIAKLLPGRTDNAIKNHWNS 153
Score = 27.3 bits (59), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 4 WAAIASYLPQRTDNDIKNYW 23
W IA+YLP RTD ++ W
Sbjct: 29 WKVIANYLPNRTDVQCQHRW 48
>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 = 0.004, Method: Compositional matrix adjust.
Identities = 15/24 (62%), Positives = 19/24 (79%)
Query: 2 SRWAAIASYLPQRTDNDIKNYWNT 25
+RWA IA LP RTDN +KN+WN+
Sbjct: 79 NRWAEIAKLLPGRTDNAVKNHWNS 102
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/24 (62%), Positives = 19/24 (79%)
Query: 2 SRWAAIASYLPQRTDNDIKNYWNT 25
+RWA IA LP RTDN +KN+WN+
Sbjct: 99 NRWAEIAKLLPGRTDNAVKNHWNS 122
>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 = 37.7 bits (86), Expect = 0.006, Method: Composition-based stats.
Identities = 16/24 (66%), Positives = 19/24 (79%)
Query: 2 SRWAAIASYLPQRTDNDIKNYWNT 25
+RWA IA LP RTDN IKN+WN+
Sbjct: 23 NRWAEIAKLLPGRTDNAIKNHWNS 46
>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 = 37.7 bits (86), Expect = 0.007, Method: Composition-based stats.
Identities = 16/24 (66%), Positives = 19/24 (79%)
Query: 2 SRWAAIASYLPQRTDNDIKNYWNT 25
+RWA IA LP RTDN IKN+WN+
Sbjct: 25 NRWAEIAKLLPGRTDNAIKNHWNS 48
>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 = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 14/24 (58%), Positives = 18/24 (75%)
Query: 2 SRWAAIASYLPQRTDNDIKNYWNT 25
S+W+ IA +P RTDN IKN WN+
Sbjct: 74 SKWSVIAKLIPGRTDNAIKNRWNS 97
>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 = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 15/23 (65%)
Query: 3 RWAAIASYLPQRTDNDIKNYWNT 25
+WA IA + P RTD 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
0.309 0.123 0.361
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,829,323
Number of Sequences: 62578
Number of extensions: 260903
Number of successful extensions: 10076
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 10034
Number of HSP's gapped (non-prelim): 49
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 50 (23.9 bits)