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= 024479
(267 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 = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 19/34 (55%), Positives = 24/34 (70%)
Query: 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNT 34
+I +LGNRWA IA LP RTDN +KN+WN+
Sbjct: 69 IIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNS 102
>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 = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/34 (58%), Positives = 23/34 (67%)
Query: 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNT 34
+I LGNRWA IA LP RTDN IKN+WN+
Sbjct: 120 IIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 153
Score = 27.3 bits (59), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 13 WAAIASYLPQRTDNDIKNYW 32
W IA+YLP RTD ++ W
Sbjct: 29 WKVIANYLPNRTDVQCQHRW 48
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/34 (58%), Positives = 23/34 (67%)
Query: 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNT 34
+I LGNRWA IA LP RTDN IKN+WN+
Sbjct: 66 IIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 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 = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/34 (58%), Positives = 23/34 (67%)
Query: 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNT 34
+I LGNRWA IA LP RTDN IKN+WN+
Sbjct: 66 IIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 99
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/34 (55%), Positives = 23/34 (67%)
Query: 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNT 34
+I LGNRWA IA LP RTDN +KN+WN+
Sbjct: 89 IIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNS 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 = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/34 (58%), Positives = 23/34 (67%)
Query: 1 MIIHLQALLGNRWAAIASYLPQRTDNDIKNYWNT 34
+I LGNRWA IA LP RTDN IKN+WN+
Sbjct: 13 IIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 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 = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/26 (73%), Positives = 21/26 (80%)
Query: 9 LGNRWAAIASYLPQRTDNDIKNYWNT 34
LGNRWA IA LP RTDN IKN+WN+
Sbjct: 23 LGNRWAEIAKLLPGRTDNAIKNHWNS 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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 20/26 (76%)
Query: 9 LGNRWAAIASYLPQRTDNDIKNYWNT 34
LG++W+ IA +P RTDN IKN WN+
Sbjct: 72 LGSKWSVIAKLIPGRTDNAIKNRWNS 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 = 34.3 bits (77), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 10 GNRWAAIASYLPQRTDNDIKNYWNT 34
G +WA IA + P RTD IKN W T
Sbjct: 81 GRQWAIIAKFFPGRTDIHIKNRWVT 105
>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 = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 7 ALLGNRWAAIASYLPQRTDNDIKNYW 32
A G +W I+ +L R+DN+I+N W
Sbjct: 69 AEYGPKWNKISKFLKNRSDNNIRNRW 94
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
0.310 0.124 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,062,111
Number of Sequences: 62578
Number of extensions: 270313
Number of successful extensions: 10083
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: 10040
Number of HSP's gapped (non-prelim): 50
length of query: 267
length of database: 14,973,337
effective HSP length: 97
effective length of query: 170
effective length of database: 8,903,271
effective search space: 1513556070
effective search space used: 1513556070
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 50 (23.9 bits)