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= 036344
(354 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 = 95.5 bits (236), Expect = 4e-20, Method: Composition-based stats.
Identities = 45/98 (45%), Positives = 63/98 (64%), Gaps = 2/98 (2%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSE 73
KGPW+ EED K+ ++++GT + H G R GK CR RW N+L P +K ++E
Sbjct: 7 KGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG--RLGKQCRERWHNHLNPEVKKSSWTE 64
Query: 74 EEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111
EED II + +G+RW+ IA LPGRTDN +KN+WN+
Sbjct: 65 EEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNS 102
>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 = 92.8 bits (229), Expect = 2e-19, Method: Composition-based stats.
Identities = 44/98 (44%), Positives = 62/98 (63%), Gaps = 2/98 (2%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSE 73
KGPW+ EED ++ ++++G + H G R GK CR RW N+L P +K ++E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 61
Query: 74 EEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111
EED II + +G+RW+ IA LPGRTDN IKN+WN+
Sbjct: 62 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 99
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 92.4 bits (228), Expect = 3e-19, Method: Composition-based stats.
Identities = 44/98 (44%), Positives = 62/98 (63%), Gaps = 2/98 (2%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSE 73
KGPW+ EED ++ ++++G + H G R GK CR RW N+L P +K ++E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 61
Query: 74 EEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111
EED II + +G+RW+ IA LPGRTDN IKN+WN+
Sbjct: 62 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 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 = 91.7 bits (226), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 44/98 (44%), Positives = 62/98 (63%), Gaps = 2/98 (2%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSE 73
KGPW+ EED ++ ++++G + H G R GK CR RW N+L P +K ++E
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 115
Query: 74 EEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111
EED II + +G+RW+ IA LPGRTDN IKN+WN+
Sbjct: 116 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 153
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 43/98 (43%), Positives = 62/98 (63%), Gaps = 2/98 (2%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSE 73
KGPW+ EED ++ +++++G H G R GK CR RW N+L P +K ++E
Sbjct: 27 KGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 84
Query: 74 EEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111
EED II + +G+RW+ IA LPGRTDN +KN+WN+
Sbjct: 85 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNS 122
>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 = 82.0 bits (201), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 40/98 (40%), Positives = 60/98 (61%), Gaps = 2/98 (2%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSE 73
KGP++ ED ++ Y++++G NW + + R K CR RW N+L P + ++
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQ-NWPRITSFLP-NRSPKQCRERWFNHLDPAVVKHAWTP 59
Query: 74 EEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111
EED I Y+ +GS+WS+IA +PGRTDN IKN WN+
Sbjct: 60 EEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNS 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 = 79.3 bits (194), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 43/101 (42%), Positives = 56/101 (55%), Gaps = 7/101 (6%)
Query: 13 KKGPWSPEEDAKLKAYIEQHGTGGNWIA--LPHKIGLKRCGKSCRLRWLNYLRPNIKHGG 70
KK ++PEED LK + QHG+ IA P+ R + CR RW NYL P+I H
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPN-----RNARQCRDRWKNYLAPSISHTP 64
Query: 71 FSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111
++ EED ++ G +W+IIA PGRTD IKN W T
Sbjct: 65 WTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 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 = 62.4 bits (150), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 56/96 (58%), Gaps = 2/96 (2%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFSE 73
K ++ EED KL+ + ++G +WI + ++ + R + CR RW NY+ P ++ +S
Sbjct: 1 KVKFTEEEDLKLQQLVMRYG-AKDWIRIS-QLMITRNPRQCRERWNNYINPALRTDPWSP 58
Query: 74 EEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYW 109
EED ++ Y G +W+ I+ L R+DN+I+N W
Sbjct: 59 EEDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 12 VKKGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKH 68
++ PWSPEED L ++G N I+ K R + R RW+ R KH
Sbjct: 51 LRTDPWSPEEDMLLDQKYAEYGPKWNKIS---KFLKNRSDNNIRNRWMMIARHRAKH 104
>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 = 54.7 bits (130), Expect = 8e-08, Method: Composition-based stats.
Identities = 24/46 (52%), Positives = 33/46 (71%)
Query: 66 IKHGGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111
+K ++EEED II + +G+RW+ IA LPGRTDN IKN+WN+
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 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 = 53.5 bits (127), Expect = 2e-07, Method: Composition-based stats.
Identities = 23/46 (50%), Positives = 33/46 (71%)
Query: 66 IKHGGFSEEEDNIICSLYISIGSRWSIIAAQLPGRTDNDIKNYWNT 111
+K ++EEED I+ + +G+RW+ IA LPGRTDN IKN+WN+
Sbjct: 3 VKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 48
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRP 64
KGPW+ EED +L ++++G + H G R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNP 51
Score = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 69 GGFSEEEDNIICSLYISIG-SRWSIIAAQLPGRTDNDIKNYWN 110
G +++EED + L G RWS+IA L GR + W+
Sbjct: 4 GPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWH 46
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRP 64
KGPW+ EED ++ ++++G + H G R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNP 51
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 69 GGFSEEEDNIICSLYISIG-SRWSIIAAQLPGRTDNDIKNYWN 110
G +++EED + L G RWS+IA L GR + W+
Sbjct: 4 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWH 46
>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 = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRP 64
KGPW+ EED ++ ++++G + H G R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNP 51
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 69 GGFSEEEDNIICSLYISIG-SRWSIIAAQLPGRTDNDIKNYWN 110
G +++EED + L G RWS+IA L GR + W+
Sbjct: 4 GPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWH 46
>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 = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRP 64
K W+ EED KLK +EQ+GT +W + + + R C+ RW L P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGT-DDWKVIANYLP-NRTDVQCQHRWQKVLNP 51
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRP 64
K W+ EED KLK +EQ+GT +W + + + R C+ RW L P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGT-DDWKVIANYLP-NRTDVQCQHRWQKVLNP 51
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 17 WSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYLRPNIKHGGFS 72
W ED LKA + ++G W + + ++ K C+ RW +L P+IK +S
Sbjct: 12 WRNTEDEILKAAVMKYGKN-QWSRIASLLH-RKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 14 KGPWSPEEDAKLKAYIEQHGTGGNWIALPHKIGLKRCGKSCRLRWLNYL 62
K W+ EED +L+A + Q G +W L R + C+ RWL L
Sbjct: 8 KVKWTHEEDEQLRALVRQFGQ-QDWKFLASHF-PNRTDQQCQYRWLRVL 54
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
0.315 0.130 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,412,570
Number of Sequences: 62578
Number of extensions: 393886
Number of successful extensions: 844
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 802
Number of HSP's gapped (non-prelim): 29
length of query: 354
length of database: 14,973,337
effective HSP length: 100
effective length of query: 254
effective length of database: 8,715,537
effective search space: 2213746398
effective search space used: 2213746398
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)