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= 019787
(336 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 = 103 bits (258), Expect = 1e-22, Method: Composition-based stats.
Identities = 51/104 (49%), Positives = 69/104 (66%), Gaps = 2/104 (1%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTD 73
KGPW+ EED K+ E ++KYGT W L K R GK CR RW N+L P +K +T+
Sbjct: 7 KGPWTKEEDQKVIELVKKYGTK-QW-TLIAKHLKGRLGKQCRERWHNHLNPEVKKSSWTE 64
Query: 74 EEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117
EEDR+I +G+RW+ IA LPGRTDN +KN+WN+ +K+K+
Sbjct: 65 EEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 48/105 (45%), Positives = 71/105 (67%), Gaps = 4/105 (3%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLK-RCGKSCRLRWLNYLRPNIKHGEFT 72
KGPW+ EED ++ E+++KYG W + + LK R GK CR RW N+L P +K +T
Sbjct: 27 KGPWTKEEDQRVIEHVQKYGPK-RWSDIAK--HLKGRIGKQCRERWHNHLNPEVKKTSWT 83
Query: 73 DEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117
+EEDR+I +G+RW+ IA LPGRTDN +KN+WN+ +++K+
Sbjct: 84 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
>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 = 98.6 bits (244), Expect = 5e-21, Method: Composition-based stats.
Identities = 48/105 (45%), Positives = 70/105 (66%), Gaps = 4/105 (3%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLK-RCGKSCRLRWLNYLRPNIKHGEFT 72
KGPW+ EED ++ + ++KYG W + + LK R GK CR RW N+L P +K +T
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPK-RWSVIAKH--LKGRIGKQCRERWHNHLNPEVKKTSWT 60
Query: 73 DEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117
+EEDR+I +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>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 = 98.2 bits (243), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 48/105 (45%), Positives = 70/105 (66%), Gaps = 4/105 (3%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLK-RCGKSCRLRWLNYLRPNIKHGEFT 72
KGPW+ EED ++ + ++KYG W + + LK R GK CR RW N+L P +K +T
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPK-RWSVIAKH--LKGRIGKQCRERWHNHLNPEVKKTSWT 114
Query: 73 DEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117
+EEDR+I +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 115 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 71 FTDEEDRLICSLFASIGSR-WSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118
+T EED + L G+ W +IA LP RTD ++ W L +L+
Sbjct: 9 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELI 57
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 97.8 bits (242), Expect = 7e-21, Method: Composition-based stats.
Identities = 48/105 (45%), Positives = 70/105 (66%), Gaps = 4/105 (3%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLK-RCGKSCRLRWLNYLRPNIKHGEFT 72
KGPW+ EED ++ + ++KYG W + + LK R GK CR RW N+L P +K +T
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPK-RWSVIAKH--LKGRIGKQCRERWHNHLNPEVKKTSWT 60
Query: 73 DEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117
+EEDR+I +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>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 = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 43/106 (40%), Positives = 63/106 (59%), Gaps = 6/106 (5%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGL--KRCGKSCRLRWLNYLRPNIKHGEF 71
KGP++ ED ++EY+++ G NW P+ R K CR RW N+L P + +
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQ-NW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAW 57
Query: 72 TDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117
T EED I + +GS+WS+IA +PGRTDN IKN WN+ + K++
Sbjct: 58 TPEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRI 103
>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 = 78.2 bits (191), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 43/102 (42%), Positives = 55/102 (53%), Gaps = 7/102 (6%)
Query: 12 VKKGPWSPEEDSKLKEYIEKYGTGGNWIA--LPQKAGLKRCGKSCRLRWLNYLRPNIKHG 69
KK ++PEED LK + ++G+ IA P R + CR RW NYL P+I H
Sbjct: 9 AKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFP-----NRNARQCRDRWKNYLAPSISHT 63
Query: 70 EFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNT 111
+T EED L+ G +W+IIA PGRTD IKN W T
Sbjct: 64 PWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 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 = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 34/96 (35%), Positives = 57/96 (59%), Gaps = 2/96 (2%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTD 73
K ++ EED KL++ + +YG +WI + Q + R + CR RW NY+ P ++ ++
Sbjct: 1 KVKFTEEEDLKLQQLVMRYG-AKDWIRISQ-LMITRNPRQCRERWNNYINPALRTDPWSP 58
Query: 74 EEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYW 109
EED L+ +A G +W+ I+ L R+DN+I+N W
Sbjct: 59 EEDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 12 VKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKH 68
++ PWSPEED L + +YG 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 = 59.3 bits (142), Expect = 3e-09, Method: Composition-based stats.
Identities = 25/52 (48%), Positives = 38/52 (73%)
Query: 66 IKHGEFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117
+K +T+EEDR+I +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>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 = 58.2 bits (139), Expect = 6e-09, Method: Composition-based stats.
Identities = 24/52 (46%), Positives = 38/52 (73%)
Query: 66 IKHGEFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117
+K +T+EEDR++ +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 3 VKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 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 = 45.4 bits (106), Expect = 5e-05, Method: Composition-based stats.
Identities = 24/52 (46%), Positives = 32/52 (61%), Gaps = 4/52 (7%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLK-RCGKSCRLRWLNYLRP 64
KGPW+ EED ++ E ++KYG W + + LK R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIELVQKYGP-KRWSVIAKH--LKGRIGKQCRERWHNHLNP 51
Score = 33.5 bits (75), Expect = 0.18, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 69 GEFTDEEDRLICSLFASIG-SRWSIIAAQLPGRTDNDIKNYWNTKL 113
G +T EED+ + L G RWS+IA L GR + W+ L
Sbjct: 4 GPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 44.7 bits (104), Expect = 8e-05, Method: Composition-based stats.
Identities = 22/51 (43%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRP 64
KGPW+ EED +L + ++KYG W + + R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGP-KRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 32.7 bits (73), Expect = 0.28, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 69 GEFTDEEDRLICSLFASIG-SRWSIIAAQLPGRTDNDIKNYWNTKL 113
G +T EED+ + L G RWS+IA L GR + W+ L
Sbjct: 4 GPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/52 (44%), Positives = 32/52 (61%), Gaps = 4/52 (7%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLK-RCGKSCRLRWLNYLRP 64
KGPW+ EED ++ + ++KYG W + + LK R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGP-KRWSVIAKH--LKGRIGKQCRERWHNHLNP 51
Score = 33.5 bits (75), Expect = 0.19, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 69 GEFTDEEDRLICSLFASIG-SRWSIIAAQLPGRTDNDIKNYWNTKL 113
G +T EED+ + L G RWS+IA L GR + W+ L
Sbjct: 4 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 31.6 bits (70), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query: 17 WSPEEDSKLKEYIEKYGTGGNWIALPQKAGL--KRCGKSCRLRWLNYLRPNIKHGEFT 72
W ED LK + KYG W + A L ++ K C+ RW +L P+IK E++
Sbjct: 12 WRNTEDEILKAAVMKYGKN-QWSRI---ASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>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 = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRP 64
K W+ EED KLK+ +E+ 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 = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRP 64
K W+ EED KLK+ +E+ GT +W + R C+ RW L P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGT-DDWKVIANYLP-NRTDVQCQHRWQKVLNP 51
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 0.133 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,979,481
Number of Sequences: 62578
Number of extensions: 414870
Number of successful extensions: 2583
Number of sequences better than 100.0: 55
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 2496
Number of HSP's gapped (non-prelim): 127
length of query: 336
length of database: 14,973,337
effective HSP length: 99
effective length of query: 237
effective length of database: 8,778,115
effective search space: 2080413255
effective search space used: 2080413255
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)