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= 028843
(203 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 47/105 (44%), Positives = 75/105 (71%), Gaps = 1/105 (0%)
Query: 21 VNRGAWTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRPNIKRGNIS 80
+N+G WT EED+++ E+++ +G KRW ++A R GK CR RW N+L P +K+ + +
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 83
Query: 81 DDEEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLSKKI 125
++E+ +I + HK LG+RW+ IA LPGRTDN +KN+WNS + +K+
Sbjct: 84 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 102 bits (253), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 46/104 (44%), Positives = 72/104 (69%), Gaps = 1/104 (0%)
Query: 23 RGAWTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRPNIKRGNISDD 82
+G WT EED+K+ E ++ +G K+W +A R GK CR RW N+L P +K+ + +++
Sbjct: 7 KGPWTKEEDQKVIELVKKYGTKQWTLIAKHLK-GRLGKQCRERWHNHLNPEVKKSSWTEE 65
Query: 83 EEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLSKKIN 126
E+ +I HK+LG+RW+ IA LPGRTDN +KN+WNS + +K++
Sbjct: 66 EDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKVD 109
>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 = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 46/103 (44%), Positives = 71/103 (68%), Gaps = 1/103 (0%)
Query: 23 RGAWTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRPNIKRGNISDD 82
+G WT EED+++ + ++ +G KRW +A R GK CR RW N+L P +K+ + +++
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 116
Query: 83 EEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLSKKI 125
E+ +I + HK LG+RW+ IA LPGRTDN IKN+WNS + +K+
Sbjct: 117 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 99.4 bits (246), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 46/103 (44%), Positives = 71/103 (68%), Gaps = 1/103 (0%)
Query: 23 RGAWTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRPNIKRGNISDD 82
+G WT EED+++ + ++ +G KRW +A R GK CR RW N+L P +K+ + +++
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 83 EEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLSKKI 125
E+ +I + HK LG+RW+ IA LPGRTDN IKN+WNS + +K+
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>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 = 99.4 bits (246), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 46/103 (44%), Positives = 71/103 (68%), Gaps = 1/103 (0%)
Query: 23 RGAWTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRPNIKRGNISDD 82
+G WT EED+++ + ++ +G KRW +A R GK CR RW N+L P +K+ + +++
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 83 EEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLSKKI 125
E+ +I + HK LG+RW+ IA LPGRTDN IKN+WNS + +K+
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 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 = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 47/110 (42%), Positives = 68/110 (61%), Gaps = 5/110 (4%)
Query: 23 RGAWTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRPNIKRGNISDD 82
+G +T ED + EY++ +G + W + T NR K CR RW N+L P + + + +
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRI-TSFLPNRSPKQCRERWFNHLDPAVVKHAWTPE 60
Query: 83 EEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLSKKI----NHK 128
E++ I R + LGS+WS+IA +PGRTDN IKN WNS +SK+I NHK
Sbjct: 61 EDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRISTNSNHK 110
>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 = 67.4 bits (163), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 36/92 (39%), Positives = 53/92 (57%), Gaps = 2/92 (2%)
Query: 26 WTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRPNIKRGNISDDEED 85
+T EED L + HG+ WK +A + NR + CR RW NYL P+I + +E+
Sbjct: 14 FTPEEDEMLKRAVAQHGSD-WKMIAA-TFPNRNARQCRDRWKNYLAPSISHTPWTAEEDA 71
Query: 86 LILRLHKLLGSRWSLIAGRLPGRTDNEIKNYW 117
L+++ + G +W++IA PGRTD IKN W
Sbjct: 72 LLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRW 103
Score = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 29/53 (54%)
Query: 75 KRGNISDDEEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLSKKINH 127
K+ + +E++++ R GS W +IA P R + ++ W ++L+ I+H
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLAPSISH 62
>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 = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 25/52 (48%), Positives = 40/52 (76%)
Query: 74 IKRGNISDDEEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLSKKI 125
+K+ + +++E+ +I + HK LG+RW+ IA LPGRTDN IKN+WNS + +K+
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>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 = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 53/92 (57%), Gaps = 1/92 (1%)
Query: 26 WTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRPNIKRGNISDDEED 85
+T EED KL + + +GAK W + ++ + R + CR RW NY+ P ++ S +E+
Sbjct: 4 FTEEEDLKLQQLVMRYGAKDWIRI-SQLMITRNPRQCRERWNNYINPALRTDPWSPEEDM 62
Query: 86 LILRLHKLLGSRWSLIAGRLPGRTDNEIKNYW 117
L+ + + G +W+ I+ L R+DN I+N W
Sbjct: 63 LLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
>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 = 57.0 bits (136), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 40/52 (76%)
Query: 74 IKRGNISDDEEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLSKKI 125
+K+ + +++E+ ++ + HK LG+RW+ IA LPGRTDN IKN+WNS + +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 = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 23 RGAWTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRP 72
+G WT EED+++ E ++ +G KRW +A R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 76 RGNISDDEEDLILRLHKLLGS-RWSLIAGRLPGRTDNEIKNYWNSHLS 122
+G + +E+ ++ L + G RWS+IA L GR + + W++HL+
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLN 50
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 23 RGAWTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRP 72
+G WT EED++L + ++ +G KRW +A R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%)
Query: 80 SDDEEDLILRLHKLLGSRWSLIAGRLPGRTDNEIKNYWNSHLS 122
++++ LI + K RWS+IA L GR + + W++HL+
Sbjct: 8 KEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLN 50
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 23 RGAWTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRP 72
+G WT EED+++ + ++ +G KRW +A R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 32.0 bits (71), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 76 RGNISDDEEDLILRLHKLLGS-RWSLIAGRLPGRTDNEIKNYWNSHLS 122
+G + +E+ +++L + G RWS+IA L GR + + W++HL+
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLN 50
>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 = 34.7 bits (78), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 26 WTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRP 72
WT EED KL + +E +G WK +A NR C+ RW L P
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNP 51
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 34.7 bits (78), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 26 WTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYLRP 72
WT EED KL + +E +G WK +A NR C+ RW L P
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNP 51
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 33.1 bits (74), Expect = 0.11, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 26 WTAEEDRKLTEYIEIHGAKRWKNVATESGLNRCGKSCRLRWLNYL 70
WT EED +L + G + WK +A+ NR + C+ RWL L
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHFP-NRTDQQCQYRWLRVL 54
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 30.8 bits (68), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 25 AWTAEEDRKLTEYIEIHGAKRWKNVATESGLNR-CGKSCRLRWLNYLRPNIKRGNIS 80
W ED L + +G +W +A S L+R K C+ RW +L P+IK+ S
Sbjct: 11 VWRNTEDEILKAAVMKYGKNQWSRIA--SLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|3HTN|A Chain A, Crystal Structure Of A Putative Dna Binding Protein
(Bt_1116) From Bacteroides Thetaiotaomicron Vpi-5482 At
1.50 A Resolution
pdb|3HTN|B Chain B, Crystal Structure Of A Putative Dna Binding Protein
(Bt_1116) From Bacteroides Thetaiotaomicron Vpi-5482 At
1.50 A Resolution
pdb|3HTN|C Chain C, Crystal Structure Of A Putative Dna Binding Protein
(Bt_1116) From Bacteroides Thetaiotaomicron Vpi-5482 At
1.50 A Resolution
Length = 149
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 77 GNISDDEEDLILRLHKLLG-SRWSLIAGRLPGRTDNEIKNYWNSHLSKKINHKH 129
GNIS E + L LH +G S +S +AG L N + S++I+ +
Sbjct: 83 GNISSXNEQVYLHLHITVGRSDYSALAGHLLSAIQNGAGEFVVEDYSERISRTY 136
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: 6,250,583
Number of Sequences: 62578
Number of extensions: 243611
Number of successful extensions: 341
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 294
Number of HSP's gapped (non-prelim): 38
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
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: 49 (23.5 bits)