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= 017566
(369 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 = 137 bits (344), Expect = 1e-32, Method: Composition-based stats.
Identities = 60/102 (58%), Positives = 80/102 (78%)
Query: 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDE 117
VKGPW+ E+D + ELV K+G + W+LIA+ + GR GK CR RW N L+P VK+ +T+E
Sbjct: 6 VKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHLNPEVKKSSWTEE 65
Query: 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159
ED+II AH V GN+WA I++LLPGRTDNA+KNHWNST++R+
Sbjct: 66 EDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRK 107
>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 = 135 bits (341), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 59/102 (57%), Positives = 79/102 (77%)
Query: 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDE 117
+KGPW+ E+D + +LV K+G + WS+IA+ + GR GK CR RW N L+P VK+ +T+E
Sbjct: 57 IKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEE 116
Query: 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159
ED+II AH GN+WA I++LLPGRTDNAIKNHWNST+RR+
Sbjct: 117 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 158
>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 = 133 bits (335), Expect = 1e-31, Method: Composition-based stats.
Identities = 59/102 (57%), Positives = 79/102 (77%)
Query: 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDE 117
+KGPW+ E+D + +LV K+G + WS+IA+ + GR GK CR RW N L+P VK+ +T+E
Sbjct: 3 IKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159
ED+II AH GN+WA I++LLPGRTDNAIKNHWNST+RR+
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 104
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 133 bits (334), Expect = 2e-31, Method: Composition-based stats.
Identities = 59/102 (57%), Positives = 79/102 (77%)
Query: 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDE 117
+KGPW+ E+D + +LV K+G + WS+IA+ + GR GK CR RW N L+P VK+ +T+E
Sbjct: 3 IKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159
ED+II AH GN+WA I++LLPGRTDNAIKNHWNST+RR+
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 104
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 130 bits (328), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 58/101 (57%), Positives = 76/101 (75%)
Query: 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEE 118
KGPW+ E+D + E V K+G + WS IA+ + GR GK CR RW N L+P VK+ +T+EE
Sbjct: 27 KGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEE 86
Query: 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159
D+II AH GN+WA I++LLPGRTDNA+KNHWNST+RR+
Sbjct: 87 DRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRK 127
>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 = 104 bits (259), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 48/102 (47%), Positives = 69/102 (67%)
Query: 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDE 117
+KGP++ +D ++ E V + G +NW I + RS K CR RW N LDPAV + +T E
Sbjct: 1 MKGPFTEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPE 60
Query: 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159
ED+ I + G+KW+VI++L+PGRTDNAIKN WNS++ +R
Sbjct: 61 EDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKR 102
>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 = 84.7 bits (208), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 39/109 (35%), Positives = 64/109 (58%), Gaps = 1/109 (0%)
Query: 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEE 118
K ++PE+D +L V++ G+ +W +IA R+ + CR RW N L P++ P+T EE
Sbjct: 11 KQKFTPEEDEMLKRAVAQHGS-DWKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEE 69
Query: 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRRGVELRRTM 167
D ++V +G +WA+I++ PGRTD IKN W + + G+ + M
Sbjct: 70 DALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTISNKLGIPQTQQM 118
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 28/49 (57%)
Query: 108 AVKRKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTL 156
A K++ FT EED+++ A A HG+ W +I+ P R ++ W + L
Sbjct: 8 AAKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYL 56
>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 = 82.0 bits (201), Expect = 5e-16, Method: Composition-based stats.
Identities = 37/102 (36%), Positives = 63/102 (61%)
Query: 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEE 118
K ++ E+D L +LV ++GA++W I++ + R+ + CR RW N ++PA++ P++ EE
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPALRTDPWSPEE 60
Query: 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRRG 160
D ++ +A +G KW IS+ L R+DN I+N W R R
Sbjct: 61 DMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRWMMIARHRA 102
>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 = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 33/51 (64%), Positives = 43/51 (84%)
Query: 109 VKRKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159
VK+ +T+EED+I+ AH GN+WA I++LLPGRTDNAIKNHWNST+RR+
Sbjct: 3 VKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 53
>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 = 76.3 bits (186), Expect = 3e-14, Method: Composition-based stats.
Identities = 34/51 (66%), Positives = 43/51 (84%)
Query: 109 VKRKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159
VK+ +T+EED+II AH GN+WA I++LLPGRTDNAIKNHWNST+RR+
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 51
>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 = 63.5 bits (153), Expect = 2e-10, Method: Composition-based stats.
Identities = 26/50 (52%), Positives = 36/50 (72%)
Query: 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDP 107
+KGPW+ E+D + ELV K+G + WS+IA+ + GR GK CR RW N L+P
Sbjct: 2 IKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 32.3 bits (72), Expect = 0.48, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 111 RKPFTDEEDQIIVAAHAVHGNK-WAVISRLLPGRTDNAIKNHWNSTL 156
+ P+T EEDQ ++ +G K W+VI++ L GR + W++ L
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 63.5 bits (153), Expect = 2e-10, Method: Composition-based stats.
Identities = 26/50 (52%), Positives = 36/50 (72%)
Query: 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDP 107
+KGPW+ E+D L +LV K+G + WS+IA+ + GR GK CR RW N L+P
Sbjct: 2 IKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 32.0 bits (71), Expect = 0.53, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 111 RKPFTDEEDQIIVAAHAVHGNK-WAVISRLLPGRTDNAIKNHWNSTL 156
+ P+T EEDQ ++ +G K W+VI++ L GR + W++ L
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 62.4 bits (150), Expect = 4e-10, Method: Composition-based stats.
Identities = 25/50 (50%), Positives = 36/50 (72%)
Query: 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDP 107
+KGPW+ E+D + +LV K+G + WS+IA+ + GR GK CR RW N L+P
Sbjct: 2 IKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 32.3 bits (72), Expect = 0.45, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 111 RKPFTDEEDQIIVAAHAVHGNK-WAVISRLLPGRTDNAIKNHWNSTL 156
+ P+T EEDQ ++ +G K W+VI++ L GR + W++ L
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 30/54 (55%)
Query: 62 WSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFT 115
W +D +L V K+G WS IA + +S K C+ RW LDP++K+ ++
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQL 105
K W+ E+D L LV +FG ++W +A R+ + C+ RW L
Sbjct: 8 KVKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVL 54
>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 = 37.4 bits (85), Expect = 0.013, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDP 107
K W+ E+D L +LV + G +W +IA + R+ C+ RW L+P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 37.4 bits (85), Expect = 0.013, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDP 107
K W+ E+D L +LV + G +W +IA + R+ C+ RW L+P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51
>pdb|1IGN|A Chain A, Dna-Binding Domain Of Rap1 In Complex With Telomeric Dna
Site
pdb|1IGN|B Chain B, Dna-Binding Domain Of Rap1 In Complex With Telomeric Dna
Site
Length = 246
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 10/86 (11%)
Query: 107 PAVKRKPFTDEEDQIIVAAHAVHGNK--------WAVISRLLPGRTDNAIKNHWNSTLRR 158
P+ + FTDEED+ I+ V N + IS +P T N+I++ + L +
Sbjct: 4 PSHNKASFTDEEDEFILDV--VRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSK 61
Query: 159 RGVELRRTMKLGSVNMMEDMNVDKTK 184
R + K G + +D N+ KTK
Sbjct: 62 RLEYVYEVDKFGKLVRDDDGNLIKTK 87
>pdb|3UKG|A Chain A, Crystal Structure Of Rap1DNA COMPLEX
Length = 242
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 14/81 (17%)
Query: 114 FTDEEDQIIV----------AAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRRGVEL 163
FTDEED+ I+ H ++ IS +P T N+I++ + L +R +
Sbjct: 4 FTDEEDEFILDVVRKNPTRRTTHTLYDE----ISHYVPNHTGNSIRHRFRVYLSKRLEYV 59
Query: 164 RRTMKLGSVNMMEDMNVDKTK 184
K G + +D N+ KTK
Sbjct: 60 YEVDKFGKLVRDDDGNLIKTK 80
>pdb|2M2E|A Chain A, Solution Nmr Structure Of The Sant Domain Of Human Dnajc2,
Northeast Structural Genomics Consortium Target Hr8254a
Length = 73
Score = 28.9 bits (63), Expect = 4.2, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 6/70 (8%)
Query: 61 PWSPEQDAVLSELVSKFGARN---WSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDE 117
PW+ E+ +L + + + W IA + GR+ K C R+ +L VK K E
Sbjct: 5 PWTTEEQKLLEQALKTYPVNTPERWKKIAEAVPGRTKKDCMKRY-KELVEMVKAKKAAQE 63
Query: 118 EDQIIVAAHA 127
Q++ A+ A
Sbjct: 64 --QVLNASRA 71
>pdb|2CJJ|A Chain A, Crystal Structure Of The Myb Domain Of The Rad
Transcription Factor From Antirrhinum Majus
Length = 93
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 27/45 (60%), Gaps = 4/45 (8%)
Query: 112 KPFTDEEDQIIVAAHAVHG----NKWAVISRLLPGRTDNAIKNHW 152
+P++ +E++ A AV+ ++WA ++R + GRT +K H+
Sbjct: 9 RPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHY 53
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
0.314 0.131 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,571,590
Number of Sequences: 62578
Number of extensions: 414619
Number of successful extensions: 649
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 610
Number of HSP's gapped (non-prelim): 32
length of query: 369
length of database: 14,973,337
effective HSP length: 100
effective length of query: 269
effective length of database: 8,715,537
effective search space: 2344479453
effective search space used: 2344479453
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)