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= 047550
(395 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 = 120 bits (300), Expect = 2e-27, Method: Composition-based stats.
Identities = 53/101 (52%), Positives = 71/101 (70%)
Query: 119 RGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAFSEDE 178
+G W ED K+ ELV YG + W LIA+ L+GR GK CR RW N L+P + K +++E+E
Sbjct: 7 KGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHLNPEVKKSSWTEEE 66
Query: 179 EERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVIMARK 219
+ + AH+V GN+WA IA+L PGRTDNAVKNHW+ + RK
Sbjct: 67 DRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRK 107
>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 = 116 bits (290), Expect = 2e-26, Method: Composition-based stats.
Identities = 50/101 (49%), Positives = 72/101 (71%)
Query: 119 RGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAFSEDE 178
+G W ED ++ +LV YGP+ W++IA+ L+GR GK CR RW N L+P + K +++E+E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEE 63
Query: 179 EERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVIMARK 219
+ + AH+ GN+WA IA+L PGRTDNA+KNHW+ M RK
Sbjct: 64 DRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 104
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 116 bits (290), Expect = 2e-26, Method: Composition-based stats.
Identities = 50/101 (49%), Positives = 72/101 (71%)
Query: 119 RGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAFSEDE 178
+G W ED ++ +LV YGP+ W++IA+ L+GR GK CR RW N L+P + K +++E+E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEE 63
Query: 179 EERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVIMARK 219
+ + AH+ GN+WA IA+L PGRTDNA+KNHW+ M RK
Sbjct: 64 DRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 104
>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 = 116 bits (290), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 57/160 (35%), Positives = 92/160 (57%), Gaps = 3/160 (1%)
Query: 60 GHIVTSQNICYCDSSDHQKSDLAAGGDSDNNNKVDESVDGYEDMEDVKKMDGGLSKVCSR 119
GH+ ++ + D + L +D+ + + D++ + L+ +
Sbjct: 2 GHLGKTR---WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELIK 58
Query: 120 GHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAFSEDEE 179
G W ED ++ +LV YGP+ W++IA+ L+GR GK CR RW N L+P + K +++E+E+
Sbjct: 59 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEED 118
Query: 180 ERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVIMARK 219
+ AH+ GN+WA IA+L PGRTDNA+KNHW+ M RK
Sbjct: 119 RIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 158
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 112 bits (280), Expect = 4e-25, Method: Composition-based stats.
Identities = 51/102 (50%), Positives = 71/102 (69%)
Query: 118 SRGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAFSED 177
++G W ED ++ E V YGP+ W+ IA+ L+GR GK CR RW N L+P + K +++E+
Sbjct: 26 NKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEE 85
Query: 178 EEERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVIMARK 219
E+ + AH+ GN+WA IA+L PGRTDNAVKNHW+ M RK
Sbjct: 86 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRK 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 = 98.2 bits (243), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 45/101 (44%), Positives = 66/101 (65%)
Query: 119 RGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAFSEDE 178
+G + AED ++E V GPQNW I L RS K CR RWFN LDP + K A++ +E
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPEE 61
Query: 179 EERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVIMARK 219
+E + + G+KW++IA+L PGRTDNA+KN W+ ++++
Sbjct: 62 DETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKR 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 = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 39/101 (38%), Positives = 57/101 (56%), Gaps = 1/101 (0%)
Query: 115 KVCSRGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAF 174
K + + P ED LK VA +G +W +IA R+ + CR RW N L P I+ +
Sbjct: 7 KAAKKQKFTPEEDEMLKRAVAQHG-SDWKMIAATFPNRNARQCRDRWKNYLAPSISHTPW 65
Query: 175 SEDEEERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVI 215
+ +E+ L+ + YG +WA+IA+ FPGRTD +KN W I
Sbjct: 66 TAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTI 106
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 171 KRAFSEDEEERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVIMA 217
K+ F+ +E+E L A +G+ W MIA FP R ++ W +A
Sbjct: 11 KQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLA 57
>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 = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 57/100 (57%)
Query: 126 EDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAFSEDEEERLMAA 185
ED KL++LV YG ++W I++ + R+ + CR RW N ++P + +S +E+ L
Sbjct: 8 EDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQK 67
Query: 186 HRVYGNKWAMIARLFPGRTDNAVKNHWHVIMARKYREQSS 225
+ YG KW I++ R+DN ++N W +I + + Q S
Sbjct: 68 YAEYGPKWNKISKFLKNRSDNNIRNRWMMIARHRAKHQKS 107
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 122 WRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWF 162
W P ED L + A YGP+ WN I++ L+ RS + R RW
Sbjct: 56 WSPEEDMLLDQKYAEYGPK-WNKISKFLKNRSDNNIRNRWM 95
>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 = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 27/51 (52%), Positives = 38/51 (74%)
Query: 169 INKRAFSEDEEERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVIMARK 219
+ K +++E+E+ L AH+ GN+WA IA+L PGRTDNA+KNHW+ M RK
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 = 61.6 bits (148), Expect = 7e-10, Method: Composition-based stats.
Identities = 26/51 (50%), Positives = 38/51 (74%)
Query: 169 INKRAFSEDEEERLMAAHRVYGNKWAMIARLFPGRTDNAVKNHWHVIMARK 219
+ K +++E+E+ + AH+ GN+WA IA+L PGRTDNA+KNHW+ M RK
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 = 60.8 bits (146), Expect = 1e-09, Method: Composition-based stats.
Identities = 25/49 (51%), Positives = 34/49 (69%)
Query: 119 RGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDP 167
+G W ED ++ ELV YGP+ W++IA+ L+GR GK CR RW N L+P
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 30.0 bits (66), Expect = 2.4, Method: Composition-based stats.
Identities = 13/44 (29%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 171 KRAFSEDEEERLMAAHRVYGNK-WAMIARLFPGRTDNAVKNHWH 213
K ++++E++R++ + YG K W++IA+ GR + WH
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWH 46
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 60.5 bits (145), Expect = 2e-09, Method: Composition-based stats.
Identities = 25/49 (51%), Positives = 34/49 (69%)
Query: 119 RGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDP 167
+G W ED +L +LV YGP+ W++IA+ L+GR GK CR RW N L+P
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 31.2 bits (69), Expect = 0.97, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 171 KRAFSEDEEERLMAAHRVYGNK-WAMIARLFPGRTDNAVKNHWH 213
K ++++E++RL+ + YG K W++IA+ GR + WH
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWH 46
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 59.3 bits (142), Expect = 4e-09, Method: Composition-based stats.
Identities = 24/49 (48%), Positives = 34/49 (69%)
Query: 119 RGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDP 167
+G W ED ++ +LV YGP+ W++IA+ L+GR GK CR RW N L+P
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 30.0 bits (66), Expect = 2.3, Method: Composition-based stats.
Identities = 13/44 (29%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 171 KRAFSEDEEERLMAAHRVYGNK-WAMIARLFPGRTDNAVKNHWH 213
K ++++E++R++ + YG K W++IA+ GR + WH
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWH 46
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of Human
Cell Division Cycle 5-Like Protein
Length = 70
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 29/54 (53%)
Query: 122 WRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAFS 175
WR ED LK V YG W+ IA L +S K C+ RW+ LDP I K +S
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWS 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 = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 26/49 (53%)
Query: 119 RGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDP 167
+ W ED KLK+LV G +W +IA L R+ C+ RW L+P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 26/49 (53%)
Query: 119 RGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQLDP 167
+ W ED KLK+LV G +W +IA L R+ C+ RW L+P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 112 GLSKVCSRGHWRPAEDSKLKELVALYGPQNWNLIAEKLEGRSGKSCRLRWFNQL 165
G S + W ED +L+ LV +G Q+W +A R+ + C+ RW L
Sbjct: 1 GSSGSSGKVKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVL 54
Score = 33.1 bits (74), Expect = 0.31, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 14/68 (20%)
Query: 151 GRSGKSCRLRWFNQLDPRINKRAFSEDEEERLMAAHRVYGNK-WAMIARLFPGRTDNAVK 209
G SG S +++W + +E+E+L A R +G + W +A FP RTD +
Sbjct: 1 GSSGSSGKVKW-------------THEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQ 47
Query: 210 NHWHVIMA 217
W +++
Sbjct: 48 YRWLRVLS 55
>pdb|2CJJ|A Chain A, Crystal Structure Of The Myb Domain Of The Rad
Transcription Factor From Antirrhinum Majus
Length = 93
Score = 29.6 bits (65), Expect = 3.4, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 168 RINKRAFSEDEEERLMAAHRVYG----NKWAMIARLFPGRTDNAVKNHWHVIM 216
R + R +S E + A VY ++WA +AR GRT VK H+ +++
Sbjct: 5 RGSGRPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEILV 57
>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 = 4.6, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 122 WRPAEDSKLKELVALY---GPQNWNLIAEKLEGRSGKSCRLRWFNQLDPRINKRAFSE 176
W E L++ + Y P+ W IAE + GR+ K C R+ ++ K+A E
Sbjct: 6 WTTEEQKLLEQALKTYPVNTPERWKKIAEAVPGRTKKDCMKRYKELVEMVKAKKAAQE 63
>pdb|1SDO|A Chain A, Crystal Structure Of Restriction Endonuclease Bstyi
pdb|1VRR|A Chain A, Crystal Structure Of The Restriction Endonuclease Bstyi
Complex With Dna
pdb|1VRR|B Chain B, Crystal Structure Of The Restriction Endonuclease Bstyi
Complex With Dna
pdb|2P0J|A Chain A, Structure Of Restriction Endonuclease Bstyi Bound To
Non-Cognate Dna
pdb|2P0J|B Chain B, Structure Of Restriction Endonuclease Bstyi Bound To
Non-Cognate Dna
Length = 203
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 136 LYGPQNWN-LIAEKLEGRSGKSCRLRWFNQLDPRINKRAFSEDEEER 181
LY P N EKLE + K R ++ DP++ + S + EE+
Sbjct: 54 LYSPVALNEAFKEKLEAKGWKESRTNYYVTADPKLIRETLSLEPEEQ 100
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 0.128 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,350,595
Number of Sequences: 62578
Number of extensions: 466856
Number of successful extensions: 9585
Number of sequences better than 100.0: 52
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 9512
Number of HSP's gapped (non-prelim): 90
length of query: 395
length of database: 14,973,337
effective HSP length: 101
effective length of query: 294
effective length of database: 8,652,959
effective search space: 2543969946
effective search space used: 2543969946
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)