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= 045411
(389 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 104 bits (260), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 48/103 (46%), Positives = 72/103 (69%), Gaps = 1/103 (0%)
Query: 16 RGPWSPGEDLRLITFIQKHGHENWRALPKQAGLLRCGKSCRLRWINYLRPDVKRGNFTQE 75
+GPW+ ED R+I +QK+G + W + K R GK CR RW N+L P+VK+ ++T+E
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWTEE 116
Query: 76 EEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNTHLKKRL 118
E+ I + H+ LGNRW++IA LPGRTDN IKN WN+ +++++
Sbjct: 117 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 104 bits (260), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 48/103 (46%), Positives = 72/103 (69%), Gaps = 1/103 (0%)
Query: 16 RGPWSPGEDLRLITFIQKHGHENWRALPKQAGLLRCGKSCRLRWINYLRPDVKRGNFTQE 75
+GPW+ ED R+I +QK+G + W + K R GK CR RW N+L P+VK+ ++T+E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 76 EEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNTHLKKRL 118
E+ I + H+ LGNRW++IA LPGRTDN IKN WN+ +++++
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 = 104 bits (259), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 48/103 (46%), Positives = 72/103 (69%), Gaps = 1/103 (0%)
Query: 16 RGPWSPGEDLRLITFIQKHGHENWRALPKQAGLLRCGKSCRLRWINYLRPDVKRGNFTQE 75
+GPW+ ED R+I +QK+G + W + K R GK CR RW N+L P+VK+ ++T+E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 76 EEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNTHLKKRL 118
E+ I + H+ LGNRW++IA LPGRTDN IKN WN+ +++++
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 103 bits (256), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 47/106 (44%), Positives = 74/106 (69%), Gaps = 1/106 (0%)
Query: 13 QVKRGPWSPGEDLRLITFIQKHGHENWRALPKQAGLLRCGKSCRLRWINYLRPDVKRGNF 72
++ +GPW+ ED R+I +QK+G + W + K R GK CR RW N+L P+VK+ ++
Sbjct: 24 ELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG-RIGKQCRERWHNHLNPEVKKTSW 82
Query: 73 TQEEEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNTHLKKRL 118
T+EE+ I + H+ LGNRW++IA LPGRTDN +KN WN+ +++++
Sbjct: 83 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 102 bits (255), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 46/103 (44%), Positives = 71/103 (68%), Gaps = 1/103 (0%)
Query: 16 RGPWSPGEDLRLITFIQKHGHENWRALPKQAGLLRCGKSCRLRWINYLRPDVKRGNFTQE 75
+GPW+ ED ++I ++K+G + W + K R GK CR RW N+L P+VK+ ++T+E
Sbjct: 7 KGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG-RLGKQCRERWHNHLNPEVKKSSWTEE 65
Query: 76 EEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNTHLKKRL 118
E+ I H+ LGNRW++IA LPGRTDN +KN WN+ +K+++
Sbjct: 66 EDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
>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 = 89.4 bits (220), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 45/106 (42%), Positives = 68/106 (64%), Gaps = 5/106 (4%)
Query: 16 RGPWSPGEDLRLITFIQKHGHENWRALPKQAGLL--RCGKSCRLRWINYLRPDVKRGNFT 73
+GP++ ED + +++++G +NW P+ L R K CR RW N+L P V + +T
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAWT 58
Query: 74 QEEEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNTHLKKRLS 119
EE++TI R + LG++WS IA +PGRTDN IKN WN+ + KR+S
Sbjct: 59 PEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRIS 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 = 61.6 bits (148), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 26/52 (50%), Positives = 41/52 (78%)
Query: 67 VKRGNFTQEEEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNTHLKKRL 118
VK+ ++T+EE+ I + H+ LGNRW++IA LPGRTDN IKN WN+ +++++
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>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 = 61.2 bits (147), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 35/101 (34%), Positives = 53/101 (52%), Gaps = 6/101 (5%)
Query: 14 VKRGPWSPGEDLRLITFIQKHGHENWRALPKQAGLL--RCGKSCRLRWINYLRPDVKRGN 71
K+ ++P ED L + +HG +W+ + A R + CR RW NYL P +
Sbjct: 9 AKKQKFTPEEDEMLKRAVAQHG-SDWKMI---AATFPNRNARQCRDRWKNYLAPSISHTP 64
Query: 72 FTQEEEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNT 112
+T EE+ +++ + G +W+ IA PGRTD IKN W T
Sbjct: 65 WTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 105
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 26/53 (49%)
Query: 67 VKRGNFTQEEEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNTHLKKRLS 119
K+ FT EE++ + R G+ W IA+ P R + ++ W +L +S
Sbjct: 9 AKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLAPSIS 61
>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 = 61.2 bits (147), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 25/53 (47%), Positives = 42/53 (79%)
Query: 66 DVKRGNFTQEEEDTIIRLHESLGNRWSKIASQLPGRTDNEIKNVWNTHLKKRL 118
+VK+ ++T+EE+ + + H+ LGNRW++IA LPGRTDN IKN WN+ +++++
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 23 EDLRLITFIQKHGHENWRALPKQAGLLRCGKSCRLRWINYLRPDVKRGNFTQEEEDTIIR 82
EDL+L + ++G ++W + Q + R + CR RW NY+ P ++ ++ EE+ + +
Sbjct: 8 EDLKLQQLVMRYGAKDWIRI-SQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQ 66
Query: 83 LHESLGNRWSKIASQLPGRTDNEIKNVW 110
+ G +W+KI+ L R+DN I+N W
Sbjct: 67 KYAEYGPKWNKISKFLKNRSDNNIRNRW 94
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 16 RGPWSPGEDLRLITFIQKHGHENWRALPKQAGLLRCGKSCRLRWINYLRPD 66
+GPW+ ED RLI +QK+G + W + K R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 69 RGNFTQEEEDTIIRLHESLG-NRWSKIASQLPGRTDNEIKNVWNTHL 114
+G +T+EE+ +I+L + G RWS IA L GR + + W+ HL
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 16 RGPWSPGEDLRLITFIQKHGHENWRALPKQAGLLRCGKSCRLRWINYLRPD 66
+GPW+ ED R+I +QK+G + W + K R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 69 RGNFTQEEEDTIIRLHESLG-NRWSKIASQLPGRTDNEIKNVWNTHL 114
+G +T+EE+ +I+L + G RWS IA L GR + + W+ HL
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 16 RGPWSPGEDLRLITFIQKHGHENWRALPKQAGLLRCGKSCRLRWINYLRPD 66
+GPW+ ED R+I +QK+G + W + K R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 69 RGNFTQEEEDTIIRLHESLG-NRWSKIASQLPGRTDNEIKNVWNTHL 114
+G +T+EE+ +I L + G RWS IA L GR + + W+ HL
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 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 = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 19 WSPGEDLRLITFIQKHGHENWRALPKQAGLL--RCGKSCRLRWINYLRPDVKRGNFT 73
W ED L + K+G W + A LL + K C+ RW +L P +K+ ++
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRI---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 = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 72 FTQEEEDTIIRLHESLG-NRWSKIASQLPGRTDNEIKNVWNTHL 114
+T+EE++ + +L E G + W IA+ LP RTD + ++ W L
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVL 49
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 72 FTQEEEDTIIRLHESLG-NRWSKIASQLPGRTDNEIKNVWNTHL 114
+T+EE++ + +L E G + W IA+ LP RTD + ++ W L
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVL 49
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
0.312 0.130 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,885,276
Number of Sequences: 62578
Number of extensions: 409469
Number of successful extensions: 772
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 732
Number of HSP's gapped (non-prelim): 35
length of query: 389
length of database: 14,973,337
effective HSP length: 101
effective length of query: 288
effective length of database: 8,652,959
effective search space: 2492052192
effective search space used: 2492052192
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)