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= 001409
(1083 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 = 128 bits (321), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 63/138 (45%), Positives = 87/138 (63%), Gaps = 1/138 (0%)
Query: 482 WTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHPSRERQGRWNPDEDQ 541
WT+EEDE+L+ VE G +W+ +A+ L RT QC +RW K L+P + G W +EDQ
Sbjct: 9 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELIK-GPWTKEEDQ 67
Query: 542 RLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSVKRSEWTEQEDLRLEAAIKE 601
R+I +GP+ W IA+ + GR QCRERW N L+P VK++ WTE+ED + A K
Sbjct: 68 RVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKR 127
Query: 602 HGYCWSKVASALPSRTDN 619
G W+++A LP RTDN
Sbjct: 128 LGNRWAEIAKLLPGRTDN 145
Score = 102 bits (254), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 57/154 (37%), Positives = 87/154 (56%), Gaps = 3/154 (1%)
Query: 429 WTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLNACILRREWTKEEDE 488
WT EE++ L ++++ G DW IA L NRT QC R+Q+ LN +++ WTKEED+
Sbjct: 9 WTREEDEKLKKLVEQNGTDDWKVIANYL-PNRTDVQCQHRWQKVLNPELIKGPWTKEEDQ 67
Query: 489 QLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHPSRERQGRWNPDEDQRLIVATM 548
++ V+ YG W +A LKGR G QC RW+ L+P ++ W +ED+ + A
Sbjct: 68 RVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTS-WTEEEDRIIYQAHK 126
Query: 549 LFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSV 582
G R W +IA+ +PGRT + W +++ V
Sbjct: 127 RLGNR-WAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
Score = 73.6 bits (179), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 41/128 (32%), Positives = 65/128 (50%), Gaps = 2/128 (1%)
Query: 398 QVASMYVQGRSGAECEARWLNFEDPLINHNPWTVEEEKSLLLIIQEKGITDWFDIAASLG 457
+V + Y+ R+ +C+ RW +P + PWT EE++ ++ ++Q+ G W IA L
Sbjct: 30 KVIANYLPNRTDVQCQHRWQKVLNPELIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHL- 88
Query: 458 TNRTPFQCLARYQRSLNACILRREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQC 517
R QC R+ LN + + WT+EED + A + G + W +A L GRT
Sbjct: 89 KGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLG-NRWAEIAKLLPGRTDNAI 147
Query: 518 SNRWNKTL 525
N WN T+
Sbjct: 148 KNHWNSTM 155
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 106 bits (265), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 51/113 (45%), Positives = 70/113 (61%), Gaps = 1/113 (0%)
Query: 507 STLKGRTGTQCSNRWNKTLHPSRERQGRWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRT 566
+ +K RT QC +RW K L+P + G W +EDQR+I +GP+ W IA+ + GR
Sbjct: 3 AVIKNRTDVQCQHRWQKVLNPELNK-GPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRI 61
Query: 567 QVQCRERWVNSLDPSVKRSEWTEQEDLRLEAAIKEHGYCWSKVASALPSRTDN 619
QCRERW N L+P VK++ WTE+ED + A K G W+++A LP RTDN
Sbjct: 62 GKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDN 114
Score = 85.5 bits (210), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 46/124 (37%), Positives = 69/124 (55%), Gaps = 2/124 (1%)
Query: 459 NRTPFQCLARYQRSLNACILRREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCS 518
NRT QC R+Q+ LN + + WTKEED+++ V+ YG W +A LKGR G QC
Sbjct: 7 NRTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCR 66
Query: 519 NRWNKTLHPSRERQGRWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSL 578
RW+ L+P ++ W +ED+ + A G R W +IA+ +PGRT + W +++
Sbjct: 67 ERWHNHLNPEVKKTS-WTEEEDRIIYQAHKRLGNR-WAEIAKLLPGRTDNAVKNHWNSTM 124
Query: 579 DPSV 582
V
Sbjct: 125 RRKV 128
Score = 76.3 bits (186), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 41/122 (33%), Positives = 63/122 (51%), Gaps = 2/122 (1%)
Query: 404 VQGRSGAECEARWLNFEDPLINHNPWTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPF 463
++ R+ +C+ RW +P +N PWT EE++ ++ +Q+ G W DIA L R
Sbjct: 5 IKNRTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHL-KGRIGK 63
Query: 464 QCLARYQRSLNACILRREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNK 523
QC R+ LN + + WT+EED + A + G + W +A L GRT N WN
Sbjct: 64 QCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLG-NRWAEIAKLLPGRTDNAVKNHWNS 122
Query: 524 TL 525
T+
Sbjct: 123 TM 124
Score = 38.5 bits (88), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 385 EMIRDFLPKVNWDQVASMYVQGRSGAECEARWLNFEDPLINHNPWTVEEEKSLLLIIQEK 444
E ++ + PK W +A +++GR G +C RW N +P + WT EEE ++ ++
Sbjct: 40 EHVQKYGPK-RWSDIAK-HLKGRIGKQCRERWHNHLNPEVKKTSWT-EEEDRIIYQAHKR 96
Query: 445 GITDWFDIAASL 456
W +IA L
Sbjct: 97 LGNRWAEIAKLL 108
>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 = 90.5 bits (223), Expect = 5e-18, Method: Composition-based stats.
Identities = 42/96 (43%), Positives = 58/96 (60%)
Query: 532 QGRWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSVKRSEWTEQE 591
+G W +EDQR+I +GP+ W IA+ + GR QCRERW N L+P VK++ WTE+E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEE 63
Query: 592 DLRLEAAIKEHGYCWSKVASALPSRTDNQCWRRWKA 627
D + A K G W+++A LP RTDN W +
Sbjct: 64 DRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 99
Score = 72.4 bits (176), Expect = 1e-12, Method: Composition-based stats.
Identities = 36/102 (35%), Positives = 58/102 (56%), Gaps = 2/102 (1%)
Query: 477 ILRREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHPSRERQGRWN 536
+++ WTKEED+++ V+ YG W +A LKGR G QC RW+ L+P ++ W
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTS-WT 60
Query: 537 PDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSL 578
+ED+ + A G R W +IA+ +PGRT + W +++
Sbjct: 61 EEEDRIIYQAHKRLGNR-WAEIAKLLPGRTDNAIKNHWNSTM 101
Score = 58.9 bits (141), Expect = 2e-08, Method: Composition-based stats.
Identities = 34/98 (34%), Positives = 50/98 (51%), Gaps = 2/98 (2%)
Query: 428 PWTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLNACILRREWTKEED 487
PWT EE++ ++ ++Q+ G W IA L R QC R+ LN + + WT+EED
Sbjct: 6 PWTKEEDQRVIKLVQKYGPKRWSVIAKHL-KGRIGKQCRERWHNHLNPEVKKTSWTEEED 64
Query: 488 EQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTL 525
+ A + G + W +A L GRT N WN T+
Sbjct: 65 RIIYQAHKRLG-NRWAEIAKLLPGRTDNAIKNHWNSTM 101
Score = 35.8 bits (81), Expect = 0.13, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 3/72 (4%)
Query: 385 EMIRDFLPKVNWDQVASMYVQGRSGAECEARWLNFEDPLINHNPWTVEEEKSLLLIIQEK 444
++++ + PK W +A +++GR G +C RW N +P + WT EEE ++ ++
Sbjct: 17 KLVQKYGPK-RWSVIAK-HLKGRIGKQCRERWHNHLNPEVKKTSWT-EEEDRIIYQAHKR 73
Query: 445 GITDWFDIAASL 456
W +IA L
Sbjct: 74 LGNRWAEIAKLL 85
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 89.4 bits (220), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 56/88 (63%)
Query: 532 QGRWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSVKRSEWTEQE 591
+G W +EDQR+I +GP+ W IA+ + GR QCRERW N L+P VK++ WTE+E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEE 63
Query: 592 DLRLEAAIKEHGYCWSKVASALPSRTDN 619
D + A K G W+++A LP RTDN
Sbjct: 64 DRIIYQAHKRLGNRWAEIAKLLPGRTDN 91
Score = 70.5 bits (171), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 59/106 (55%), Gaps = 2/106 (1%)
Query: 477 ILRREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHPSRERQGRWN 536
+++ WTKEED+++ V+ YG W +A LKGR G QC RW+ L+P ++ W
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTS-WT 60
Query: 537 PDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSV 582
+ED+ + A G R W +IA+ +PGRT + W +++ V
Sbjct: 61 EEEDRIIYQAHKRLGNR-WAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
Score = 58.5 bits (140), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/99 (34%), Positives = 50/99 (50%), Gaps = 2/99 (2%)
Query: 427 NPWTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLNACILRREWTKEE 486
PWT EE++ ++ ++Q+ G W IA L R QC R+ LN + + WT+EE
Sbjct: 5 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHL-KGRIGKQCRERWHNHLNPEVKKTSWTEEE 63
Query: 487 DEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTL 525
D + A + G + W +A L GRT N WN T+
Sbjct: 64 DRIIYQAHKRLG-NRWAEIAKLLPGRTDNAIKNHWNSTM 101
Score = 37.4 bits (85), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 3/72 (4%)
Query: 385 EMIRDFLPKVNWDQVASMYVQGRSGAECEARWLNFEDPLINHNPWTVEEEKSLLLIIQEK 444
++++ + PK W +A +++GR G +C RW N +P + WT EEE ++ ++
Sbjct: 17 KLVQKYGPK-RWSVIAK-HLKGRIGKQCRERWHNHLNPEVKKTSWT-EEEDRIIYQAHKR 73
Query: 445 GITDWFDIAASL 456
W +IA L
Sbjct: 74 LGNRWAEIAKLL 85
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 83.6 bits (205), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 40/88 (45%), Positives = 55/88 (62%)
Query: 532 QGRWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSVKRSEWTEQE 591
+G W +EDQ++I +G + W IA+ + GR QCRERW N L+P VK+S WTE+E
Sbjct: 7 KGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHLNPEVKKSSWTEEE 66
Query: 592 DLRLEAAIKEHGYCWSKVASALPSRTDN 619
D + A K G W+++A LP RTDN
Sbjct: 67 DRIIFEAHKVLGNRWAEIAKLLPGRTDN 94
Score = 72.8 bits (177), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 60/106 (56%), Gaps = 2/106 (1%)
Query: 477 ILRREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHPSRERQGRWN 536
+++ WTKEED+++ V+ YG W +A LKGR G QC RW+ L+P ++ W
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHLNPEVKKSS-WT 63
Query: 537 PDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSV 582
+ED+ + A + G R W +IA+ +PGRT + W +++ V
Sbjct: 64 EEEDRIIFEAHKVLGNR-WAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
Score = 59.3 bits (142), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/106 (33%), Positives = 53/106 (50%), Gaps = 6/106 (5%)
Query: 422 PLINHNPWTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLNACILRRE 481
P + PWT EE++ ++ ++++ G W IA L R QC R+ LN + +
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHL-KGRLGKQCRERWHNHLNPEVKKSS 61
Query: 482 WTKEEDEQLRIAVEAYG--ESNWQSVASTLKGRTGTQCSNRWNKTL 525
WT+EED RI EA+ + W +A L GRT N WN T+
Sbjct: 62 WTEEED---RIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTI 104
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 385 EMIRDFLPKVNWDQVASMYVQGRSGAECEARWLNFEDPLINHNPWTVEEEKSLL 438
E+++ + K W +A +++GR G +C RW N +P + + WT EE++ +
Sbjct: 20 ELVKKYGTK-QWTLIAK-HLKGRLGKQCRERWHNHLNPEVKKSSWTEEEDRIIF 71
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 580 PSVKRSEWTEQEDLRLEAAIKEHGYC-WSKVASALPSRTDNQCWRRWK-ALHPEA 632
P + + WT++ED ++ +K++G W+ +A L R QC RW L+PE
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHLNPEV 57
>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 = 76.6 bits (187), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 34/75 (45%), Positives = 45/75 (60%)
Query: 551 GPRNWKKIAQFVPGRTQVQCRERWVNSLDPSVKRSEWTEQEDLRLEAAIKEHGYCWSKVA 610
GP+NW +I F+P R+ QCRERW N LDP+V + WT +ED + + G WS +A
Sbjct: 21 GPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPEEDETIFRNYLKLGSKWSVIA 80
Query: 611 SALPSRTDNQCWRRW 625
+P RTDN RW
Sbjct: 81 KLIPGRTDNAIKNRW 95
Score = 62.0 bits (149), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 50/96 (52%), Gaps = 2/96 (2%)
Query: 483 TKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHPSRERQGRWNPDEDQR 542
T+ ED+ +R V+ G NW + S L R+ QC RW L P+ + W P+ED+
Sbjct: 6 TEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHA-WTPEEDET 64
Query: 543 LIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSL 578
+ + G + W IA+ +PGRT + RW +S+
Sbjct: 65 IFRNYLKLGSK-WSVIAKLIPGRTDNAIKNRWNSSI 99
Score = 57.8 bits (138), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 32/98 (32%), Positives = 50/98 (51%), Gaps = 2/98 (2%)
Query: 428 PWTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLNACILRREWTKEED 487
P+T E+ + ++E G +W I + L NR+P QC R+ L+ +++ WT EED
Sbjct: 4 PFTEAEDDLIREYVKENGPQNWPRITSFL-PNRSPKQCRERWFNHLDPAVVKHAWTPEED 62
Query: 488 EQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTL 525
E + G S W +A + GRT NRWN ++
Sbjct: 63 ETIFRNYLKLG-SKWSVIAKLIPGRTDNAIKNRWNSSI 99
Score = 39.3 bits (90), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 49/96 (51%), Gaps = 6/96 (6%)
Query: 385 EMIRDFLPK---VNWDQVASMYVQGRSGAECEARWLNFEDPLINHNPWTVEEEKSLLLII 441
++IR+++ + NW ++ S ++ RS +C RW N DP + + WT EE++++
Sbjct: 11 DLIREYVKENGPQNWPRITS-FLPNRSPKQCRERWFNHLDPAVVKHAWTPEEDETIFRNY 69
Query: 442 QEKGITDWFDIAASLGTNRTPFQCLARYQRSLNACI 477
+ G + W + A L RT R+ S++ I
Sbjct: 70 LKLG-SKW-SVIAKLIPGRTDNAIKNRWNSSISKRI 103
Score = 32.3 bits (72), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 588 TEQEDLRLEAAIKEHG-YCWSKVASALPSRTDNQCWRRW 625
TE ED + +KE+G W ++ S LP+R+ QC RW
Sbjct: 6 TEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERW 44
>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 = 71.6 bits (174), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 38/98 (38%), Positives = 55/98 (56%), Gaps = 3/98 (3%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHPSRERQGRWNPD 538
++++T EEDE L+ AV +G S+W+ +A+T R QC +RW L PS W +
Sbjct: 11 KQKFTPEEDEMLKRAVAQHG-SDWKMIAATFPNRNARQCRDRWKNYLAPSISHTP-WTAE 68
Query: 539 EDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVN 576
ED L+ +G R W IA+F PGRT + + RWV
Sbjct: 69 EDALLVQKIQEYG-RQWAIIAKFFPGRTDIHIKNRWVT 105
Score = 71.6 bits (174), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 52/95 (54%), Gaps = 1/95 (1%)
Query: 531 RQGRWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSVKRSEWTEQ 590
++ ++ P+ED+ L A G +WK IA P R QCR+RW N L PS+ + WT +
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGS-DWKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAE 68
Query: 591 EDLRLEAAIKEHGYCWSKVASALPSRTDNQCWRRW 625
ED L I+E+G W+ +A P RTD RW
Sbjct: 69 EDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRW 103
Score = 50.4 bits (119), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 33/92 (35%), Positives = 44/92 (47%), Gaps = 3/92 (3%)
Query: 430 TVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLNACILRREWTKEEDEQ 489
T EE++ L + + G +DW IAA+ NR QC R++ L I WT EED
Sbjct: 15 TPEEDEMLKRAVAQHG-SDWKMIAATF-PNRNARQCRDRWKNYLAPSISHTPWTAEEDAL 72
Query: 490 LRIAVEAYGESNWQSVASTLKGRTGTQCSNRW 521
L ++ YG W +A GRT NRW
Sbjct: 73 LVQKIQEYGR-QWAIIAKFFPGRTDIHIKNRW 103
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 395 NWDQVASMYVQGRSGAECEARWLNFEDPLINHNPWTVEEEKSLLLIIQEKGITDWFDIAA 454
+W +A+ + R+ +C RW N+ P I+H PWT EE+ L+ IQE G + I A
Sbjct: 32 DWKMIAATF-PNRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKIQEYGRQ--WAIIA 88
Query: 455 SLGTNRTPFQCLARY 469
RT R+
Sbjct: 89 KFFPGRTDIHIKNRW 103
Score = 39.3 bits (90), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 28/46 (60%)
Query: 581 SVKRSEWTEQEDLRLEAAIKEHGYCWSKVASALPSRTDNQCWRRWK 626
+ K+ ++T +ED L+ A+ +HG W +A+ P+R QC RWK
Sbjct: 8 AAKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWK 53
>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 = 70.1 bits (170), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 55/91 (60%)
Query: 538 DEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSVKRSEWTEQEDLRLEA 597
+ED +L M +G ++W +I+Q + R QCRERW N ++P+++ W+ +ED+ L+
Sbjct: 7 EEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQ 66
Query: 598 AIKEHGYCWSKVASALPSRTDNQCWRRWKAL 628
E+G W+K++ L +R+DN RW +
Sbjct: 67 KYAEYGPKWNKISKFLKNRSDNNIRNRWMMI 97
Score = 60.5 bits (145), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 51/93 (54%), Gaps = 2/93 (2%)
Query: 483 TKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHPSRERQGRWNPDEDQR 542
T+EED +L+ V YG +W ++ + R QC RWN ++P+ R W+P+ED
Sbjct: 5 TEEEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPA-LRTDPWSPEEDML 63
Query: 543 LIVATMLFGPRNWKKIAQFVPGRTQVQCRERWV 575
L +GP+ W KI++F+ R+ R RW+
Sbjct: 64 LDQKYAEYGPK-WNKISKFLKNRSDNNIRNRWM 95
Score = 48.1 bits (113), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 41/92 (44%), Gaps = 2/92 (2%)
Query: 430 TVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLNACILRREWTKEEDEQ 489
T EE+ L ++ G DW I+ + T R P QC R+ +N + W+ EED
Sbjct: 5 TEEEDLKLQQLVMRYGAKDWIRISQLMIT-RNPRQCRERWNNYINPALRTDPWSPEEDML 63
Query: 490 LRIAVEAYGESNWQSVASTLKGRTGTQCSNRW 521
L YG W ++ LK R+ NRW
Sbjct: 64 LDQKYAEYG-PKWNKISKFLKNRSDNNIRNRW 94
Score = 30.0 bits (66), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 395 NWDQVASMYVQGRSGAECEARWLNFEDPLINHNPWTVEEEKSL 437
+W +++ + + R+ +C RW N+ +P + +PW+ EE+ L
Sbjct: 23 DWIRISQLMI-TRNPRQCRERWNNYINPALRTDPWSPEEDMLL 64
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 55.8 bits (133), Expect = 1e-07, Method: Composition-based stats.
Identities = 24/49 (48%), Positives = 31/49 (63%)
Query: 532 QGRWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDP 580
+G W +EDQRLI +GP+ W IA+ + GR QCRERW N L+P
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 54.3 bits (129), Expect = 4e-07, Method: Composition-based stats.
Identities = 23/51 (45%), Positives = 32/51 (62%)
Query: 477 ILRREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHP 527
+++ WTKEED++L V+ YG W +A LKGR G QC RW+ L+P
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 35.0 bits (79), Expect = 0.25, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 584 RSEWTEQEDLRLEAAIKEHG-YCWSKVASALPSRTDNQCWRRW-KALHPE 631
+ WT++ED RL ++++G WS +A L R QC RW L+PE
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPE 52
Score = 32.7 bits (73), Expect = 1.2, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 428 PWTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLN 474
PWT EE++ L+ ++Q+ G W IA L R QC R+ LN
Sbjct: 5 PWTKEEDQRLIKLVQKYGPKRWSVIAKHL-KGRIGKQCRERWHNHLN 50
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 54.7 bits (130), Expect = 3e-07, Method: Composition-based stats.
Identities = 23/49 (46%), Positives = 31/49 (63%)
Query: 532 QGRWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDP 580
+G W +EDQR+I +GP+ W IA+ + GR QCRERW N L+P
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 53.1 bits (126), Expect = 9e-07, Method: Composition-based stats.
Identities = 22/51 (43%), Positives = 32/51 (62%)
Query: 477 ILRREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHP 527
+++ WTKEED+++ V+ YG W +A LKGR G QC RW+ L+P
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 33.5 bits (75), Expect = 0.58, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 584 RSEWTEQEDLRLEAAIKEHG-YCWSKVASALPSRTDNQCWRRW-KALHPE 631
+ WT++ED R+ ++++G WS +A L R QC RW L+PE
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPE 52
Score = 31.6 bits (70), Expect = 2.7, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 428 PWTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLN 474
PWT EE++ ++ ++Q+ G W IA L R QC R+ LN
Sbjct: 5 PWTKEEDQRVIKLVQKYGPKRWSVIAKHL-KGRIGKQCRERWHNHLN 50
>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 = 54.3 bits (129), Expect = 3e-07, Method: Composition-based stats.
Identities = 23/49 (46%), Positives = 31/49 (63%)
Query: 532 QGRWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDP 580
+G W +EDQR+I +GP+ W IA+ + GR QCRERW N L+P
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 52.4 bits (124), Expect = 1e-06, Method: Composition-based stats.
Identities = 22/51 (43%), Positives = 32/51 (62%)
Query: 477 ILRREWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHP 527
+++ WTKEED+++ V+ YG W +A LKGR G QC RW+ L+P
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51
Score = 33.5 bits (75), Expect = 0.67, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 584 RSEWTEQEDLRLEAAIKEHG-YCWSKVASALPSRTDNQCWRRW-KALHPE 631
+ WT++ED R+ ++++G WS +A L R QC RW L+PE
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPE 52
Score = 31.2 bits (69), Expect = 3.2, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 428 PWTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLN 474
PWT EE++ ++ ++Q+ G W IA L R QC R+ LN
Sbjct: 5 PWTKEEDQRVIELVQKYGPKRWSVIAKHL-KGRIGKQCRERWHNHLN 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 = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 31/46 (67%)
Query: 482 WTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHP 527
WT+EEDE+L+ VE G +W+ +A+ L RT QC +RW K L+P
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 28/47 (59%)
Query: 534 RWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDP 580
RW +ED++L G +WK IA ++P RT VQC+ RW L+P
Sbjct: 5 RWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 34/50 (68%), Gaps = 2/50 (4%)
Query: 584 RSEWTEQEDLRLEAAIKEHGYC-WSKVASALPSRTDNQCWRRW-KALHPE 631
++ WT +ED +L+ ++++G W +A+ LP+RTD QC RW K L+PE
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPE 52
Score = 38.5 bits (88), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 429 WTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLN 474
WT EE++ L ++++ G DW IA L NRT QC R+Q+ LN
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYL-PNRTDVQCQHRWQKVLN 50
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 31/46 (67%)
Query: 482 WTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHP 527
WT+EEDE+L+ VE G +W+ +A+ L RT QC +RW K L+P
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 28/47 (59%)
Query: 534 RWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDP 580
RW +ED++L G +WK IA ++P RT VQC+ RW L+P
Sbjct: 5 RWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 34/50 (68%), Gaps = 2/50 (4%)
Query: 584 RSEWTEQEDLRLEAAIKEHGYC-WSKVASALPSRTDNQCWRRW-KALHPE 631
++ WT +ED +L+ ++++G W +A+ LP+RTD QC RW K L+PE
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPE 52
Score = 38.5 bits (88), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 429 WTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLN 474
WT EE++ L ++++ G DW IA L NRT QC R+Q+ LN
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYL-PNRTDVQCQHRWQKVLN 50
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of Human
Cell Division Cycle 5-Like Protein
Length = 70
Score = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 32/54 (59%)
Query: 535 WNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSVKRSEWT 588
W ED+ L A M +G W +IA + ++ QC+ RW LDPS+K++EW+
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
Score = 43.5 bits (101), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%)
Query: 482 WTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTLHPS 528
W EDE L+ AV YG++ W +AS L ++ QC RW + L PS
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPS 58
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 393 KVNWDQVASMYVQGRSGAECEARWLNFEDPLINHNPWT 430
K W ++AS+ + +S +C+ARW + DP I W+
Sbjct: 29 KNQWSRIASL-LHRKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 28/45 (62%)
Query: 481 EWTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTL 525
+WT EEDEQLR V +G+ +W+ +AS RT QC RW + L
Sbjct: 10 KWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVL 54
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 26/45 (57%)
Query: 534 RWNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSL 578
+W +ED++L FG ++WK +A P RT QC+ RW+ L
Sbjct: 10 KWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVL 54
Score = 38.5 bits (88), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 581 SVKRSEWTEQEDLRLEAAIKEHGYC-WSKVASALPSRTDNQCWRRW 625
S + +WT +ED +L A +++ G W +AS P+RTD QC RW
Sbjct: 5 SSGKVKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRW 50
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 429 WTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLNA 475
WT EE++ L ++++ G DW +A+ NRT QC R+ R L+
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHF-PNRTDQQCQYRWLRVLSG 56
>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 = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/38 (50%), Positives = 25/38 (65%)
Query: 582 VKRSEWTEQEDLRLEAAIKEHGYCWSKVASALPSRTDN 619
VK++ WTE+ED L A K G W+++A LP RTDN
Sbjct: 3 VKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDN 40
Score = 33.1 bits (74), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 482 WTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTL 525
WT+EED L A + G + W +A L GRT N WN T+
Sbjct: 8 WTEEEDRILYQAHKRLG-NRWAEIAKLLPGRTDNAIKNHWNSTM 50
Score = 31.2 bits (69), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 535 WNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSV 582
W +ED+ L A G R W +IA+ +PGRT + W +++ V
Sbjct: 8 WTEEEDRILYQAHKRLGNR-WAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>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 = 39.3 bits (90), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 25/38 (65%)
Query: 582 VKRSEWTEQEDLRLEAAIKEHGYCWSKVASALPSRTDN 619
VK++ WTE+ED + A K G W+++A LP RTDN
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDN 38
Score = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 482 WTKEEDEQLRIAVEAYGESNWQSVASTLKGRTGTQCSNRWNKTL 525
WT+EED + A + G + W +A L GRT N WN T+
Sbjct: 6 WTEEEDRIIYQAHKRLG-NRWAEIAKLLPGRTDNAIKNHWNSTM 48
Score = 30.0 bits (66), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 535 WNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSV 582
W +ED+ + A G R W +IA+ +PGRT + W +++ V
Sbjct: 6 WTEEEDRIIYQAHKRLGNR-WAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>pdb|3SJM|A Chain A, Crystal Structure Analysis Of Trf2-Dbd-Dna Complex
pdb|3SJM|B Chain B, Crystal Structure Analysis Of Trf2-Dbd-Dna Complex
Length = 64
Score = 37.4 bits (85), Expect = 0.046, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVAST--LKGRTGTQCSNRW 521
+++WT EE E ++ V+ YGE NW +++ RT +RW
Sbjct: 11 KQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 55
>pdb|1W0U|A Chain A, Htrf2 Dna-Binding Domain In Complex With Telomeric Dna.
pdb|1W0U|B Chain B, Htrf2 Dna-Binding Domain In Complex With Telomeric Dna
Length = 55
Score = 37.0 bits (84), Expect = 0.064, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVAST--LKGRTGTQCSNRW 521
+++WT EE E ++ V+ YGE NW +++ RT +RW
Sbjct: 2 KQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 46
>pdb|1IV6|A Chain A, Solution Structure Of The Dna Complex Of Human Trf1
Length = 70
Score = 36.6 bits (83), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVASTLK--GRTGTQCSNRW 521
R+ W EED+ LR V YGE NW + K RT +RW
Sbjct: 11 RQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 55
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 526 HPSRERQGRWNPDEDQRLIVATMLFGPRNWKKIAQFVP--GRTQVQCRERW 574
H +R+RQ W +ED+ L +G NW KI RT V ++RW
Sbjct: 6 HRARKRQA-WLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 55
>pdb|1XG1|A Chain A, Solution Structure Of Myb-Domain Of Human Trf2
Length = 67
Score = 36.6 bits (83), Expect = 0.074, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVAST--LKGRTGTQCSNRW 521
+++WT EE E ++ V+ YGE NW +++ RT +RW
Sbjct: 14 KQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 58
>pdb|1ITY|A Chain A, Solution Structure Of The Dna Binding Domain Of Human Trf1
Length = 69
Score = 36.6 bits (83), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVASTLK--GRTGTQCSNRW 521
R+ W EED+ LR V YGE NW + K RT +RW
Sbjct: 10 RQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 54
Score = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 526 HPSRERQGRWNPDEDQRLIVATMLFGPRNWKKIAQFVP--GRTQVQCRERW 574
H +R+RQ W +ED+ L +G NW KI RT V ++RW
Sbjct: 5 HRARKRQA-WLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 54
>pdb|1BA5|A Chain A, Dna-Binding Domain Of Human Telomeric Protein, Htrf1, Nmr,
18 Structures
Length = 53
Score = 36.2 bits (82), Expect = 0.090, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVASTLK--GRTGTQCSNRW 521
R+ W EED+ LR V YGE NW + K RT +RW
Sbjct: 3 RQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 47
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2
Length = 64
Score = 36.2 bits (82), Expect = 0.090, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVAST--LKGRTGTQCSNRW 521
+++WT EE E ++ V+ YGE NW +++ RT +RW
Sbjct: 11 KQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 55
>pdb|1W0T|A Chain A, Htrf1 Dna-Binding Domain In Complex With Telomeric Dna.
pdb|1W0T|B Chain B, Htrf1 Dna-Binding Domain In Complex With Telomeric Dna
Length = 53
Score = 36.2 bits (82), Expect = 0.091, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVASTLK--GRTGTQCSNRW 521
R+ W EED+ LR V YGE NW + K RT +RW
Sbjct: 2 RQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 46
>pdb|1VFC|A Chain A, Solution Structure Of The Dna Complex Of Human Trf2
Length = 63
Score = 36.2 bits (82), Expect = 0.098, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 479 RREWTKEEDEQLRIAVEAYGESNWQSVAST--LKGRTGTQCSNRW 521
+++WT EE E ++ V+ YGE NW +++ RT +RW
Sbjct: 10 KQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 54
>pdb|3TED|A Chain A, Crystal Structure Of The Chd1 Dna-Binding Domain In
Complex With A Dna Duplex
Length = 271
Score = 34.7 bits (78), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 482 WTKEEDEQLRIAVEAYGESNWQSV 505
WTKEEDE+L I V YG +W +
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQI 195
>pdb|2M2E|A Chain A, Solution Nmr Structure Of The Sant Domain Of Human Dnajc2,
Northeast Structural Genomics Consortium Target Hr8254a
Length = 73
Score = 33.5 bits (75), Expect = 0.61, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 585 SEWTEQEDLRLEAAIKEHGYC----WSKVASALPSRTDNQCWRRWKAL 628
+ WT +E LE A+K + W K+A A+P RT C +R+K L
Sbjct: 4 TPWTTEEQKLLEQALKTYPVNTPERWKKIAEAVPGRTKKDCMKRYKEL 51
Score = 32.0 bits (71), Expect = 1.9, Method: Composition-based stats.
Identities = 13/23 (56%), Positives = 17/23 (73%)
Query: 552 PRNWKKIAQFVPGRTQVQCRERW 574
P WKKIA+ VPGRT+ C +R+
Sbjct: 26 PERWKKIAEAVPGRTKKDCMKRY 48
>pdb|2DIN|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of Human
Cell Division Cycle 5-Like Protein
Length = 66
Score = 33.5 bits (75), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 535 WNPDEDQRLIVATMLFGPRNWKKIAQFVPGRTQVQCRERWVNSLDPSVKR 584
W+ +E+++L+ L P W+ IA + GRT QC E + LD + +R
Sbjct: 12 WSREEEEKLLHLAKLM-PTQWRTIAPII-GRTAAQCLEHYEFLLDKAAQR 59
>pdb|2ELK|A Chain A, Solution Structure Of The Sant Domain Of Fission Yeast
Spcc24b10.08c Protein
Length = 58
Score = 32.0 bits (71), Expect = 1.9, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 535 WNPDEDQRLIVATMLFGPRNWKKIAQFV-PGRTQVQCRERWVNS 577
W DE+ LI A G NW IA +V RT+ +CR+ ++ +
Sbjct: 12 WGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYLKT 55
Score = 30.0 bits (66), Expect = 8.2, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 429 WTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRS 472
W +EE L+ + G+ +W DIA +G RT +C Y ++
Sbjct: 12 WGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYLKT 55
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 32.0 bits (71), Expect = 2.0, Method: Composition-based stats.
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 482 WTKEEDEQLRIAVEAYGESNWQSV 505
WTKEEDE+L I V YG +W +
Sbjct: 171 WTKEEDEKLLIGVFKYGYGSWTQI 194
>pdb|2CQR|A Chain A, Solution Structure Of Rsgi Ruh-043, A Myb Dna-Binding
Domain In Human Cdna
Length = 73
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 587 WTEQEDLRLEAAIKEHGY----CWSKVASALPSRTDNQCWRRWKAL 628
WT+ + LE A++++ CW K+A +PS++ C R+K L
Sbjct: 21 WTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLL 66
>pdb|3LGB|A Chain A, Crystal Structure Of The Fe-S Domain Of The Yeast Dna
Primase
pdb|3LGB|B Chain B, Crystal Structure Of The Fe-S Domain Of The Yeast Dna
Primase
Length = 194
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%)
Query: 190 SDECNRLSVLSQKQSSNFPKSAQVFIDAIKKNRSYQKFIRSKLT 233
SDE N SV S++ SSN+P + + +KKN + + R +L+
Sbjct: 1 SDEINAQSVWSEEISSNYPLCIKNLXEGLKKNHHLRYYGRQQLS 44
>pdb|3NIY|A Chain A, Crystal Structure Of Native Xylanase 10b From Thermotoga
Petrophila Rku-1
pdb|3NIY|B Chain B, Crystal Structure Of Native Xylanase 10b From Thermotoga
Petrophila Rku-1
pdb|3NJ3|A Chain A, Crystal Structure Of Xylanase 10b From Thermotoga
Petrophila Rku-1 In Complex With Xylobiose
pdb|3NJ3|B Chain B, Crystal Structure Of Xylanase 10b From Thermotoga
Petrophila Rku-1 In Complex With Xylobiose
Length = 341
Score = 30.8 bits (68), Expect = 4.3, Method: Composition-based stats.
Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 7/84 (8%)
Query: 469 YQRSLNACILRREWTKEE-----DEQLRIAVEAY-GESNWQSVASTLKGRTGTQCSNRWN 522
+ L I REWTKEE ++ ++ V + G V + +GT + W
Sbjct: 105 WHNQLPGWITGREWTKEELLNVLEDHIKTVVSHFKGRVKIWDVVNEAVSDSGTYRESVWY 164
Query: 523 KTLHPSR-ERQGRWNPDEDQRLIV 545
KT+ P E+ RW + D I+
Sbjct: 165 KTIGPEYIEKAFRWTKEADPDAIL 188
>pdb|1X41|A Chain A, Solution Structure Of The Myb-Like Dna Binding Domain Of
Human Transcriptional Adaptor 2-Like, Isoform B
Length = 60
Score = 30.8 bits (68), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 429 WTVEEEKSLLLIIQEKGITDWFDIAASLGTNRTPFQCLARYQRSLNA 475
WT +EE +LL + + G +W D+A + T +T +C Y + +
Sbjct: 11 WTAQEEMALLEAVMDCGFGNWQDVANQMCT-KTKEECEKHYMKYFSG 56
>pdb|2LTP|A Chain A, Solution Structure Of The Sant2 Domain Of The Human
Nuclear Receptor Corepressor 2 (Ncor2), Northeast
Structural Genomics Consortium (Nesg) Target Id Hr4636e
Length = 89
Score = 30.8 bits (68), Expect = 4.7, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 21/35 (60%)
Query: 587 WTEQEDLRLEAAIKEHGYCWSKVASALPSRTDNQC 621
WTE+E + + EHG WS +A + S+T +QC
Sbjct: 19 WTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQC 53
>pdb|1VBR|A Chain A, Crystal Structure Of Complex Xylanase 10b From Thermotoga
Maritima With Xylobiose
pdb|1VBR|B Chain B, Crystal Structure Of Complex Xylanase 10b From Thermotoga
Maritima With Xylobiose
pdb|1VBU|A Chain A, Crystal Structure Of Native Xylanase 10b From Thermotoga
Maritima
pdb|1VBU|B Chain B, Crystal Structure Of Native Xylanase 10b From Thermotoga
Maritima
Length = 328
Score = 30.0 bits (66), Expect = 8.1, Method: Composition-based stats.
Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 7/84 (8%)
Query: 469 YQRSLNACILRREWTKEE-----DEQLRIAVEAY-GESNWQSVASTLKGRTGTQCSNRWN 522
+ L I REWTKEE ++ ++ V + G V + +GT + W
Sbjct: 89 WHNQLPGWITGREWTKEELLNVLEDHIKTVVSHFKGRVKIWDVVNEAVSDSGTYRESVWY 148
Query: 523 KTLHPSR-ERQGRWNPDEDQRLIV 545
KT+ P E+ RW + D I+
Sbjct: 149 KTIGPEYIEKAFRWAKEADPDAIL 172
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
0.313 0.128 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,626,145
Number of Sequences: 62578
Number of extensions: 1128200
Number of successful extensions: 2002
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 35
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1819
Number of HSP's gapped (non-prelim): 141
length of query: 1083
length of database: 14,973,337
effective HSP length: 109
effective length of query: 974
effective length of database: 8,152,335
effective search space: 7940374290
effective search space used: 7940374290
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: 57 (26.6 bits)