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= 042846
(243 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 = 91.7 bits (226), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 42/104 (40%), Positives = 70/104 (67%), Gaps = 1/104 (0%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYT 71
+ KG W+KEED ++ ++ KYG W ++ K R GK CR RW N+L P++K ++T
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 83
Query: 72 KEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115
+EE+ I + ++ GN+W+ IA LPGRTDN +KN+W++ ++++
Sbjct: 84 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRK 127
Score = 50.4 bits (119), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 44/83 (53%), Gaps = 5/83 (6%)
Query: 47 SRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIK 105
+R C+ RW L P++ G +TKEE+ +I Q++G K WS IA L GR + +
Sbjct: 7 NRTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCR 66
Query: 106 NYWHTHLKKRKNKDPASSSSTQE 128
WH HL N + +S T+E
Sbjct: 67 ERWHNHL----NPEVKKTSWTEE 85
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 90.5 bits (223), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 66/104 (63%), Gaps = 1/104 (0%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYT 71
+ KG W+KEED K+ + KYG W + K R GK CR RW N+L P++K ++T
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLK-GRLGKQCRERWHNHLNPEVKKSSWT 63
Query: 72 KEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115
+EE+ I + GN+W+ IA LPGRTDN +KN+W++ +K++
Sbjct: 64 EEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRK 107
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 39/67 (58%), Gaps = 5/67 (7%)
Query: 63 PDIKHGNYTKEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIKNYWHTHLKKRKNKDPA 121
PD+ G +TKEE+ +I L +++G K W+LIA L GR + + WH HL N +
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHL----NPEVK 58
Query: 122 SSSSTQE 128
SS T+E
Sbjct: 59 KSSWTEE 65
>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 = 89.4 bits (220), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 43/102 (42%), Positives = 67/102 (65%), Gaps = 1/102 (0%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKE 73
KG W+KEED ++ + KYG W + K R GK CR RW N+L P++K ++T+E
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 116
Query: 74 EEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115
E+ I + ++ GN+W+ IA LPGRTDN IKN+W++ ++++
Sbjct: 117 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 158
Score = 68.6 bits (166), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 40/118 (33%), Positives = 66/118 (55%), Gaps = 6/118 (5%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYT 71
+ K W++EED+KL+ + + G +W + + +R C+ RW L P++ G +T
Sbjct: 4 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPELIKGPWT 62
Query: 72 KEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIKNYWHTHLKKRKNKDPASSSSTQE 128
KEE+ +I+L Q++G K WS+IA L GR + + WH HL N + +S T+E
Sbjct: 63 KEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL----NPEVKKTSWTEE 116
>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 = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 43/102 (42%), Positives = 67/102 (65%), Gaps = 1/102 (0%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKE 73
KG W+KEED ++ + KYG W + K R GK CR RW N+L P++K ++T+E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 74 EEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115
E+ I + ++ GN+W+ IA LPGRTDN IKN+W++ ++++
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 104
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 68 GNYTKEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIKNYWHTHLKKRKNKDPASSSST 126
G +TKEE+ +I+L Q++G K WS+IA L GR + + WH HL N + +S T
Sbjct: 5 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL----NPEVKKTSWT 60
Query: 127 QE 128
+E
Sbjct: 61 EE 62
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 43/102 (42%), Positives = 67/102 (65%), Gaps = 1/102 (0%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKE 73
KG W+KEED ++ + KYG W + K R GK CR RW N+L P++K ++T+E
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 74 EEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115
E+ I + ++ GN+W+ IA LPGRTDN IKN+W++ ++++
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 104
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 68 GNYTKEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIKNYWHTHLKKRKNKDPASSSST 126
G +TKEE+ +I+L Q++G K WS+IA L GR + + WH HL N + +S T
Sbjct: 5 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL----NPEVKKTSWT 60
Query: 127 QE 128
+E
Sbjct: 61 EE 62
>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 = 88.2 bits (217), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 44/102 (43%), Positives = 64/102 (62%), Gaps = 1/102 (0%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKE 73
KG +++ EDD +R Y+ + G NW + F +R K CR RW N+L P + +T E
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLP-NRSPKQCRERWFNHLDPAVVKHAWTPE 60
Query: 74 EEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115
E++TI R + G+KWS+IA +PGRTDN IKN W++ + KR
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 = 71.6 bits (174), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 37/98 (37%), Positives = 59/98 (60%), Gaps = 2/98 (2%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTK 72
KK ++ EED+ L+ + ++G +W ++ +R + CR RW NYL P I H +T
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGS-DW-KMIAATFPNRNARQCRDRWKNYLAPSISHTPWTA 67
Query: 73 EEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHT 110
EE+ +++ Q++G +W++IA PGRTD IKN W T
Sbjct: 68 EEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 105
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 66 KHGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHL 112
K +T EE++ + R QHG+ W +IAA P R + ++ W +L
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYL 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 = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 57/95 (60%), Gaps = 1/95 (1%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKE 73
K +++EED KL+ +++YG +W + + ++R + CR RW NY+ P ++ ++ E
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLM-ITRNPRQCRERWNNYINPALRTDPWSPE 59
Query: 74 EEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYW 108
E+ + + ++G KW+ I+ L R+DN I+N W
Sbjct: 60 EDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
>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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 38/51 (74%)
Query: 65 IKHGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115
+K ++T+EE+ I + ++ GN+W+ IA LPGRTDN IKN+W++ ++++
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 51
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 39/52 (75%)
Query: 64 DIKHGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115
++K ++T+EE+ + + ++ GN+W+ IA LPGRTDN IKN+W++ ++++
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 53
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPD 64
+ KG W+KEED +L + KYG W + K R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 68 GNYTKEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIKNYWHTHL 112
G +TKEE+ +I+L Q++G K WS+IA L GR + + WH HL
Sbjct: 4 GPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPD 64
KG W+KEED ++ + KYG W + K R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 42.0 bits (97), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 68 GNYTKEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIKNYWHTHL 112
G +TKEE+ +I+L Q++G K WS+IA L GR + + WH HL
Sbjct: 4 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 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 = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPD 64
KG W+KEED ++ + KYG W + K R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 41.2 bits (95), Expect = 5e-04, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 68 GNYTKEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIKNYWHTHL 112
G +TKEE+ +I L Q++G K WS+IA L GR + + WH HL
Sbjct: 4 GPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 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 = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 16 AWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYT 71
W ED+ L+A ++KYG W + + K C+ RW +L P IK ++
Sbjct: 11 VWRNTEDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|2LLK|A Chain A, Solution Nmr Structure Of The N-Terminal Myb-Like 1 Domain
Of The Human Cyclin-D-Binding Transcription Factor 1
(Hdmp1), Northeast Structural Genomics Consortium (Nesg)
Target Id Hr8011a
Length = 73
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 29/48 (60%), Gaps = 2/48 (4%)
Query: 60 YLRPDIKH-GNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKN 106
Y + D H G YT EE + + LR +HGN W+ I A L GR+ + +K+
Sbjct: 15 YFQGDRNHVGKYTPEEIEKLKELRIKHGNDWATIGAAL-GRSASSVKD 61
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYL 61
K W+ EED++LRA + ++G +W L +R + C+ RW+ L
Sbjct: 8 KVKWTHEEDEQLRALVRQFGQQDWKFLASHF-PNRTDQQCQYRWLRVL 54
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 70 YTKEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIKNYW 108
+T EE++ + L +Q G + W +A+ P RTD + + W
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRW 50
>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 = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 62 RPDIKHGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKRKNKD 119
R ++ +T+EE T + +HG WS IA + +T ++ KN++ + KKR+N D
Sbjct: 11 RENLYFQGWTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNY-KKRQNLD 67
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 17 WSKEEDDKLRAYILKYGHWNWGEL 40
W+KEED+KL + KYG+ +W ++
Sbjct: 171 WTKEEDEKLLIGVFKYGYGSWTQI 194
>pdb|3TED|A Chain A, Crystal Structure Of The Chd1 Dna-Binding Domain In
Complex With A Dna Duplex
Length = 271
Score = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 17 WSKEEDDKLRAYILKYGHWNWGEL 40
W+KEED+KL + KYG+ +W ++
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQI 195
>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 = 31.2 bits (69), Expect = 0.59, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 70 YTKEEEDTIIRLRQQHG-NKWSLIAAKLPGRTDNEIKNYWHTHL 112
+T+EE++ + +L +Q+G + W +IA LP RTD + ++ W L
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVL 49
Score = 29.3 bits (64), Expect = 2.2, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPD 64
+ K W++EED+KL+ + + G +W + + +R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 31.2 bits (69), Expect = 0.59, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 70 YTKEEEDTIIRLRQQHG-NKWSLIAAKLPGRTDNEIKNYWHTHL 112
+T+EE++ + +L +Q+G + W +IA LP RTD + ++ W L
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVL 49
Score = 29.3 bits (64), Expect = 2.2, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPD 64
+ K W++EED+KL+ + + G +W + + +R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 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 = 29.6 bits (65), Expect = 1.8, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 10 NGMKKGAWSKEEDDKLRAYILKYGHWNWGELPK-FAGLSRCGKSCRLRWMNYLR 62
N KK W+ EE + ++A + KYG NW + K + ++R + RW R
Sbjct: 7 NITKKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 60
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2
Length = 64
Score = 29.3 bits (64), Expect = 2.1, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 10 NGMKKGAWSKEEDDKLRAYILKYGHWNWGELPK-FAGLSRCGKSCRLRWMNYLR 62
N KK W+ EE + ++A + KYG NW + K + ++R + RW R
Sbjct: 7 NITKKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 60
>pdb|1XG1|A Chain A, Solution Structure Of Myb-Domain Of Human Trf2
Length = 67
Score = 28.9 bits (63), Expect = 2.4, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 10 NGMKKGAWSKEEDDKLRAYILKYGHWNWGELPK-FAGLSRCGKSCRLRWMNYLR 62
N KK W+ EE + ++A + KYG NW + K + ++R + RW R
Sbjct: 10 NITKKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 63
>pdb|1VFC|A Chain A, Solution Structure Of The Dna Complex Of Human Trf2
Length = 63
Score = 28.9 bits (63), Expect = 2.4, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 10 NGMKKGAWSKEEDDKLRAYILKYGHWNWGELPK-FAGLSRCGKSCRLRWMNYLR 62
N KK W+ EE + ++A + KYG NW + K + ++R + RW R
Sbjct: 6 NITKKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 59
>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 = 28.5 bits (62), Expect = 3.1, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWGELPK-FAGLSRCGKSCRLRWMNYLR 62
KK W+ EE + ++A + KYG NW + K + ++R + RW R
Sbjct: 1 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 51
>pdb|1IV6|A Chain A, Solution Structure Of The Dna Complex Of Human Trf1
Length = 70
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWGEL 40
K+ AW EED LR+ + KYG NW ++
Sbjct: 10 KRQAWLWEEDKNLRSGVRKYGEGNWSKI 37
>pdb|1ITY|A Chain A, Solution Structure Of The Dna Binding Domain Of Human
Trf1
Length = 69
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWGEL 40
K+ AW EED LR+ + KYG NW ++
Sbjct: 9 KRQAWLWEEDKNLRSGVRKYGEGNWSKI 36
>pdb|1BA5|A Chain A, Dna-Binding Domain Of Human Telomeric Protein, Htrf1,
Nmr, 18 Structures
Length = 53
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWGEL 40
K+ AW EED LR+ + KYG NW ++
Sbjct: 2 KRQAWLWEEDKNLRSGVRKYGEGNWSKI 29
>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 = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWGEL 40
K+ AW EED LR+ + KYG NW ++
Sbjct: 1 KRQAWLWEEDKNLRSGVRKYGEGNWSKI 28
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 0.130 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,061,694
Number of Sequences: 62578
Number of extensions: 341998
Number of successful extensions: 713
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 644
Number of HSP's gapped (non-prelim): 54
length of query: 243
length of database: 14,973,337
effective HSP length: 96
effective length of query: 147
effective length of database: 8,965,849
effective search space: 1317979803
effective search space used: 1317979803
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)