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= 048053
(75 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 = 53.1 bits (126), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 40/63 (63%), Gaps = 5/63 (7%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPKS-----GKSCRLRWMNYLRPDIKHGNYTK 66
+ KG W+KEED ++ ++ KYG W+ + K GK CR RW N+L P++K ++T+
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTE 84
Query: 67 EEE 69
EE+
Sbjct: 85 EED 87
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 42 KSGKSCRLRWMNYLRPDIKHGNYTKEEETK 71
++ C+ RW L P++ G +TKEE+ +
Sbjct: 8 RTDVQCQHRWQKVLNPELNKGPWTKEEDQR 37
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 52.8 bits (125), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 38/63 (60%), Gaps = 5/63 (7%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPKS-----GKSCRLRWMNYLRPDIKHGNYTK 66
+ KG W+KEED K+ + KYG W + K GK CR RW N+L P++K ++T+
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHLNPEVKKSSWTE 64
Query: 67 EEE 69
EE+
Sbjct: 65 EED 67
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 5/63 (7%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPKS-----GKSCRLRWMNYLRPDIKHGNYTK 66
+ KG W+KEED ++ + KYG W+ + K GK CR RW N+L P++K ++T+
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTE 61
Query: 67 EEE 69
EE+
Sbjct: 62 EED 64
>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 = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 5/63 (7%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPKS-----GKSCRLRWMNYLRPDIKHGNYTK 66
+ KG W+KEED ++ + KYG W+ + K GK CR RW N+L P++K ++T+
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTE 61
Query: 67 EEE 69
EE+
Sbjct: 62 EED 64
>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 = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 5/63 (7%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPKS-----GKSCRLRWMNYLRPDIKHGNYTK 66
+ KG W+KEED ++ + KYG W+ + K GK CR RW N+L P++K ++T+
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTE 115
Query: 67 EEE 69
EE+
Sbjct: 116 EED 118
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 38/69 (55%), Gaps = 5/69 (7%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIKHGNYTK 66
+ K W++EED+KL+ + + G +W + ++ C+ RW L P++ G +TK
Sbjct: 4 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELIKGPWTK 63
Query: 67 EEETKRKRL 75
EE+ + +L
Sbjct: 64 EEDQRVIKL 72
>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 = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 36/61 (59%), Gaps = 5/61 (8%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWAQ----LP-KSGKSCRLRWMNYLRPDIKHGNYTKEE 68
KG +++ EDD +R Y+ + G NW + LP +S K CR RW N+L P + +T EE
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPEE 61
Query: 69 E 69
+
Sbjct: 62 D 62
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 30/52 (57%), Gaps = 5/52 (9%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPKS-----GKSCRLRWMNYLRPD 58
+ KG W+KEED +L + KYG W+ + K GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPE 52
>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 = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 30/52 (57%), Gaps = 5/52 (9%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPKS-----GKSCRLRWMNYLRPD 58
+ KG W+KEED ++ + KYG W+ + K GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPE 52
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 30/52 (57%), Gaps = 5/52 (9%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPKS-----GKSCRLRWMNYLRPD 58
+ KG W+KEED ++ + KYG W+ + K GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPE 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 = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 37/66 (56%), Gaps = 6/66 (9%)
Query: 10 RGMKKGAWSKEEDDKLRAYILKYGHWNW----AQLP-KSGKSCRLRWMNYLRPDIKHGNY 64
+ KK ++ EED+ L+ + ++G +W A P ++ + CR RW NYL P I H +
Sbjct: 7 KAAKKQKFTPEEDEMLKRAVAQHGS-DWKMIAATFPNRNARQCRDRWKNYLAPSISHTPW 65
Query: 65 TKEEET 70
T EE+
Sbjct: 66 TAEEDA 71
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 16 AWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIKHGNYT 65
W ED+ L+A ++KYG W+++ KS K C+ RW +L P IK ++
Sbjct: 11 VWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>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 = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 37/61 (60%), Gaps = 5/61 (8%)
Query: 14 KGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIKHGNYTKEE 68
K +++EED KL+ +++YG +W ++ ++ + CR RW NY+ P ++ ++ EE
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPALRTDPWSPEE 60
Query: 69 E 69
+
Sbjct: 61 D 61
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 26/44 (59%), Gaps = 5/44 (11%)
Query: 17 WSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYL 55
W+ EED++LRA + ++G +W L ++ + C+ RW+ L
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVL 54
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 32.7 bits (73), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 17 WSKEEDDKLRAYILKYGHWNWAQL 40
W+KEED+KL + KYG+ +W Q+
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 = 32.7 bits (73), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 17 WSKEEDDKLRAYILKYGHWNWAQL 40
W+KEED+KL + KYG+ +W Q+
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQI 195
>pdb|1ITY|A Chain A, Solution Structure Of The Dna Binding Domain Of Human
Trf1
Length = 69
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 10 RGMKKGAWSKEEDDKLRAYILKYGHWNWAQL 40
R K+ AW EED LR+ + KYG NW+++
Sbjct: 6 RARKRQAWLWEEDKNLRSGVRKYGEGNWSKI 36
>pdb|1IV6|A Chain A, Solution Structure Of The Dna Complex Of Human Trf1
Length = 70
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 10 RGMKKGAWSKEEDDKLRAYILKYGHWNWAQL 40
R K+ AW EED LR+ + KYG NW+++
Sbjct: 7 RARKRQAWLWEEDKNLRSGVRKYGEGNWSKI 37
>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 = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPD 58
+ K W++EED+KL+ + + G +W + ++ C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPD 58
+ K W++EED+KL+ + + G +W + ++ C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPE 52
>pdb|1XG1|A Chain A, Solution Structure Of Myb-Domain Of Human Trf2
Length = 67
Score = 28.9 bits (63), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLPKS 43
KK W+ EE + ++A + KYG NWA + K+
Sbjct: 13 KKQKWTVEESEWVKAGVQKYGEGNWAAISKN 43
>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 = 28.9 bits (63), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLPKS 43
KK W+ EE + ++A + KYG NWA + K+
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKN 40
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2
Length = 64
Score = 28.9 bits (63), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLPKS 43
KK W+ EE + ++A + KYG NWA + K+
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKN 40
>pdb|1VFC|A Chain A, Solution Structure Of The Dna Complex Of Human Trf2
Length = 63
Score = 28.9 bits (63), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLPKS 43
KK W+ EE + ++A + KYG NWA + K+
Sbjct: 9 KKQKWTVEESEWVKAGVQKYGEGNWAAISKN 39
>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 = 0.96, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLPKS 43
KK W+ EE + ++A + KYG NWA + K+
Sbjct: 1 KKQKWTVEESEWVKAGVQKYGEGNWAAISKN 31
>pdb|1BA5|A Chain A, Dna-Binding Domain Of Human Telomeric Protein, Htrf1,
Nmr, 18 Structures
Length = 53
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWAQL 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 = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 13 KKGAWSKEEDDKLRAYILKYGHWNWAQL 40
K+ AW EED LR+ + KYG NW+++
Sbjct: 1 KRQAWLWEEDKNLRSGVRKYGEGNWSKI 28
>pdb|3LIB|A Chain A, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
pdb|3LIB|B Chain B, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
pdb|3LIB|C Chain C, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
pdb|3LIB|D Chain D, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
pdb|3LIB|E Chain E, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
pdb|3LIB|F Chain F, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
pdb|3LIB|G Chain G, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
pdb|3LIB|H Chain H, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
pdb|3LIB|I Chain I, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
pdb|3LIB|J Chain J, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Mmhk1s-Z3
Length = 290
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 9/70 (12%)
Query: 4 APTYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLPKSGKSCRLR---------WMNY 54
+P +DG G W+K A +L Y ++ QLPK+ + L ++Y
Sbjct: 93 SPAHDGTGRFVPYWNKMNGTASVAPLLHYDSSDYYQLPKATEKDVLTEPYFYEGVFMVSY 152
Query: 55 LRPDIKHGNY 64
+ P +K G +
Sbjct: 153 VSPIMKEGEF 162
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
0.317 0.134 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,864,897
Number of Sequences: 62578
Number of extensions: 109477
Number of successful extensions: 236
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 191
Number of HSP's gapped (non-prelim): 35
length of query: 75
length of database: 14,973,337
effective HSP length: 44
effective length of query: 31
effective length of database: 12,219,905
effective search space: 378817055
effective search space used: 378817055
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)