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= 044864
(214 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 = 107 bits (266), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 50/106 (47%), Positives = 74/106 (69%), Gaps = 1/106 (0%)
Query: 10 DTNKGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPDLKRGNF 69
D KG W+K+EDQK+I+ ++K+G W I + R GK CR RW N+L P++K+ ++
Sbjct: 4 DLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLK-GRLGKQCRERWHNHLNPEVKKSSW 62
Query: 70 AEDEEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHLRRKL 115
E+E+ +I + H +LGNRW+ IA LPGRT N VKN+WNS ++RK+
Sbjct: 63 TEEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 106 bits (264), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 50/106 (47%), Positives = 75/106 (70%), Gaps = 1/106 (0%)
Query: 10 DTNKGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPDLKRGNF 69
+ NKG W+K+EDQ++I++++K+G W I + R GK CR RW N+L P++K+ ++
Sbjct: 24 ELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLK-GRIGKQCRERWHNHLNPEVKKTSW 82
Query: 70 AEDEEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHLRRKL 115
E+E+ +I + H LGNRW+ IA LPGRT N VKN+WNS +RRK+
Sbjct: 83 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
>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 = 102 bits (253), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 48/103 (46%), Positives = 71/103 (68%), Gaps = 1/103 (0%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPDLKRGNFAED 72
KG W+K+EDQ++I ++K+G W I + R GK CR RW N+L P++K+ ++ E+
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 116
Query: 73 EEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHLRRKL 115
E+ +I + H LGNRW+ IA LPGRT N +KN+WNS +RRK+
Sbjct: 117 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>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 = 101 bits (252), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 48/103 (46%), Positives = 71/103 (68%), Gaps = 1/103 (0%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPDLKRGNFAED 72
KG W+K+EDQ++I ++K+G W I + R GK CR RW N+L P++K+ ++ E+
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 73 EEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHLRRKL 115
E+ +I + H LGNRW+ IA LPGRT N +KN+WNS +RRK+
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 101 bits (252), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 48/103 (46%), Positives = 71/103 (68%), Gaps = 1/103 (0%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPDLKRGNFAED 72
KG W+K+EDQ++I ++K+G W I + R GK CR RW N+L P++K+ ++ E+
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 73 EEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHLRRKL 115
E+ +I + H LGNRW+ IA LPGRT N +KN+WNS +RRK+
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>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 = 73.6 bits (179), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 35/103 (33%), Positives = 63/103 (61%), Gaps = 1/103 (0%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPDLKRGNFAED 72
KG +++ ED + +Y++++G W I + R K CR RW N+L P + + + +
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRI-TSFLPNRSPKQCRERWFNHLDPAVVKHAWTPE 60
Query: 73 EEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHLRRKL 115
E++ I + + LG++WS+IA +PGRT N +KN WNS + +++
Sbjct: 61 EDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRI 103
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 66 RGNFAEDEEDLIIKLHALLG-NRWSLIAGRLPGRTANEVKNYWNSHLRRKLINMGIDPK 123
+G F E E+DLI + G W I LP R+ + + W +HL ++ P+
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPE 60
>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 = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 26/52 (50%), Positives = 39/52 (75%)
Query: 64 LKRGNFAEDEEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHLRRKL 115
+K+ ++ E+E+ +I + H LGNRW+ IA LPGRT N +KN+WNS +RRK+
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>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 = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 25/53 (47%), Positives = 40/53 (75%)
Query: 63 DLKRGNFAEDEEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHLRRKL 115
++K+ ++ E+E+ ++ + H LGNRW+ IA LPGRT N +KN+WNS +RRK+
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>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 = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 50/95 (52%), Gaps = 2/95 (2%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPDLKRGNFAED 72
K ++ +ED+ L + +HG W+ I A R + CR RW NYL P + + +
Sbjct: 11 KQKFTPEEDEMLKRAVAQHGSD-WKMIA-ATFPNRNARQCRDRWKNYLAPSISHTPWTAE 68
Query: 73 EEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYW 107
E+ L+++ G +W++IA PGRT +KN W
Sbjct: 69 EDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRW 103
Score = 33.5 bits (75), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 27/47 (57%)
Query: 65 KRGNFAEDEEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHL 111
K+ F +E++++ + A G+ W +IA P R A + ++ 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 = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 53/95 (55%), Gaps = 1/95 (1%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPDLKRGNFAED 72
K ++++ED KL + ++G W I Q + R + CR RW NY+ P L+ ++ +
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLM-ITRNPRQCRERWNNYINPALRTDPWSPE 59
Query: 73 EEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYW 107
E+ L+ + +A G +W+ I+ L R+ N ++N W
Sbjct: 60 EDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
>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 = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 33/51 (64%), Gaps = 1/51 (1%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPD 63
KG W+K+EDQ++I+ ++K+G W I + R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 34.3 bits (77), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 64 LKRGNFAEDEEDLIIKLHALLG-NRWSLIAGRLPGRTANEVKNYWNSHL 111
L +G + ++E+ +I+L G RWS+IA L GR + + W++HL
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPD 63
KG W+K+EDQ+LI ++K+G W I + R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 35.0 bits (79), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 64 LKRGNFAEDEEDLIIKLHALLG-NRWSLIAGRLPGRTANEVKNYWNSHL 111
L +G + ++E+ +IKL G RWS+IA L GR + + W++HL
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPD 63
KG W+K+EDQ++I ++K+G W I + R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 64 LKRGNFAEDEEDLIIKLHALLG-NRWSLIAGRLPGRTANEVKNYWNSHL 111
L +G + ++E+ +IKL G RWS+IA L GR + + W++HL
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 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 = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 15 AWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLAR-CGKSCRLRWINYLRPDLKRGNFA 70
W ED+ L + K+G+ W I A+ L R K C+ RW +L P +K+ ++
Sbjct: 11 VWRNTEDEILKAAVMKYGKNQWSRI--ASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 16 WSKQEDQKLIDYIRKHGEGCWRTI 39
W+K+ED+KL+ + K+G G W I
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 = 30.4 bits (67), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 16 WSKQEDQKLIDYIRKHGEGCWRTI 39
W+K+ED+KL+ + K+G G W I
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQI 195
>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915
Protein
Length = 72
Score = 30.4 bits (67), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 72 DEEDLIIKLHALLGNRWSLIAGRLPGRTANEVKNYWNSHLRRKLINMGIDPKNHRLHHSL 131
+E++L + A G RW+ I+ + RT +VK+Y + + K + G+D +
Sbjct: 15 EEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNK-VKCGLDKET------- 66
Query: 132 PHNSTG 137
P+ TG
Sbjct: 67 PNQKTG 72
>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 = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPD 63
K W+++ED+KL + ++G W+ I R C+ RW L P+
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 13 KGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYLRPD 63
K W+++ED+KL + ++G W+ I R C+ RW L P+
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|1DDG|A Chain A, Crystal Structure Of Sir-Fp60
pdb|1DDG|B Chain B, Crystal Structure Of Sir-Fp60
pdb|1DDI|A Chain A, Crystal Structure Of Sir-Fp60
Length = 374
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 15 AWSKQEDQKLI--DYIRKHGEGCWRTIPQAAGLARCGKSCRL 54
AWS+ + +K+ D +R+ G WR I A + CG + R+
Sbjct: 292 AWSRDQKEKVYVQDKLREQGAELWRWINDGAHIYVCGDANRM 333
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 28.1 bits (61), Expect = 3.9, Method: Composition-based stats.
Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 11 TNKGAWSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCRLRWINYL 60
+ K W+ +ED++L +R+ G+ W+ + R + C+ RW+ L
Sbjct: 6 SGKVKWTHEEDEQLRALVRQFGQQDWKFLASHFP-NRTDQQCQYRWLRVL 54
>pdb|2Z20|A Chain A, Crystal Structure Of Ll-diaminopimelate Aminotransferase
From Arabidopsis Thaliana
pdb|2Z20|B Chain B, Crystal Structure Of Ll-diaminopimelate Aminotransferase
From Arabidopsis Thaliana
Length = 432
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 39/92 (42%), Gaps = 7/92 (7%)
Query: 89 SLIAGRLPGRTANEVKNYWNSHLRRKLINMGIDP------KNHRLHHSLPHNSTGATSLG 142
S+I G+ G+ +V+ Y N R G P + + P+N TGA +
Sbjct: 159 SVIXGQT-GQFNTDVQKYGNIEYXRCTPENGFFPDLSTVGRTDIIFFCSPNNPTGAAATR 217
Query: 143 QQLVDMNEPAVKPRGDDIYQASDAGSCWEDEP 174
+QL + E A K +Y ++ A +D P
Sbjct: 218 EQLTQLVEFAKKNGSIIVYDSAYAXYXSDDNP 249
>pdb|1IV6|A Chain A, Solution Structure Of The Dna Complex Of Human Trf1
Length = 70
Score = 27.3 bits (59), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 15 AWSKQEDQKLIDYIRKHGEGCWRTI 39
AW +ED+ L +RK+GEG W I
Sbjct: 13 AWLWEEDKNLRSGVRKYGEGNWSKI 37
>pdb|1ITY|A Chain A, Solution Structure Of The Dna Binding Domain Of Human
Trf1
Length = 69
Score = 27.3 bits (59), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 15 AWSKQEDQKLIDYIRKHGEGCWRTI 39
AW +ED+ L +RK+GEG W I
Sbjct: 12 AWLWEEDKNLRSGVRKYGEGNWSKI 36
>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 = 26.9 bits (58), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 15 AWSKQEDQKLIDYIRKHGEGCWRTI 39
AW +ED+ L +RK+GEG W I
Sbjct: 4 AWLWEEDKNLRSGVRKYGEGNWSKI 28
>pdb|1BA5|A Chain A, Dna-Binding Domain Of Human Telomeric Protein, Htrf1,
Nmr, 18 Structures
Length = 53
Score = 26.9 bits (58), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 15 AWSKQEDQKLIDYIRKHGEGCWRTI 39
AW +ED+ L +RK+GEG W I
Sbjct: 5 AWLWEEDKNLRSGVRKYGEGNWSKI 29
>pdb|1SMN|A Chain A, Identification Of The Serratia Endonuclease Dimer:
Structural Basis And Implications For Catalysis
pdb|1SMN|B Chain B, Identification Of The Serratia Endonuclease Dimer:
Structural Basis And Implications For Catalysis
pdb|1QAE|A Chain A, The Active Site Of Serratia Endonuclease Contains A
Conserved Magnesium-Water Cluster
pdb|1QAE|B Chain B, The Active Site Of Serratia Endonuclease Contains A
Conserved Magnesium-Water Cluster
pdb|1G8T|A Chain A, Sm Endonuclease From Seratia Marcenscens At 1.1 A
Resolution
pdb|1G8T|B Chain B, Sm Endonuclease From Seratia Marcenscens At 1.1 A
Resolution
Length = 245
Score = 26.9 bits (58), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 16/21 (76%), Gaps = 2/21 (9%)
Query: 8 KQDTNKGAWSKQEDQ--KLID 26
K D N+GAW++ EDQ KLID
Sbjct: 115 KSDLNQGAWARLEDQERKLID 135
>pdb|1QL0|A Chain A, Sm Endonuclease From Seratia Marcenscens At Atomic
Resolution
pdb|1QL0|B Chain B, Sm Endonuclease From Seratia Marcenscens At Atomic
Resolution
Length = 241
Score = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 16/21 (76%), Gaps = 2/21 (9%)
Query: 8 KQDTNKGAWSKQEDQ--KLID 26
K D N+GAW++ EDQ KLID
Sbjct: 111 KSDLNQGAWARLEDQERKLID 131
>pdb|2ELK|A Chain A, Solution Structure Of The Sant Domain Of Fission Yeast
Spcc24b10.08c Protein
Length = 58
Score = 26.6 bits (57), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 16/38 (42%)
Query: 16 WSKQEDQKLIDYIRKHGEGCWRTIPQAAGLARCGKSCR 53
W E+ LID G G W I G AR + CR
Sbjct: 12 WGADEELLLIDACETLGLGNWADIADYVGNARTKEECR 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
0.317 0.135 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,919,844
Number of Sequences: 62578
Number of extensions: 293954
Number of successful extensions: 699
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 649
Number of HSP's gapped (non-prelim): 40
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
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: 49 (23.5 bits)