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= 043269
(191 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 = 97.8 bits (242), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 45/101 (44%), Positives = 68/101 (67%), Gaps = 1/101 (0%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPDVRRGNITLQ 85
KGPWT EED ++ +V +G RW+ +A R GK CR RW N+L P+V++ + T +
Sbjct: 27 KGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 85
Query: 86 EQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQK 126
E +I + H R GNRW++IA+ LPGRTDN +KN+W + +++
Sbjct: 86 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRR 126
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 97.4 bits (241), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 67/101 (66%), Gaps = 1/101 (0%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPDVRRGNITLQ 85
KGPWT EED ++ V +G RW+ +A R GK CR RW N+L P+V++ + T +
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 86 EQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQK 126
E +I + H R GNRW++IA+ LPGRTDN IKN+W + +++
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRR 103
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 79 RGNITLQEQLMILELHSRWG-NRWSKIAQYLPGRTDNEIKNYWRTRVQKHAKQ 130
+G T +E +++L ++G RWS IA++L GR + + W + K+
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKK 56
>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 = 97.4 bits (241), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 67/101 (66%), Gaps = 1/101 (0%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPDVRRGNITLQ 85
KGPWT EED ++ V +G RW+ +A R GK CR RW N+L P+V++ + T +
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 62
Query: 86 EQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQK 126
E +I + H R GNRW++IA+ LPGRTDN IKN+W + +++
Sbjct: 63 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRR 103
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 79 RGNITLQEQLMILELHSRWG-NRWSKIAQYLPGRTDNEIKNYWRTRVQKHAKQ 130
+G T +E +++L ++G RWS IA++L GR + + W + K+
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKK 56
>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 = 97.1 bits (240), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 67/101 (66%), Gaps = 1/101 (0%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPDVRRGNITLQ 85
KGPWT EED ++ V +G RW+ +A R GK CR RW N+L P+V++ + T +
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWTEE 116
Query: 86 EQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQK 126
E +I + H R GNRW++IA+ LPGRTDN IKN+W + +++
Sbjct: 117 EDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRR 157
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 95.5 bits (236), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 45/106 (42%), Positives = 67/106 (63%), Gaps = 1/106 (0%)
Query: 21 ILGVRKGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPDVRRG 80
I + KGPWT EED ++ V +G +W +A R GK CR RW N+L P+V++
Sbjct: 2 IPDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLK-GRLGKQCRERWHNHLNPEVKKS 60
Query: 81 NITLQEQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQK 126
+ T +E +I E H GNRW++IA+ LPGRTDN +KN+W + +++
Sbjct: 61 SWTEEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKR 106
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 75 PDVRRGNITLQEQLMILELHSRWGNR-WSKIAQYLPGRTDNEIKNYWRTRVQKHAKQ 130
PD+ +G T +E ++EL ++G + W+ IA++L GR + + W + K+
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHLNPEVKK 59
>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 = 81.6 bits (200), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 42/101 (41%), Positives = 58/101 (57%), Gaps = 1/101 (0%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPDVRRGNITLQ 85
KGP+T ED L+ YV +G W + S NR+ K CR RW N+L P V + T +
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLP-NRSPKQCRERWFNHLDPAVVKHAWTPE 60
Query: 86 EQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQK 126
E I + + G++WS IA+ +PGRTDN IKN W + + K
Sbjct: 61 EDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISK 101
>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 = 74.7 bits (182), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 56/100 (56%), Gaps = 2/100 (2%)
Query: 23 GVRKGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPDVRRGNI 82
+K +T EED +L VA HG W +A++ NR + CR RW NYL P +
Sbjct: 8 AAKKQKFTPEEDEMLKRAVAQHGSD-WKMIAATFP-NRNARQCRDRWKNYLAPSISHTPW 65
Query: 83 TLQEQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRT 122
T +E ++++ +G +W+ IA++ PGRTD IKN W T
Sbjct: 66 TAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 105
>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 = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 58/107 (54%), Gaps = 1/107 (0%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPDVRRGNITLQ 85
K +T EED L V +G W + S + R + CR RW NY+ P +R + +
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRI-SQLMITRNPRQCRERWNNYINPALRTDPWSPE 59
Query: 86 EQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQKHAKQLK 132
E +++ + ++ +G +W+KI+++L R+DN I+N W + AK K
Sbjct: 60 EDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRWMMIARHRAKHQK 106
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 23 GVRKGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWL 70
+R PW+ EED LL A +G +WN ++ NR+ + R RW+
Sbjct: 50 ALRTDPWSPEEDMLLDQKYAEYG-PKWNKISKFLK-NRSDNNIRNRWM 95
>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 = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 23/50 (46%), Positives = 37/50 (74%)
Query: 77 VRRGNITLQEQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQK 126
V++ + T +E +I + H R GNRW++IA+ LPGRTDN IKN+W + +++
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRR 50
>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 = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 38/51 (74%)
Query: 76 DVRRGNITLQEQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQK 126
+V++ + T +E ++ + H R GNRW++IA+ LPGRTDN IKN+W + +++
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRR 52
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/51 (47%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPD 76
KGPWT EED L+ V +G RW+ +A R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 79 RGNITLQEQLMILELHSRWG-NRWSKIAQYLPGRTDNEIKNYW 120
+G T +E +++L ++G RWS IA++L GR + + W
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERW 45
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPD 76
KGPWT EED ++ V +G RW+ +A R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 79 RGNITLQEQLMILELHSRWG-NRWSKIAQYLPGRTDNEIKNYW 120
+G T +E +++L ++G RWS IA++L GR + + W
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERW 45
>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 = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPD 76
KGPWT EED ++ V +G RW+ +A R GK CR RW N+L P+
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 79 RGNITLQEQLMILELHSRWG-NRWSKIAQYLPGRTDNEIKNYW 120
+G T +E ++EL ++G RWS IA++L GR + + W
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERW 45
>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 = 33.5 bits (75), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPD 76
K WT EED L V +G W +A+ NRT C+ RW L P+
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 33.5 bits (75), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 26 KGPWTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPD 76
K WT EED L V +G W +A+ NRT C+ RW L P+
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 33.5 bits (75), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 29 WTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYLRPDVRR 79
W ED +L V +G+ +W+ +AS ++ K C+ RW +L P +++
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWYEWLDPSIKK 61
>pdb|1XG1|A Chain A, Solution Structure Of Myb-Domain Of Human Trf2
Length = 67
Score = 33.5 bits (75), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 11 GNHRQQSEEAILGVRKGPWTVEEDSLLMNYVAIHGEGRWNAVASS-AGLNRTGKSCRLRW 69
G+H + S I +K WTVEE + V +GEG W A++ + +NRT + RW
Sbjct: 1 GSHMEDSTTNI--TKKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 58
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 29 WTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWLNYL 73
WT EED L V G+ W +AS NRT + C+ RWL L
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHF-PNRTDQQCQYRWLRVL 54
>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915
Protein
Length = 72
Score = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 3/54 (5%)
Query: 83 TLQEQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQKHAKQLKCDVN 136
T++E+ + + +++G RW+KI++ + RT ++K+Y R Q ++KC ++
Sbjct: 13 TIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYAR---QYFKNKVKCGLD 63
>pdb|4EEF|G Chain G, Crystal Structure Of The Designed Inhibitor Protein
F-Hb80.4 In Complex With The 1918 Influenza Virus
Hemagglutinin.
pdb|4EEF|H Chain H, Crystal Structure Of The Designed Inhibitor Protein
F-Hb80.4 In Complex With The 1918 Influenza Virus
Hemagglutinin.
pdb|4EEF|I Chain I, Crystal Structure Of The Designed Inhibitor Protein
F-Hb80.4 In Complex With The 1918 Influenza Virus
Hemagglutinin
Length = 74
Score = 31.6 bits (70), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 99 NRWSKIAQYLPGRTDNEIKNYW 120
+RW K+AQY+ GRT E+K ++
Sbjct: 44 DRWKKVAQYVKGRTPEEVKKHY 65
>pdb|1VFC|A Chain A, Solution Structure Of The Dna Complex Of Human Trf2
Length = 63
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 24 VRKGPWTVEEDSLLMNYVAIHGEGRWNAVASS-AGLNRTGKSCRLRW 69
+K WTVEE + V +GEG W A++ + +NRT + RW
Sbjct: 8 TKKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 54
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2
Length = 64
Score = 31.2 bits (69), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 24 VRKGPWTVEEDSLLMNYVAIHGEGRWNAVASS-AGLNRTGKSCRLRW 69
+K WTVEE + V +GEG W A++ + +NRT + RW
Sbjct: 9 TKKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 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 = 31.2 bits (69), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 25 RKGPWTVEEDSLLMNYVAIHGEGRWNAVASS-AGLNRTGKSCRLRW 69
+K WTVEE + V +GEG W A++ + +NRT + RW
Sbjct: 1 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 46
>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 = 30.8 bits (68), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 24 VRKGPWTVEEDSLLMNYVAIHGEGRWNAVASS-AGLNRTGKSCRLRW 69
+K WTVEE + V +GEG W A++ + +NRT + RW
Sbjct: 9 TKKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 55
>pdb|2ELK|A Chain A, Solution Structure Of The Sant Domain Of Fission Yeast
Spcc24b10.08c Protein
Length = 58
Score = 29.6 bits (65), Expect = 1.0, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 21/42 (50%)
Query: 29 WTVEEDSLLMNYVAIHGEGRWNAVASSAGLNRTGKSCRLRWL 70
W +E+ LL++ G G W +A G RT + CR +L
Sbjct: 12 WGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYL 53
>pdb|3AQB|B Chain B, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium
pdb|3AQB|D Chain D, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium
pdb|3AQC|B Chain B, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium And Fpp Analogue
pdb|3AQC|D Chain D, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium And Fpp Analogue
Length = 325
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/71 (19%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 76 DVRRGNITLQEQLMILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQKHAKQLKCDV 135
D+R G+IT I L + ++ + ++L +D+E+ Y ++V+++ + ++
Sbjct: 230 DIRNGHITYPLMAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIE-PAEL 288
Query: 136 NSKQFRDAMRF 146
S+++ D ++
Sbjct: 289 LSRKYGDKAKY 299
>pdb|2JUH|A Chain A, Solution Structure Of Dna Binding Domain Of Ngtrf1
Length = 121
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 35/85 (41%), Gaps = 9/85 (10%)
Query: 28 PWTVEEDSLLMNYVAIHGEGRWNAVASSAGLN---RTGKSCRLRWLNYLR-----PDVRR 79
P++V E L+ V G GRW V A N RT + +W + P RR
Sbjct: 19 PFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRR 78
Query: 80 GNITLQEQL-MILELHSRWGNRWSK 103
G Q+ L +L H+ W + K
Sbjct: 79 GEPVPQDLLDRVLAAHAYWSQQQGK 103
>pdb|2ROH|A Chain A, The Dna Binding Domain Of Rtbp1
Length = 122
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 33/80 (41%), Gaps = 9/80 (11%)
Query: 28 PWTVEEDSLLMNYVAIHGEGRWNAVASSAGLN---RTGKSCRLRWLNY-----LRPDVRR 79
P+TV E LL+ V G GRW V A N RT + +W + P RR
Sbjct: 33 PFTVAEVELLVEAVEHLGTGRWRDVKFRAFENVHHRTYVDLKDKWKTLVHTASIAPQQRR 92
Query: 80 GNITLQEQL-MILELHSRWG 98
G QE L +L + W
Sbjct: 93 GAPVPQELLDRVLAAQAYWS 112
>pdb|2YGK|A Chain A, Crystal Structure Of The Nura Nuclease From Sulfolobus
Solfataricus
pdb|2YGK|B Chain B, Crystal Structure Of The Nura Nuclease From Sulfolobus
Solfataricus
Length = 339
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 20/44 (45%)
Query: 90 ILELHSRWGNRWSKIAQYLPGRTDNEIKNYWRTRVQKHAKQLKC 133
++E H+ N+ IA YL +++ YW V H + C
Sbjct: 9 LVESHNEIKNQIYNIANYLKQEIQDKVNEYWNEYVINHEQSETC 52
>pdb|1CCW|B Chain B, Structure Of The Coenzyme B12 Dependent Enzyme Glutamate
Mutase From Clostridium Cochlearium
pdb|1CCW|D Chain D, Structure Of The Coenzyme B12 Dependent Enzyme Glutamate
Mutase From Clostridium Cochlearium
pdb|1CB7|B Chain B, Glutamate Mutase From Clostridium Cochlearium
Reconstituted With Methyl-Cobalamin
pdb|1CB7|D Chain D, Glutamate Mutase From Clostridium Cochlearium
Reconstituted With Methyl-Cobalamin
pdb|1I9C|B Chain B, Glutamate Mutase From Clostridium Cochlearium: Complex
With Adenosylcobalamin And Substrate
pdb|1I9C|D Chain D, Glutamate Mutase From Clostridium Cochlearium: Complex
With Adenosylcobalamin And Substrate
Length = 483
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%)
Query: 115 EIKNYWRTRVQKHAKQLKCDVNSKQFRDAMRFVWVPRLIER 155
EIKNY R R+Q+ AK DV+ + D + V RLI R
Sbjct: 441 EIKNYNRERLQERAKFEGRDVSFQMVIDDIFAVGKGRLIGR 481
>pdb|2CKX|A Chain A, Crystal Structure Of Ngtrf1, Double-Stranded Telomeric
Repeat Binding Factor From Nicotiana Tabacum
Length = 83
Score = 27.3 bits (59), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 34/82 (41%), Gaps = 9/82 (10%)
Query: 28 PWTVEEDSLLMNYVAIHGEGRWNAVASSAGLN---RTGKSCRLRWLNYLR-----PDVRR 79
P++V E L+ V G GRW V A N RT + +W + P RR
Sbjct: 2 PFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRR 61
Query: 80 GNITLQEQL-MILELHSRWGNR 100
G Q+ L +L H+ W +
Sbjct: 62 GEPVPQDLLDRVLAAHAYWSQQ 83
>pdb|2QHB|A Chain A, Crystal Structure Of Ngtrf Complexed With Telomeric Dna
pdb|2QHB|B Chain B, Crystal Structure Of Ngtrf Complexed With Telomeric Dna
Length = 86
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 33/81 (40%), Gaps = 9/81 (11%)
Query: 28 PWTVEEDSLLMNYVAIHGEGRWNAVASSAGLN---RTGKSCRLRWLNYLR-----PDVRR 79
P++V E L+ V G GRW V A N RT + +W + P RR
Sbjct: 6 PFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRR 65
Query: 80 GNITLQEQL-MILELHSRWGN 99
G Q+ L +L H+ W
Sbjct: 66 GEPVPQDLLDRVLAAHAYWSQ 86
>pdb|2AJE|A Chain A, Solution Structure Of The Arabidopsis Thaliana Telomeric
Repeat-Binding Protein Dna Binding Domain
Length = 105
Score = 26.9 bits (58), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 32/79 (40%), Gaps = 9/79 (11%)
Query: 28 PWTVEEDSLLMNYVAIHGEGRWNAVASSA---GLNRTGKSCRLRWLNY-----LRPDVRR 79
P++V E L+ V G GRW V A +RT + +W + P RR
Sbjct: 15 PFSVAEVEALVQAVEKLGTGRWRDVKLCAFEDADHRTYVDLKDKWKTLVHTAKISPQQRR 74
Query: 80 GNITLQEQL-MILELHSRW 97
G QE L +L H W
Sbjct: 75 GEPVPQELLNRVLNAHGYW 93
>pdb|1VKJ|A Chain A, Crystal Structure Of Heparan Sulfate
3-O-Sulfotransferase Isoform 1 In The Presence Of Pap
pdb|1VKJ|B Chain B, Crystal Structure Of Heparan Sulfate
3-O-Sulfotransferase Isoform 1 In The Presence Of Pap
pdb|1VKJ|C Chain C, Crystal Structure Of Heparan Sulfate
3-O-Sulfotransferase Isoform 1 In The Presence Of Pap
Length = 285
Score = 26.6 bits (57), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 3 AHVGGFSSGNHRQQSEEAILGVRKG 27
+H+G S+G+ +Q + I+GVRKG
Sbjct: 19 SHMGTASNGSTQQLPQTIIIGVRKG 43
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
0.320 0.133 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,079,108
Number of Sequences: 62578
Number of extensions: 195303
Number of successful extensions: 465
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 394
Number of HSP's gapped (non-prelim): 60
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)