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= 020997
(318 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 = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 47/104 (45%), Positives = 67/104 (64%), Gaps = 2/104 (1%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSD 73
KGPW+ EED K+ E ++K GT + H G R GK CR RW N+L P + +++
Sbjct: 7 KGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG--RLGKQCRERWHNHLNPEVKKSSWTE 64
Query: 74 DEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117
+EDRII +G+RW+ IA LPGRTDN +KN+WN+ +K+K+
Sbjct: 65 EEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 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 = 95.9 bits (237), Expect = 3e-20, Method: Composition-based stats.
Identities = 44/104 (42%), Positives = 66/104 (63%), Gaps = 2/104 (1%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSD 73
KGPW+ EED ++ + ++K G + H G R GK CR RW N+L P + +++
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 61
Query: 74 DEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117
+EDRII +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 62 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 95.9 bits (237), Expect = 3e-20, Method: Composition-based stats.
Identities = 44/104 (42%), Positives = 66/104 (63%), Gaps = 2/104 (1%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSD 73
KGPW+ EED ++ + ++K G + H G R GK CR RW N+L P + +++
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 61
Query: 74 DEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117
+EDRII +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 62 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 95.5 bits (236), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 66/104 (63%), Gaps = 2/104 (1%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSD 73
KGPW+ EED ++ E+++K G H G R GK CR RW N+L P + +++
Sbjct: 27 KGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 84
Query: 74 DEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117
+EDRII +G+RW+ IA LPGRTDN +KN+WN+ +++K+
Sbjct: 85 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 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 = 95.1 bits (235), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 66/104 (63%), Gaps = 2/104 (1%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSD 73
KGPW+ EED ++ + ++K G + H G R GK CR RW N+L P + +++
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 115
Query: 74 DEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117
+EDRII +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 116 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>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 = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 42/106 (39%), Positives = 63/106 (59%), Gaps = 6/106 (5%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLM--RCGKSCRLRWLNYLRPNINHGEF 71
KGP++ ED ++EY+++NG NW P + R K CR RW N+L P + +
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQ-NW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAW 57
Query: 72 SDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117
+ +ED I + +GS+WS IA +PGRTDN IKN WN+ + K++
Sbjct: 58 TPEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRI 103
>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 = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 39/101 (38%), Positives = 56/101 (55%), Gaps = 7/101 (6%)
Query: 13 KKGPWSPEEDAKLKEYIEKNGTGGNWIA--LPHKAGLMRCGKSCRLRWLNYLRPNINHGE 70
KK ++PEED LK + ++G+ IA P+ R + CR RW NYL P+I+H
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPN-----RNARQCRDRWKNYLAPSISHTP 64
Query: 71 FSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNT 111
++ +ED ++ G +W+ IA PGRTD IKN W T
Sbjct: 65 WTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 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 = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 52/90 (57%), Gaps = 2/90 (2%)
Query: 20 EEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRII 79
EED KL++ + + G +WI + + + R + CR RW NY+ P + +S +ED ++
Sbjct: 7 EEDLKLQQLVMRYG-AKDWIRI-SQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLL 64
Query: 80 CSLFASIGSRWSTIAAQLPGRTDNDIKNYW 109
+A G +W+ I+ L R+DN+I+N W
Sbjct: 65 DQKYAEYGPKWNKISKFLKNRSDNNIRNRW 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 = 57.0 bits (136), Expect = 2e-08, Method: Composition-based stats.
Identities = 23/47 (48%), Positives = 36/47 (76%)
Query: 71 FSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117
++++EDRII +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 6 WTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 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 = 55.8 bits (133), Expect = 3e-08, Method: Composition-based stats.
Identities = 22/47 (46%), Positives = 36/47 (76%)
Query: 71 FSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117
++++EDRI+ +G+RW+ IA LPGRTDN IKN+WN+ +++K+
Sbjct: 8 WTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>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 = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRP 64
KGPW+ EED ++ E ++K G + H G R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNP 51
Score = 30.0 bits (66), Expect = 1.6, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 69 GEFSDDEDRIICSLFASIG-SRWSTIAAQLPGRTDNDIKNYWNTKL 113
G ++ +ED+ + L G RWS IA L GR + W+ L
Sbjct: 4 GPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 44.7 bits (104), Expect = 7e-05, Method: Composition-based stats.
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRP 64
KGPW+ EED +L + ++K G + H G R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNP 51
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 69 GEFSDDEDRIICSLFASIG-SRWSTIAAQLPGRTDNDIKNYWNTKL 113
G ++ +ED+ + L G RWS IA L GR + W+ L
Sbjct: 4 GPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRP 64
KGPW+ EED ++ + ++K G + H G R GK CR RW N+L P
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNP 51
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 69 GEFSDDEDRIICSLFASIG-SRWSTIAAQLPGRTDNDIKNYWNTKL 113
G ++ +ED+ + L G RWS IA L GR + W+ L
Sbjct: 4 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>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 = 31.6 bits (70), Expect = 0.55, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRP 64
K W+ EED KLK+ +E+NGT +W + + R C+ RW L P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGT-DDWKVIANYLP-NRTDVQCQHRWQKVLNP 51
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 31.6 bits (70), Expect = 0.55, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRP 64
K W+ EED KLK+ +E+NGT +W + + R C+ RW L P
Sbjct: 3 KTRWTREEDEKLKKLVEQNGT-DDWKVIANYLP-NRTDVQCQHRWQKVLNP 51
>pdb|1IGN|A Chain A, Dna-Binding Domain Of Rap1 In Complex With Telomeric Dna
Site
pdb|1IGN|B Chain B, Dna-Binding Domain Of Rap1 In Complex With Telomeric Dna
Site
Length = 246
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 64 PNINHGEFSDDEDRIICSLFASIGSRWST------IAAQLPGRTDNDIKNYWNTKLKKKL 117
P+ N F+D+ED I + +R +T I+ +P T N I++ + L K+L
Sbjct: 4 PSHNKASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSKRL 63
>pdb|3CNX|A Chain A, Crystal Structure Of A Putative Dehydratase From The
Ntf2-Like Family (Sav_4671) From Streptomyces
Avermitilis At 2.10 A Resolution
pdb|3CNX|B Chain B, Crystal Structure Of A Putative Dehydratase From The
Ntf2-Like Family (Sav_4671) From Streptomyces
Avermitilis At 2.10 A Resolution
pdb|3CNX|C Chain C, Crystal Structure Of A Putative Dehydratase From The
Ntf2-Like Family (Sav_4671) From Streptomyces
Avermitilis At 2.10 A Resolution
Length = 170
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 245 NNKCEQMGLQNNLFYNGVE-GDNKFMISNVETPLDYGLEE 283
+ EQ+GL N FY E GD + + S TP D G++E
Sbjct: 8 DTDVEQVGLANTAFYEAXERGDFETLSSLWLTPADLGVDE 47
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 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,962,995
Number of Sequences: 62578
Number of extensions: 361900
Number of successful extensions: 777
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 728
Number of HSP's gapped (non-prelim): 45
length of query: 318
length of database: 14,973,337
effective HSP length: 99
effective length of query: 219
effective length of database: 8,778,115
effective search space: 1922407185
effective search space used: 1922407185
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: 51 (24.3 bits)