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= 021164
(316 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 = 94.0 bits (232), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 43/105 (40%), Positives = 68/105 (64%), Gaps = 1/105 (0%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAFS 80
L KG W+ EED +++ ++ K G WSD+A++ R GK CR RW N+L P++K+ +++
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 83
Query: 81 PQXXXXXXXXXXXXGNRWSQIAARLPGRTDNEIKNFWNSTIKKRL 125
+ GNRW++IA LPGRTDN +KN WNST+++++
Sbjct: 84 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
Score = 34.7 bits (78), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 57 RCGKSCRLRWINYLRPDLKRGAFSPQXXXXXXXXXXXXG-NRWSQIAARLPGRTDNEIKN 115
R C+ RW L P+L +G ++ + G RWS IA L GR + +
Sbjct: 8 RTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRE 67
Query: 116 FWNSTIKKRLK 126
W++ + +K
Sbjct: 68 RWHNHLNPEVK 78
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 92.4 bits (228), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 44/105 (41%), Positives = 66/105 (62%), Gaps = 1/105 (0%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAFS 80
L KG W+ EED K++ + K G W+ +A++ R GK CR RW N+L P++K+ +++
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLK-GRLGKQCRERWHNHLNPEVKKSSWT 63
Query: 81 PQXXXXXXXXXXXXGNRWSQIAARLPGRTDNEIKNFWNSTIKKRL 125
+ GNRW++IA LPGRTDN +KN WNSTIK+++
Sbjct: 64 EEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 89.7 bits (221), Expect = 2e-18, Method: Composition-based stats.
Identities = 43/106 (40%), Positives = 67/106 (63%), Gaps = 1/106 (0%)
Query: 20 KLRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAF 79
+L KG W+ EED +++ + K G WS +A++ R GK CR RW N+L P++K+ ++
Sbjct: 1 ELIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSW 59
Query: 80 SPQXXXXXXXXXXXXGNRWSQIAARLPGRTDNEIKNFWNSTIKKRL 125
+ + GNRW++IA LPGRTDN IKN WNST+++++
Sbjct: 60 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>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 = 89.4 bits (220), Expect = 3e-18, Method: Composition-based stats.
Identities = 43/105 (40%), Positives = 66/105 (62%), Gaps = 1/105 (0%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAFS 80
L KG W+ EED +++ + K G WS +A++ R GK CR RW N+L P++K+ +++
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 60
Query: 81 PQXXXXXXXXXXXXGNRWSQIAARLPGRTDNEIKNFWNSTIKKRL 125
+ GNRW++IA LPGRTDN IKN WNST+++++
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>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 = 88.6 bits (218), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 43/105 (40%), Positives = 66/105 (62%), Gaps = 1/105 (0%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAFS 80
L KG W+ EED +++ + K G WS +A++ R GK CR RW N+L P++K+ +++
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 114
Query: 81 PQXXXXXXXXXXXXGNRWSQIAARLPGRTDNEIKNFWNSTIKKRL 125
+ GNRW++IA LPGRTDN IKN WNST+++++
Sbjct: 115 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 49/107 (45%), Gaps = 2/107 (1%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAFS 80
L K W+ EED+KL + +NG W +A N R C+ RW L P+L +G ++
Sbjct: 4 LGKTRWTREEDEKLKKLVEQNGTDDWKVIA-NYLPNRTDVQCQHRWQKVLNPELIKGPWT 62
Query: 81 PQXXXXXXXXXXXXG-NRWSQIAARLPGRTDNEIKNFWNSTIKKRLK 126
+ G RWS IA L GR + + W++ + +K
Sbjct: 63 KEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVK 109
>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 = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 40/103 (38%), Positives = 58/103 (56%), Gaps = 1/103 (0%)
Query: 23 KGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQ 82
KG ++ EDD + Y+ +NG W + + R K CR RW N+L P + + A++P+
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRIT-SFLPNRSPKQCRERWFNHLDPAVVKHAWTPE 60
Query: 83 XXXXXXXXXXXXGNRWSQIAARLPGRTDNEIKNFWNSTIKKRL 125
G++WS IA +PGRTDN IKN WNS+I KR+
Sbjct: 61 EDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRI 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 = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 50/104 (48%), Gaps = 3/104 (2%)
Query: 22 RKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAFSP 81
+K ++PEED+ L + ++G W +A R + CR RW NYL P + ++
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSD-WKMIAATFP-NRNARQCRDRWKNYLAPSISHTPWTA 67
Query: 82 QXXXXXXXXXXXXGNRWSQIAARLPGRTDNEIKNFWNSTIKKRL 125
+ G +W+ IA PGRTD IKN W TI +L
Sbjct: 68 EEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRW-VTISNKL 110
>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 = 54.3 bits (129), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 30/101 (29%), Positives = 51/101 (50%), Gaps = 1/101 (0%)
Query: 27 SPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAFSPQXXXX 86
+ EED KL +++ G W +++ + R + CR RW NY+ P L+ +SP+
Sbjct: 5 TEEEDLKLQQLVMRYGAKDWIRISQ-LMITRNPRQCRERWNNYINPALRTDPWSPEEDML 63
Query: 87 XXXXXXXXGNRWSQIAARLPGRTDNEIKNFWNSTIKKRLKN 127
G +W++I+ L R+DN I+N W + R K+
Sbjct: 64 LDQKYAEYGPKWNKISKFLKNRSDNNIRNRWMMIARHRAKH 104
>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 = 51.2 bits (121), Expect = 7e-07, Method: Composition-based stats.
Identities = 20/31 (64%), Positives = 27/31 (87%)
Query: 95 GNRWSQIAARLPGRTDNEIKNFWNSTIKKRL 125
GNRW++IA LPGRTDN IKN WNST+++++
Sbjct: 22 GNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 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 = 50.8 bits (120), Expect = 1e-06, Method: Composition-based stats.
Identities = 20/31 (64%), Positives = 27/31 (87%)
Query: 95 GNRWSQIAARLPGRTDNEIKNFWNSTIKKRL 125
GNRW++IA LPGRTDN IKN WNST+++++
Sbjct: 24 GNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 23/53 (43%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPD 73
L KG W+ EED +L+ + K G WS +A++ R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/53 (41%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPD 73
L KG W+ EED +++ + K G WS +A++ R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 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 = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/53 (41%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPD 73
L KG W+ EED +++ + K G WS +A++ R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 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 = 35.4 bits (80), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 25 LWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPDLKRGAFS 80
+W ED+ L ++K G+ WS +A + ++ K C+ RW +L P +K+ +S
Sbjct: 11 VWRNTEDEILKAAVMKYGKNQWSRIA-SLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>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 = 32.3 bits (72), Expect = 0.39, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPD 73
L K W+ EED+KL + +NG W +A N R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIA-NYLPNRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 32.3 bits (72), Expect = 0.39, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 21 LRKGLWSPEEDDKLMNYMLKNGQGCWSDVARNAGLQRCGKSCRLRWINYLRPD 73
L K W+ EED+KL + +NG W +A N R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIA-NYLPNRTDVQCQHRWQKVLNPE 52
>pdb|2CW2|A Chain A, Crystal Structure Of Superoxide Dismutase From P. Marinus
pdb|2CW2|B Chain B, Crystal Structure Of Superoxide Dismutase From P. Marinus
Length = 226
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 199 MMGCSSNGYMINTTSCISQVGMNNC-GNFGGEFYVPPLESISCCIEENIKAENSFYDH 255
M+ + + + T+ + ++G+ C + G F PPL + +E ++ AE Y H
Sbjct: 1 MLSVAGHRFASLATTPVLRMGLARCFSSVTGPFQCPPLPYVKNALEPHMSAETLTYHH 58
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 26 WSPEEDDKLMNYMLKNGQGCWSDV 49
W+ EED+KL+ + K G G 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 = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 26 WSPEEDDKLMNYMLKNGQGCWSDV 49
W+ EED+KL+ + K G G W+ +
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQI 195
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
0.318 0.134 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,983,999
Number of Sequences: 62578
Number of extensions: 257719
Number of successful extensions: 425
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 383
Number of HSP's gapped (non-prelim): 30
length of query: 316
length of database: 14,973,337
effective HSP length: 99
effective length of query: 217
effective length of database: 8,778,115
effective search space: 1904850955
effective search space used: 1904850955
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: 51 (24.3 bits)