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= 013300
(446 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 = 109 bits (273), Expect = 3e-24, Method: Composition-based stats.
Identities = 50/105 (47%), Positives = 74/105 (70%), Gaps = 1/105 (0%)
Query: 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFS 71
L KG W+ EED+K++ + KYG W+ + K R GK CR RW N+L P++K+ +++
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLK-GRLGKQCRERWHNHLNPEVKKSSWT 63
Query: 72 QQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116
++E+ +I E H VLGNRW++IA LPGRTDN +KN WNS +K+K+
Sbjct: 64 EEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 107 bits (268), Expect = 1e-23, Method: Composition-based stats.
Identities = 48/106 (45%), Positives = 75/106 (70%), Gaps = 1/106 (0%)
Query: 11 KLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTF 70
+L KG W+ EED++++ H+ KYG WS + K R GK CR RW N+L P++K+ ++
Sbjct: 24 ELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLK-GRIGKQCRERWHNHLNPEVKKTSW 82
Query: 71 SQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116
+++E+ +I + H LGNRW++IA LPGRTDN +KN WNS +++K+
Sbjct: 83 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
>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 = 105 bits (261), Expect = 6e-23, Method: Composition-based stats.
Identities = 48/105 (45%), Positives = 74/105 (70%), Gaps = 1/105 (0%)
Query: 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFS 71
L KG W+ EED+++++ + KYG WS + K R GK CR RW N+L P++K+ +++
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 60
Query: 72 QQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116
++E+ +I + H LGNRW++IA LPGRTDN IKN WNS +++K+
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
Score = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 65 LKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118
L +G ++++E+ +I+L G RWS IA L GR + + W++ L ++++
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKK 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 = 105 bits (261), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 48/105 (45%), Positives = 74/105 (70%), Gaps = 1/105 (0%)
Query: 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFS 71
L KG W+ EED+++++ + KYG WS + K R GK CR RW N+L P++K+ +++
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 114
Query: 72 QQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116
++E+ +I + H LGNRW++IA LPGRTDN IKN WNS +++K+
Sbjct: 115 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 105 bits (261), Expect = 7e-23, Method: Composition-based stats.
Identities = 48/106 (45%), Positives = 75/106 (70%), Gaps = 1/106 (0%)
Query: 11 KLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTF 70
+L KG W+ EED+++++ + KYG WS + K R GK CR RW N+L P++K+ ++
Sbjct: 1 ELIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSW 59
Query: 71 SQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116
+++E+ +I + H LGNRW++IA LPGRTDN IKN WNS +++K+
Sbjct: 60 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
Score = 31.6 bits (70), Expect = 0.85, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 64 DLKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118
+L +G ++++E+ +I+L G RWS IA L GR + + W++ L ++++
Sbjct: 1 ELIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKK 56
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 36/103 (34%), Positives = 58/103 (56%), Gaps = 1/103 (0%)
Query: 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQ 73
KG ++ ED+ + ++ + G W + R K CR RW N+L P + + ++ +
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLP-NRSPKQCRERWFNHLDPAVVKHAWTPE 60
Query: 74 EENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116
E+ I + LG++WS IA +PGRTDN IKN WNS + K++
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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 34/96 (35%), Positives = 52/96 (54%), Gaps = 2/96 (2%)
Query: 13 RKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQ 72
+K ++PEEDE L R + ++G W + R + CR RW NYL P + ++
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSD-WKMIAATFP-NRNARQCRDRWKNYLAPSISHTPWTA 67
Query: 73 QEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLW 108
+E+ L+++ G +W+ IA PGRTD IKN W
Sbjct: 68 EEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRW 103
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 24/47 (51%)
Query: 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCL 112
K+ F+ +E+ ++ A G+ W IAA P R + ++ 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 = 62.4 bits (150), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 53/91 (58%), Gaps = 1/91 (1%)
Query: 18 SPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENL 77
+ EED KL + + +YG W + Q + R + CR RW NY+ P L+ +S +E+ L
Sbjct: 5 TEEEDLKLQQLVMRYGAKDWIRIS-QLMITRNPRQCRERWNNYINPALRTDPWSPEEDML 63
Query: 78 IIELHAVLGNRWSQIAAQLPGRTDNEIKNLW 108
+ + +A G +W++I+ L R+DN I+N W
Sbjct: 64 LDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 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 = 60.8 bits (146), Expect = 1e-09, Method: Composition-based stats.
Identities = 25/52 (48%), Positives = 41/52 (78%)
Query: 65 LKRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116
+K+ +++++E+ +I + H LGNRW++IA LPGRTDN IKN WNS +++K+
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 = 60.5 bits (145), Expect = 2e-09, Method: Composition-based stats.
Identities = 24/53 (45%), Positives = 42/53 (79%)
Query: 64 DLKRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116
++K+ +++++E+ ++ + H LGNRW++IA LPGRTDN IKN WNS +++K+
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 49.7 bits (117), Expect = 4e-06, Method: Composition-based stats.
Identities = 24/53 (45%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPD 64
L KG W+ EED++L++ + KYG WS + K R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 29.3 bits (64), Expect = 4.1, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 65 LKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCL 112
L +G ++++E+ +I+L G RWS IA L GR + + W++ L
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 48.5 bits (114), Expect = 8e-06, Method: Composition-based stats.
Identities = 23/53 (43%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPD 64
L KG W+ EED+++++ + KYG WS + K R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 65 LKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCL 112
L +G ++++E+ +I+L G RWS IA L GR + + W++ L
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>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 = 1e-05, Method: Composition-based stats.
Identities = 23/53 (43%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPD 64
L KG W+ EED++++ + KYG WS + K R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 31.6 bits (70), Expect = 0.93, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 65 LKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCL 112
L +G ++++E+ +IEL G RWS IA L GR + + W++ L
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 18/24 (75%)
Query: 17 WSPEEDEKLLRHITKYGHGCWSSV 40
W+ EEDEKLL + KYG+G W+ +
Sbjct: 171 WTKEEDEKLLIGVFKYGYGSWTQI 194
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 5/58 (8%)
Query: 16 LWSPEEDEKLLRHITKYGHGCWSSVPKQAGL--QRCGKSCRLRWINYLRPDLKRGTFS 71
+W EDE L + KYG WS + A L ++ K C+ RW +L P +K+ +S
Sbjct: 11 VWRNTEDEILKAAVMKYGKNQWSRI---ASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|3TED|A Chain A, Crystal Structure Of The Chd1 Dna-Binding Domain In
Complex With A Dna Duplex
Length = 271
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 18/24 (75%)
Query: 17 WSPEEDEKLLRHITKYGHGCWSSV 40
W+ EEDEKLL + KYG+G W+ +
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQI 195
>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 = 28.5 bits (62), Expect = 7.5, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPD 64
L K W+ EEDEKL + + + G W + R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 28.5 bits (62), Expect = 7.5, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPD 64
L K W+ EEDEKL + + + G W + R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|4AMC|A Chain A, Crystal Structure Of Lactobacillus Reuteri 121
N-Terminally Truncated Glucansucrase Gtfa
Length = 1049
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 45/108 (41%), Gaps = 18/108 (16%)
Query: 101 DNEIKNLWNSCLKKKLRQRGIDPVTHKPLSEVENGEDKN-----------QTTNSQDKVS 149
D+ IKN N L + G+D + H+ L++ EN +N NSQD++
Sbjct: 344 DDTIKNSLNHGLSDATNRWGLDAIVHQSLADRENNSTENVVIPNYSFVRAHDNNSQDQIQ 403
Query: 150 G----VSGELNLLNTELTAKHGTTAALNEQKPTSVTAQAYHLSEIQGS 193
V+G+ T + G A + +Q T + Y+L I S
Sbjct: 404 NAIRDVTGKDYHTFTFEDEQKGIDAYIQDQNS---TVKKYNLYNIPAS 448
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
0.313 0.128 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,320,305
Number of Sequences: 62578
Number of extensions: 455751
Number of successful extensions: 844
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 789
Number of HSP's gapped (non-prelim): 41
length of query: 446
length of database: 14,973,337
effective HSP length: 102
effective length of query: 344
effective length of database: 8,590,381
effective search space: 2955091064
effective search space used: 2955091064
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)