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= 047269
(217 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 = 102 bits (255), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 51/100 (51%), Positives = 69/100 (69%), Gaps = 3/100 (3%)
Query: 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHK-VTGLKRCGKSCRLRWLNYLSPNVKHGEFTE 67
KG WT+EED+ ++E ++ +G QW I K + G R GK CR RW N+L+P VK +TE
Sbjct: 7 KGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG--RLGKQCRERWHNHLNPEVKKSSWTE 64
Query: 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107
EE+ +I H +LGNRW+ IA +PGRTDN VKNHWN+ +
Sbjct: 65 EEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTI 104
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 58 PNVKHGEFTEEEENLIIRLHNLLGNR-WSLIAGRVPGRTDNQVKNHWNTHL 107
P++ G +T+EE+ +I L G + W+LIA + GR Q + W+ HL
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHL 53
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 100 bits (248), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 51/103 (49%), Positives = 72/103 (69%), Gaps = 3/103 (2%)
Query: 6 EYKKGLWTQEEDRILLEYIRVHGRGQWNRIHK-VTGLKRCGKSCRLRWLNYLSPNVKHGE 64
E KG WT+EED+ ++E+++ +G +W+ I K + G R GK CR RW N+L+P VK
Sbjct: 24 ELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG--RIGKQCRERWHNHLNPEVKKTS 81
Query: 65 FTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107
+TEEE+ +I + H LGNRW+ IA +PGRTDN VKNHWN+ +
Sbjct: 82 WTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTM 124
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 43 RCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKN 101
R C+ RW L+P + G +T+EE+ +I G RWS IA + GR Q +
Sbjct: 8 RTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRE 67
Query: 102 HWNTHL 107
W+ HL
Sbjct: 68 RWHNHL 73
>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 = 95.9 bits (237), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 48/100 (48%), Positives = 70/100 (70%), Gaps = 3/100 (3%)
Query: 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHK-VTGLKRCGKSCRLRWLNYLSPNVKHGEFTE 67
KG WT+EED+ +++ ++ +G +W+ I K + G R GK CR RW N+L+P VK +TE
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 115
Query: 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107
EE+ +I + H LGNRW+ IA +PGRTDN +KNHWN+ +
Sbjct: 116 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTM 155
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 34/100 (34%), Positives = 50/100 (50%), Gaps = 2/100 (2%)
Query: 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEE 68
K WT+EED L + + +G W I R C+ RW L+P + G +T+E
Sbjct: 6 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPELIKGPWTKE 64
Query: 69 EENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHL 107
E+ +I+L G RWS+IA + GR Q + W+ HL
Sbjct: 65 EDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 104
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 95.9 bits (237), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 48/100 (48%), Positives = 70/100 (70%), Gaps = 3/100 (3%)
Query: 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHK-VTGLKRCGKSCRLRWLNYLSPNVKHGEFTE 67
KG WT+EED+ +++ ++ +G +W+ I K + G R GK CR RW N+L+P VK +TE
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 61
Query: 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107
EE+ +I + H LGNRW+ IA +PGRTDN +KNHWN+ +
Sbjct: 62 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTM 101
>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 = 2e-20, Method: Compositional matrix adjust.
Identities = 48/100 (48%), Positives = 70/100 (70%), Gaps = 3/100 (3%)
Query: 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHK-VTGLKRCGKSCRLRWLNYLSPNVKHGEFTE 67
KG WT+EED+ +++ ++ +G +W+ I K + G R GK CR RW N+L+P VK +TE
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSWTE 61
Query: 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107
EE+ +I + H LGNRW+ IA +PGRTDN +KNHWN+ +
Sbjct: 62 EEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTM 101
>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 = 86.7 bits (213), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 42/100 (42%), Positives = 60/100 (60%), Gaps = 1/100 (1%)
Query: 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEE 68
KG +T+ ED ++ EY++ +G W RI R K CR RW N+L P V +T E
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLP-NRSPKQCRERWFNHLDPAVVKHAWTPE 60
Query: 69 EENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLC 108
E+ I R + LG++WS+IA +PGRTDN +KN WN+ +
Sbjct: 61 EDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSIS 100
>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 = 74.3 bits (181), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 39/98 (39%), Positives = 55/98 (56%), Gaps = 2/98 (2%)
Query: 8 KKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTE 67
KK +T EED +L + HG W I T R + CR RW NYL+P++ H +T
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHG-SDWKMI-AATFPNRNARQCRDRWKNYLAPSISHTPWTA 67
Query: 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNT 105
EE+ L+++ G +W++IA PGRTD +KN W T
Sbjct: 68 EEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 105
Score = 35.0 bits (79), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 60 VKHGEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLC 108
K +FT EE+ ++ R G+ W +IA P R Q ++ W +L
Sbjct: 9 AKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLA 57
>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 = 26/48 (54%), Positives = 35/48 (72%)
Query: 60 VKHGEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107
VK +TEEE+ +I + H LGNRW+ IA +PGRTDN +KNHWN+ +
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTM 48
>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 = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 25/48 (52%), Positives = 35/48 (72%)
Query: 60 VKHGEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107
VK +TEEE+ ++ + H LGNRW+ IA +PGRTDN +KNHWN+ +
Sbjct: 3 VKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTM 50
>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 = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 53/91 (58%), Gaps = 1/91 (1%)
Query: 13 TQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENL 72
T+EED L + + +G W RI ++ + R + CR RW NY++P ++ ++ EE+ L
Sbjct: 5 TEEEDLKLQQLVMRYGAKDWIRISQLM-ITRNPRQCRERWNNYINPALRTDPWSPEEDML 63
Query: 73 IIRLHNLLGNRWSLIAGRVPGRTDNQVKNHW 103
+ + + G +W+ I+ + R+DN ++N W
Sbjct: 64 LDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 35/51 (68%), Gaps = 3/51 (5%)
Query: 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHK-VTGLKRCGKSCRLRWLNYLSP 58
KG WT+EED+ ++E ++ +G +W+ I K + G R GK CR RW N+L+P
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNP 51
Score = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 63 GEFTEEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHL 107
G +T+EE+ +I L G RWS+IA + GR Q + W+ HL
Sbjct: 4 GPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 35/51 (68%), Gaps = 3/51 (5%)
Query: 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHK-VTGLKRCGKSCRLRWLNYLSP 58
KG WT+EED+ L++ ++ +G +W+ I K + G R GK CR RW N+L+P
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNP 51
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 63 GEFTEEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHL 107
G +T+EE+ +I+L G RWS+IA + GR Q + W+ HL
Sbjct: 4 GPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 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 = 41.6 bits (96), Expect = 4e-04, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 11 LWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFT 66
+W ED IL + +G+ QW+RI + ++ K C+ RW +L P++K E++
Sbjct: 11 VWRNTEDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 35/51 (68%), Gaps = 3/51 (5%)
Query: 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHK-VTGLKRCGKSCRLRWLNYLSP 58
KG WT+EED+ +++ ++ +G +W+ I K + G R GK CR RW N+L+P
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNP 51
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 63 GEFTEEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHL 107
G +T+EE+ +I+L G RWS+IA + GR Q + W+ HL
Sbjct: 4 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 29.3 bits (64), Expect = 1.8, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 12 WTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLS 57
WT EED L +R G+ W + R + C+ RWL LS
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHFP-NRTDQQCQYRWLRVLS 55
Score = 27.3 bits (59), Expect = 6.3, Method: Composition-based stats.
Identities = 12/37 (32%), Positives = 16/37 (43%)
Query: 67 EEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHW 103
EE+E L + W +A P RTD Q + W
Sbjct: 14 EEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRW 50
>pdb|3TED|A Chain A, Crystal Structure Of The Chd1 Dna-Binding Domain In
Complex With A Dna Duplex
Length = 271
Score = 27.3 bits (59), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 12 WTQEEDRILLEYIRVHGRGQWNRIH 36
WT+EED LL + +G G W +I
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQIR 196
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 27.3 bits (59), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 12 WTQEEDRILLEYIRVHGRGQWNRIH 36
WT+EED LL + +G G W +I
Sbjct: 171 WTKEEDEKLLIGVFKYGYGSWTQIR 195
>pdb|2DIN|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of Human
Cell Division Cycle 5-Like Protein
Length = 66
Score = 27.3 bits (59), Expect = 7.0, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 61 KHGEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHW 103
K E++ EEE ++ L L+ +W IA + GRT Q H+
Sbjct: 8 KKTEWSREEEEKLLHLAKLMPTQWRTIA-PIIGRTAAQCLEHY 49
>pdb|3IR4|A Chain A, 1.2 Angstrom Crystal Structure Of The Glutaredoxin 2
(Grxb) From Salmonella Typhimurium In Complex With
Glutathione
Length = 218
Score = 26.9 bits (58), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 10/70 (14%)
Query: 36 HKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLGNRWSLIAG-----R 90
H +K+ G RL + PN +GE +E++ +L L NL +L+AG +
Sbjct: 142 HSAGLIKKIGDDLRLLDKLIVQPNAVNGELSEDDIHLFPLLRNL-----TLVAGIHWPTK 196
Query: 91 VPGRTDNQVK 100
V DN K
Sbjct: 197 VADYRDNXAK 206
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 0.137 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,632,842
Number of Sequences: 62578
Number of extensions: 249122
Number of successful extensions: 539
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 480
Number of HSP's gapped (non-prelim): 43
length of query: 217
length of database: 14,973,337
effective HSP length: 95
effective length of query: 122
effective length of database: 9,028,427
effective search space: 1101468094
effective search space used: 1101468094
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: 49 (23.5 bits)