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= 021486
(312 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 = 112 bits (279), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 51/106 (48%), Positives = 74/106 (69%), Gaps = 3/106 (2%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPK-LAGLLRCGKSCRLRWTNYLRPDIKRGPF 70
L KGPW EED+ ++E +K+ G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG--RLGKQCRERWHNHLNPEVKKSSW 62
Query: 71 TEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116
TEEE++++ + H +LGNRWA IA LPGRTDN +KN WN+ +K+++
Sbjct: 63 TEEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 110 bits (274), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 50/106 (47%), Positives = 74/106 (69%), Gaps = 3/106 (2%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPK-LAGLLRCGKSCRLRWTNYLRPDIKRGPF 70
L KGPW EED+ ++E++++ G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 82
Query: 71 TEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116
TEEE++++ Q H LGNRWA IA LPGRTDN +KN WN+ +++++
Sbjct: 83 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 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 = 105 bits (263), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 50/106 (47%), Positives = 73/106 (68%), Gaps = 3/106 (2%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPK-LAGLLRCGKSCRLRWTNYLRPDIKRGPF 70
L KGPW EED+ +++ +++ G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 113
Query: 71 TEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116
TEEE++++ Q H LGNRWA IA LPGRTDN IKN WN+ +++++
Sbjct: 114 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
>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 (262), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 50/106 (47%), Positives = 73/106 (68%), Gaps = 3/106 (2%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPK-LAGLLRCGKSCRLRWTNYLRPDIKRGPF 70
L KGPW EED+ +++ +++ G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 59
Query: 71 TEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116
TEEE++++ Q H LGNRWA IA LPGRTDN IKN WN+ +++++
Sbjct: 60 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 105 bits (262), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 50/106 (47%), Positives = 73/106 (68%), Gaps = 3/106 (2%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPK-LAGLLRCGKSCRLRWTNYLRPDIKRGPF 70
L KGPW EED+ +++ +++ G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 59
Query: 71 TEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116
TEEE++++ Q H LGNRWA IA LPGRTDN IKN WN+ +++++
Sbjct: 60 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>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 = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 43/105 (40%), Positives = 67/105 (63%), Gaps = 5/105 (4%)
Query: 14 KGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLL--RCGKSCRLRWTNYLRPDIKRGPFT 71
KGP+ ED+++ EY+K NG +W P++ L R K CR RW N+L P + + +T
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAWT 58
Query: 72 EEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116
EE++ + + + LG++W+ IA +PGRTDN IKN WN+ + KR+
Sbjct: 59 PEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRI 103
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 67 RGPFTEEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHLKKRMLLMGLDPQT 125
+GPFTE E+ L+ + G W I S LP R+ + + W HL ++ P+
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPEE 61
Query: 126 HE 127
E
Sbjct: 62 DE 63
>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 = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 48/120 (40%), Positives = 64/120 (53%), Gaps = 11/120 (9%)
Query: 10 KGLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLL--RCGKSCRLRWTNYLRPDIKR 67
K KK + PEEDE+L + ++G W+ + A R + CR RW NYL P I
Sbjct: 7 KAAKKQKFTPEEDEMLKRAVAQHG-SDWKMI---AATFPNRNARQCRDRWKNYLAPSISH 62
Query: 68 GPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRMLLMGLDPQTHE 127
P+T EE+ L++Q G +WA IA PGRTD IKN W T K +G+ PQT +
Sbjct: 63 TPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTISNK----LGI-PQTQQ 117
>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 = 65.5 bits (158), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 41/53 (77%)
Query: 64 DIKRGPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116
++K+ +TEEE++++ Q H LGNRWA IA LPGRTDN IKN WN+ +++++
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>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 = 63.5 bits (153), Expect = 1e-10, Method: Composition-based stats.
Identities = 27/52 (51%), Positives = 40/52 (76%)
Query: 65 IKRGPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116
+K+ +TEEE++++ Q H LGNRWA IA LPGRTDN IKN WN+ +++++
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>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 = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 31/89 (34%), Positives = 49/89 (55%), Gaps = 1/89 (1%)
Query: 20 EEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVI 79
EED L + + R G W + +L + R + CR RW NY+ P ++ P++ EE+ L+
Sbjct: 7 EEDLKLQQLVMRYGAKDWIRISQLM-ITRNPRQCRERWNNYINPALRTDPWSPEEDMLLD 65
Query: 80 QLHGILGNRWAAIASQLPGRTDNEIKNLW 108
Q + G +W I+ L R+DN I+N W
Sbjct: 66 QKYAEYGPKWNKISKFLKNRSDNNIRNRW 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 = 48.1 bits (113), Expect = 6e-06, Method: Composition-based stats.
Identities = 24/54 (44%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPK-LAGLLRCGKSCRLRWTNYLRPD 64
L KGPW EED+ ++E +++ G W + K L G R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPE 52
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 67 RGPFTEEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHL 112
+GP+T+EE++ VI+L G RW+ IA L GR + + W+ HL
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 47.8 bits (112), Expect = 9e-06, Method: Composition-based stats.
Identities = 24/54 (44%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPK-LAGLLRCGKSCRLRWTNYLRPD 64
L KGPW EED+ L++ +++ G W + K L G R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPE 52
Score = 38.1 bits (87), Expect = 0.006, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 67 RGPFTEEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHL 112
+GP+T+EE++ +I+L G RW+ IA L GR + + W+ HL
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 46.6 bits (109), Expect = 2e-05, Method: Composition-based stats.
Identities = 23/54 (42%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPK-LAGLLRCGKSCRLRWTNYLRPD 64
L KGPW EED+ +++ +++ G W + K L G R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPE 52
Score = 39.3 bits (90), Expect = 0.002, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 67 RGPFTEEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHL 112
+GP+T+EE++ VI+L G RW+ IA L GR + + W+ HL
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 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 = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 17 WAPEEDEILVEYIKRNGHGSWRSLPKLAGLL--RCGKSCRLRWTNYLRPDIKRGPFT 71
W EDEIL + + G W ++A LL + K C+ RW +L P IK+ ++
Sbjct: 12 WRNTEDEILKAAVMKYGKNQW---SRIASLLHRKSAKQCKARWYEWLDPSIKKTEWS 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 = 31.2 bits (69), Expect = 0.73, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 5/55 (9%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLL--RCGKSCRLRWTNYLRPD 64
L K W EEDE L + +++NG W+ +A L R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKV---IANYLPNRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 31.2 bits (69), Expect = 0.73, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 5/55 (9%)
Query: 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLL--RCGKSCRLRWTNYLRPD 64
L K W EEDE L + +++NG W+ +A L R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKV---IANYLPNRTDVQCQHRWQKVLNPE 52
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 12/59 (20%)
Query: 50 GKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLW 108
G S +++WT+ EE+E+L + W +AS P RTD + + W
Sbjct: 4 GSSGKVKWTH------------EEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRW 50
>pdb|3ZEY|7 Chain 7, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 318
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 31/65 (47%), Gaps = 5/65 (7%)
Query: 154 RLEAEARLSRESLLFNTPSMGKTDS-DHFLRMWNSEVGESFRKF---NKGVKTACQSP-N 208
RLE + + L N + + S DH LR+WN + G+ KF K V + SP N
Sbjct: 62 RLEGHSAFVSDVALSNNGNFAVSASWDHSLRLWNLQNGQCQYKFLGHTKDVLSVAFSPDN 121
Query: 209 SQVSS 213
Q+ S
Sbjct: 122 RQIVS 126
>pdb|2LYX|A Chain A, Nmr Structure Of The Protein Np_390345.1 From Bacilus
Subtilis
Length = 87
Score = 28.1 bits (61), Expect = 6.9, Method: Composition-based stats.
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 143 TTRHMAQWES-ARLEAEARLSRESLLFNTPSMGKTDSDHFLRMWNSEVGESFRKFNKGVK 201
T RHM++WE A EA+ R +LF + D ++ ++ + E ++F V
Sbjct: 8 TARHMSKWEEIAVKEAKKRYPLAQVLFKQKVWDRKRKDEAVKQYHLTLREGSKEFGVFV- 66
Query: 202 TACQSPNSQ 210
T P SQ
Sbjct: 67 TISFDPYSQ 75
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
0.315 0.130 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,113,560
Number of Sequences: 62578
Number of extensions: 340594
Number of successful extensions: 995
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 936
Number of HSP's gapped (non-prelim): 36
length of query: 312
length of database: 14,973,337
effective HSP length: 99
effective length of query: 213
effective length of database: 8,778,115
effective search space: 1869738495
effective search space used: 1869738495
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)