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= 034546
(91 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 5/63 (7%)
Query: 7 KQAKXXXXXFYSEEVSSIEWEFINMSEQEEDLIYRMYKLVGDRWALIAGRIPGRKAEEIE 66
KQ + + EV W +E+E+ +IY+ +K +G+RWA IA +PGR I+
Sbjct: 94 KQCRERWHNHLNPEVKKTSW-----TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIK 148
Query: 67 RFW 69
W
Sbjct: 149 NHW 151
>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 = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 5/63 (7%)
Query: 7 KQAKXXXXXFYSEEVSSIEWEFINMSEQEEDLIYRMYKLVGDRWALIAGRIPGRKAEEIE 66
KQ + + EV W +E+E+ +IY+ +K +G+RWA IA +PGR I+
Sbjct: 40 KQCRERWHNHLNPEVKKTSW-----TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIK 94
Query: 67 RFW 69
W
Sbjct: 95 NHW 97
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 5/63 (7%)
Query: 7 KQAKXXXXXFYSEEVSSIEWEFINMSEQEEDLIYRMYKLVGDRWALIAGRIPGRKAEEIE 66
KQ + + EV W +E+E+ +IY+ +K +G+RWA IA +PGR ++
Sbjct: 63 KQCRERWHNHLNPEVKKTSW-----TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVK 117
Query: 67 RFW 69
W
Sbjct: 118 NHW 120
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 5/63 (7%)
Query: 7 KQAKXXXXXFYSEEVSSIEWEFINMSEQEEDLIYRMYKLVGDRWALIAGRIPGRKAEEIE 66
KQ + + EV W +E+E+ +IY+ +K +G+RWA IA +PGR I+
Sbjct: 40 KQCRERWHNHLNPEVKKTSW-----TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIK 94
Query: 67 RFW 69
W
Sbjct: 95 NHW 97
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 26/38 (68%)
Query: 32 SEQEEDLIYRMYKLVGDRWALIAGRIPGRKAEEIERFW 69
+E+E+ +IY+ +K +G+RWA IA +PGR I+ W
Sbjct: 7 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHW 44
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 4 RRRKQAKXXXXXFYSEEVSSIEWEFINMSEQEEDLIYRMYKLVGDRWALIAGRIPGRKAE 63
R KQ + + EV W +E+E+ +I+ +K++G+RWA IA +PGR
Sbjct: 40 RLGKQCRERWHNHLNPEVKKSSW-----TEEEDRIIFEAHKVLGNRWAEIAKLLPGRTDN 94
Query: 64 EIERFW 69
++ W
Sbjct: 95 AVKNHW 100
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 20 EVSSIEWEFINMSEQEEDLIYRMYKLVGDRWALIAGRIPGRKAEEIERFW 69
EV W +E+E+ ++Y+ +K +G+RWA IA +PGR I+ W
Sbjct: 2 EVKKTSW-----TEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHW 46
>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 = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 32 SEQEEDLIYRMYKLVGDRWALIAGRIPGRKAEEIERFW 69
+ +E++ I+R Y +G +W++IA IPGR I+ W
Sbjct: 58 TPEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRW 95
>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 = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 16/67 (23%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 4 RRRKQAKXXXXXFYSEEVSSIEWEFINMSEQEEDLIYRMYKLVGDRWALIAGRIPGRKAE 63
R +Q + + + +S W + +E+ L+ + + G +WA+IA PGR
Sbjct: 43 RNARQCRDRWKNYLAPSISHTPW-----TAEEDALLVQKIQEYGRQWAIIAKFFPGRTDI 97
Query: 64 EIERFWI 70
I+ W+
Sbjct: 98 HIKNRWV 104
>pdb|2F7L|A Chain A, Crystal Structure Of Sulfolobus Tokodaii
PhosphomannomutasePHOSPHOGLUCOMUTASE
pdb|2F7L|B Chain B, Crystal Structure Of Sulfolobus Tokodaii
PhosphomannomutasePHOSPHOGLUCOMUTASE
Length = 455
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 10/39 (25%), Positives = 19/39 (48%)
Query: 5 RRKQAKXXXXXFYSEEVSSIEWEFINMSEQEEDLIYRMY 43
RR++ F++E ++IEW + + ED + Y
Sbjct: 117 RREKENEIEDLFFTERFNTIEWSSLTTEVKREDRVISTY 155
>pdb|2CUF|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Hypothetical Protein Flj21616
Length = 95
Score = 25.4 bits (54), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 19/28 (67%)
Query: 58 PGRKAEEIERFWIMRHGQAFADRRRELR 85
PG+K ++ER ++ FA+RR+E++
Sbjct: 51 PGKKLSDLERVTSLKVYNWFANRRKEIK 78
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
0.323 0.136 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,385,615
Number of Sequences: 62578
Number of extensions: 76721
Number of successful extensions: 160
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 144
Number of HSP's gapped (non-prelim): 16
length of query: 91
length of database: 14,973,337
effective HSP length: 58
effective length of query: 33
effective length of database: 11,343,813
effective search space: 374345829
effective search space used: 374345829
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)