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= 041215
(136 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MMY|A Chain A, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|C Chain C, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|E Chain E, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|G Chain G, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
Length = 368
Score = 128 bits (321), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 67/137 (48%), Positives = 88/137 (64%), Gaps = 12/137 (8%)
Query: 1 VGSIEGRVGVHHLDDSQQSK-NFTFKCHRDG-------SEIYSVNSLNFHPIHHTFATAG 52
+GSIEGRV +H+++ +K NFTFKCHR +IY+VN + FHP+H T AT G
Sbjct: 233 LGSIEGRVAIHYINPPNPAKDNFTFKCHRSNGTNTSAPQDIYAVNGIAFHPVHGTLATVG 292
Query: 53 SDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYSVCYDWSKGAENHNPATAKT 112
SDG F+FWDKD++ +LK + QPI FN +G+IFAY+ YDWSKG E +NP K
Sbjct: 293 SDGRFSFWDKDARTKLKTSEQLDQPISACCFNHNGNIFAYASSYDWSKGHEFYNPQ-KKN 351
Query: 113 YIYLHLPQETEVKGKPR 129
YI+L E + KPR
Sbjct: 352 YIFLRNAAE---ELKPR 365
>pdb|1U4C|A Chain A, Structure Of Spindle Checkpoint Protein Bub3
pdb|1U4C|B Chain B, Structure Of Spindle Checkpoint Protein Bub3
Length = 349
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 38/110 (34%), Positives = 53/110 (48%), Gaps = 23/110 (20%)
Query: 3 SIEGRVGVHHLDDS----QQSKNFTFKCHR----DGSEIYSVNSLNFHPIHHTFATAGSD 54
SI+GRV V DD SK F F+CHR D + Y VNS+ F P H TAGSD
Sbjct: 213 SIDGRVAVEFFDDQGDDYNSSKRFAFRCHRLNLKDTNLAYPVNSIEFSPRHKFLYTAGSD 272
Query: 55 GAFNFWDKDSKQRLKAMSR----------CGQPIPC-----STFNTDGSI 89
G + W+ +++++K ++ C I C TF T+ +I
Sbjct: 273 GIISCWNLQTRKKIKNFAKFNEDSVVKIACSDNILCLATSDDTFKTNAAI 322
>pdb|2I3S|A Chain A, Bub3 Complex With Bub1 Glebs Motif
pdb|2I3S|C Chain C, Bub3 Complex With Bub1 Glebs Motif
pdb|2I3S|E Chain E, Bub3 Complex With Bub1 Glebs Motif
Length = 349
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 38/110 (34%), Positives = 53/110 (48%), Gaps = 23/110 (20%)
Query: 3 SIEGRVGVHHLDDS----QQSKNFTFKCHR----DGSEIYSVNSLNFHPIHHTFATAGSD 54
SI+GRV V DD SK F F+CHR D + Y VNS+ F P H TAGSD
Sbjct: 213 SIDGRVAVEFFDDQGDDYNSSKRFAFRCHRLNLKDTNLAYPVNSIEFSPRHKFLYTAGSD 272
Query: 55 GAFNFWDKDSKQRLKAMSR----------CGQPIPC-----STFNTDGSI 89
G + W+ +++++K ++ C I C TF T+ +I
Sbjct: 273 GIISCWNLQTRKKIKNFAKFNEDSVVKIACSDNILCLATSDDTFKTNAAI 322
>pdb|1YFQ|A Chain A, High Resolution S. Cerevisiae Bub3 Mitotic Checkpoint
Protein
Length = 342
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 38/110 (34%), Positives = 53/110 (48%), Gaps = 23/110 (20%)
Query: 3 SIEGRVGVHHLDDS----QQSKNFTFKCHR----DGSEIYSVNSLNFHPIHHTFATAGSD 54
SI+GRV V DD SK F F+CHR D + Y VNS+ F P H TAGSD
Sbjct: 213 SIDGRVAVEFFDDQGDDYNSSKRFAFRCHRLNLKDTNLAYPVNSIEFSPRHKFLYTAGSD 272
Query: 55 GAFNFWDKDSKQRLKAMSR----------CGQPIPC-----STFNTDGSI 89
G + W+ +++++K ++ C I C TF T+ +I
Sbjct: 273 GIISCWNLQTRKKIKNFAKFNEDSVVKIACSDNILCLATSDDTFKTNAAI 322
>pdb|2I3T|A Chain A, Bub3 Complex With Mad3 (Bubr1) Glebs Motif
pdb|2I3T|C Chain C, Bub3 Complex With Mad3 (Bubr1) Glebs Motif
pdb|2I3T|E Chain E, Bub3 Complex With Mad3 (Bubr1) Glebs Motif
pdb|2I3T|G Chain G, Bub3 Complex With Mad3 (Bubr1) Glebs Motif
Length = 341
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 38/110 (34%), Positives = 53/110 (48%), Gaps = 23/110 (20%)
Query: 3 SIEGRVGVHHLDDS----QQSKNFTFKCHR----DGSEIYSVNSLNFHPIHHTFATAGSD 54
SI+GRV V DD SK F F+CHR D + Y VNS+ F P H TAGSD
Sbjct: 213 SIDGRVAVEFFDDQGDDYNSSKRFAFRCHRLNLKDTNLAYPVNSIEFSPRHKFLYTAGSD 272
Query: 55 GAFNFWDKDSKQRLKAMSR----------CGQPIPC-----STFNTDGSI 89
G + W+ +++++K ++ C I C TF T+ +I
Sbjct: 273 GIISCWNLQTRKKIKNFAKFNEDSVVKIACSDNILCLATSDDTFKTNAAI 322
>pdb|1S4U|X Chain X, Crystal Structure Analysis Of The Beta-Propeller Protein
Ski8p
Length = 407
Score = 33.1 bits (74), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 36 VNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAM 71
V SL+F+ T +AG DG FWD +K+R+ +
Sbjct: 304 VMSLSFNDSGETLCSAGWDGKLRFWDVKTKERITTL 339
>pdb|1SQ9|A Chain A, Structure Of Ski8p, A Wd Repeat Protein Involved In Mrna
Degradation And Meiotic Recombination
Length = 397
Score = 33.1 bits (74), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 36 VNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAM 71
V SL+F+ T +AG DG FWD +K+R+ +
Sbjct: 294 VMSLSFNDSGETLCSAGWDGKLRFWDVKTKERITTL 329
>pdb|2XL2|A Chain A, Wdr5 In Complex With An Rbbp5 Peptide Recruited To Novel
Site
pdb|2XL2|B Chain B, Wdr5 In Complex With An Rbbp5 Peptide Recruited To Novel
Site
pdb|2XL3|A Chain A, Wdr5 In Complex With An Rbbp5 Peptide And Histone H3
Peptide
pdb|2XL3|B Chain B, Wdr5 In Complex With An Rbbp5 Peptide And Histone H3
Peptide
Length = 334
Score = 32.3 bits (72), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 136 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 195
Query: 96 YDW 98
W
Sbjct: 196 RIW 198
>pdb|2GNQ|A Chain A, Structure Of Wdr5
Length = 336
Score = 32.3 bits (72), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 138 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 197
Query: 96 YDW 98
W
Sbjct: 198 RIW 200
>pdb|3N0E|A Chain A, Crystal Structure Of Wdr5 Mutant (W330y)
Length = 315
Score = 32.3 bits (72), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 117 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 176
Query: 96 YDW 98
W
Sbjct: 177 RIW 179
>pdb|2H9L|A Chain A, Wdr5delta23
pdb|2H9P|A Chain A, Wdr5 In Complex With Trimethylated H3k4 Peptide
Length = 329
Score = 32.0 bits (71), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 131 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 190
Query: 96 YDW 98
W
Sbjct: 191 RIW 193
>pdb|4A7J|A Chain A, Symmetric Dimethylation Of H3 Arginine 2 Is A Novel
Histone Mark That Supports Euchromatin Maintenance
Length = 318
Score = 32.0 bits (71), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 120 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 179
Query: 96 YDW 98
W
Sbjct: 180 RIW 182
>pdb|3N0D|A Chain A, Crystal Structure Of Wdr5 Mutant (W330f)
Length = 315
Score = 32.0 bits (71), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 117 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 176
Query: 96 YDW 98
W
Sbjct: 177 RIW 179
>pdb|3PSL|A Chain A, Fine-Tuning The Stimulation Of Mll1 Methyltransferase
Activity By A Histone H3 Based Peptide Mimetic
pdb|3PSL|B Chain B, Fine-Tuning The Stimulation Of Mll1 Methyltransferase
Activity By A Histone H3 Based Peptide Mimetic
pdb|3UVK|A Chain A, Crystal Structure Of Wdr5 In Complex With The
Wdr5-Interacting Motif Of Mll2
pdb|3UVL|A Chain A, Crystal Structure Of Wdr5 In Complex With The
Wdr5-Interacting Motif Of Mll3
pdb|3UVM|A Chain A, Crystal Structure Of Wdr5 In Complex With The
Wdr5-Interacting Motif Of Mll4
pdb|3UVN|A Chain A, Crystal Structure Of Wdr5 In Complex With The
Wdr5-Interacting Motif Of Set1a
pdb|3UVN|C Chain C, Crystal Structure Of Wdr5 In Complex With The
Wdr5-Interacting Motif Of Set1a
pdb|3UVO|A Chain A, Crystal Structure Of Wdr5 In Complex With The
Wdr5-Interacting Motif Of Set1b
Length = 318
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 120 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 179
Query: 96 YDW 98
W
Sbjct: 180 RIW 182
>pdb|2H13|A Chain A, Crystal Structure Of Wdr5HISTONE H3 COMPLEX
pdb|2H14|A Chain A, Crystal Of Wdr5 (Apo-Form)
pdb|3P4F|A Chain A, Structural And Biochemical Insights Into Mll1 Core Complex
Assembly And Regulation
Length = 317
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 119 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 178
Query: 96 YDW 98
W
Sbjct: 179 RIW 181
>pdb|3MXX|A Chain A, Crystal Structure Of Wdr5 Mutant (S62a)
Length = 315
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 117 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 176
Query: 96 YDW 98
W
Sbjct: 177 RIW 179
>pdb|3EMH|A Chain A, Structural Basis Of Wdr5-Mll Interaction
Length = 318
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 120 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 179
Query: 96 YDW 98
W
Sbjct: 180 RIW 182
>pdb|2G9A|A Chain A, Structural Basis For The Specific Recognition Of
Methylated Histone H3 Lysine 4 By The Wd-40 Protein Wdr5
Length = 311
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 113 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 172
Query: 96 YDW 98
W
Sbjct: 173 RIW 175
>pdb|3SMR|A Chain A, Crystal Structure Of Human Wd Repeat Domain 5 With
Compound
pdb|3SMR|B Chain B, Crystal Structure Of Human Wd Repeat Domain 5 With
Compound
pdb|3SMR|C Chain C, Crystal Structure Of Human Wd Repeat Domain 5 With
Compound
pdb|3SMR|D Chain D, Crystal Structure Of Human Wd Repeat Domain 5 With
Compound
pdb|3UR4|A Chain A, Crystal Structure Of Human Wd Repeat Domain 5 With
Compound
pdb|3UR4|B Chain B, Crystal Structure Of Human Wd Repeat Domain 5 With
Compound
pdb|4IA9|A Chain A, Crystal Structure Of Human Wd Repeat Domain 5 In Complex
With 2-
Chloro-4-Fluoro-3-Methyl-N-[2-(4-Methylpiperazin-1-Yl)-
5- Nitrophenyl]benzamide
Length = 312
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 114 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 173
Query: 96 YDW 98
W
Sbjct: 174 RIW 176
>pdb|2H9M|A Chain A, Wdr5 In Complex With Unmodified H3k4 Peptide
pdb|2H9M|C Chain C, Wdr5 In Complex With Unmodified H3k4 Peptide
pdb|2H9N|A Chain A, Wdr5 In Complex With Monomethylated H3k4 Peptide
pdb|2H9N|C Chain C, Wdr5 In Complex With Monomethylated H3k4 Peptide
pdb|2O9K|A Chain A, Wdr5 In Complex With Dimethylated H3k4 Peptide
pdb|2O9K|C Chain C, Wdr5 In Complex With Dimethylated H3k4 Peptide
Length = 313
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 115 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 174
Query: 96 YDW 98
W
Sbjct: 175 RIW 177
>pdb|2H68|A Chain A, Histone H3 Recognition And Presentation By The Wdr5 Module
Of The Mll1 Complex
pdb|2H68|B Chain B, Histone H3 Recognition And Presentation By The Wdr5 Module
Of The Mll1 Complex
pdb|2H6K|A Chain A, Histone H3 Recognition And Presentation By The Wdr5 Module
Of The Mll1 Complex
pdb|2H6K|B Chain B, Histone H3 Recognition And Presentation By The Wdr5 Module
Of The Mll1 Complex
pdb|2H6N|A Chain A, Histone H3 Recognition And Presentation By The Wdr5 Module
Of The Mll1 Complex
pdb|2H6N|B Chain B, Histone H3 Recognition And Presentation By The Wdr5 Module
Of The Mll1 Complex
pdb|2H6Q|A Chain A, Histone H3 Recognition And Presentation By The Wdr5 Module
Of The Mll1 Complex
pdb|2H6Q|B Chain B, Histone H3 Recognition And Presentation By The Wdr5 Module
Of The Mll1 Complex
pdb|3EG6|A Chain A, Structure Of Wdr5 Bound To Mll1 Peptide
pdb|4ERQ|A Chain A, X-Ray Structure Of Wdr5-Mll2 Win Motif Peptide Binary
Complex
pdb|4ERQ|B Chain B, X-Ray Structure Of Wdr5-Mll2 Win Motif Peptide Binary
Complex
pdb|4ERQ|C Chain C, X-Ray Structure Of Wdr5-Mll2 Win Motif Peptide Binary
Complex
pdb|4ERY|A Chain A, X-Ray Structure Of Wdr5-Mll3 Win Motif Peptide Binary
Complex
pdb|4ERZ|A Chain A, X-Ray Structure Of Wdr5-Mll4 Win Motif Peptide Binary
Complex
pdb|4ERZ|B Chain B, X-Ray Structure Of Wdr5-Mll4 Win Motif Peptide Binary
Complex
pdb|4ERZ|C Chain C, X-Ray Structure Of Wdr5-Mll4 Win Motif Peptide Binary
Complex
pdb|4ES0|A Chain A, X-Ray Structure Of Wdr5-Setd1b Win Motif Peptide Binary
Complex
pdb|4ESG|A Chain A, X-Ray Structure Of Wdr5-Mll1 Win Motif Peptide Binary
Complex
pdb|4ESG|B Chain B, X-Ray Structure Of Wdr5-Mll1 Win Motif Peptide Binary
Complex
pdb|4EWR|A Chain A, X-Ray Structure Of Wdr5-Setd1a Win Motif Peptide Binary
Complex
Length = 312
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 114 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 173
Query: 96 YDW 98
W
Sbjct: 174 RIW 176
>pdb|2G99|A Chain A, Structural Basis For The Specific Recognition Of
Methylated Histone H3 Lysine 4 By The Wd-40 Protein Wdr5
pdb|2G99|B Chain B, Structural Basis For The Specific Recognition Of
Methylated Histone H3 Lysine 4 By The Wd-40 Protein Wdr5
Length = 308
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + + LK + P+ FN DGS+ S +C
Sbjct: 110 NFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 169
Query: 96 YDW 98
W
Sbjct: 170 RIW 172
>pdb|2CNX|A Chain A, Wdr5 And Histone H3 Lysine 4 Dimethyl Complex At 2.1
Angstrom
pdb|2CO0|C Chain C, Wdr5 And Unmodified Histone H3 Complex At 2.25 Angstrom
Length = 315
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + LK + P+ FN DGS+ S +C
Sbjct: 117 NFNPQSNLIVSGSFDESVRIWDVKTGMCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 176
Query: 96 YDW 98
W
Sbjct: 177 RIW 179
>pdb|2CO0|A Chain A, Wdr5 And Unmodified Histone H3 Complex At 2.25 Angstrom
Length = 315
Score = 31.6 bits (70), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 4/63 (6%)
Query: 40 NFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFAYS----VC 95
NF+P + + D + WD + LK + P+ FN DGS+ S +C
Sbjct: 117 NFNPQSNLIVSGSFDESVRIWDVKTGMCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLC 176
Query: 96 YDW 98
W
Sbjct: 177 RIW 179
>pdb|4A08|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Duplex (
Purine At D-1 Position) At 3.0 A Resolution (Cpd 1)
pdb|4A09|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 15 Bp Cpd-Duplex
(Purine At D-1 Position) At 3.1 A Resolution (Cpd 2)
pdb|4A0A|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.6 A Resolution (Cpd 3)
pdb|4A0B|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
pdb|4A0B|D Chain D, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
pdb|4A0K|D Chain D, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|B Chain B, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|D Chain D, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 382
Score = 30.4 bits (67), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 23 TFKCHRDGSEI-YSVNSLNFHPIHHTFATAGSDGA-FNFWDKDSKQRLKAMSRCG 75
++K HR S V SL +HP H T GS G WD D + + + G
Sbjct: 61 SYKLHRTASPFDRRVTSLEWHPTHPTTVAVGSKGGDIILWDYDVQNKTSFIQGMG 115
>pdb|3EI1|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4
Photoproduct Containing Dna-Duplex
pdb|3EI2|B Chain B, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Abasic Site
Containing Dna-Duplex
pdb|3EI3|B Chain B, Structure Of The Hsddb1-Drddb2 Complex
Length = 383
Score = 30.4 bits (67), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 23 TFKCHRDGSEI-YSVNSLNFHPIHHTFATAGSDGA-FNFWDKDSKQRLKAMSRCG 75
++K HR S V SL +HP H T GS G WD D + + + G
Sbjct: 62 SYKLHRTASPFDRRVTSLEWHPTHPTTVAVGSKGGDIILWDYDVQNKTSFIQGMG 116
>pdb|2YMU|A Chain A, Structure Of A Highly Repetitive Propeller Structure
pdb|2YMU|B Chain B, Structure Of A Highly Repetitive Propeller Structure
Length = 577
Score = 29.3 bits (64), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 35 SVNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFA 91
SVN + F P T A+A D W+++ Q L+ ++ + F+ DG A
Sbjct: 264 SVNGVAFRPDGQTIASASDDKTVKLWNRNG-QLLQTLTGHSSSVWGVAFSPDGQTIA 319
Score = 26.6 bits (57), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 35 SVNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFA 91
SV + F P T A+A D W+++ Q L+ ++ + F+ DG A
Sbjct: 469 SVRGVAFSPDGQTIASASDDKTVKLWNRNG-QLLQTLTGHSSSVRGVAFSPDGQTIA 524
Score = 26.2 bits (56), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 1/57 (1%)
Query: 35 SVNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTDGSIFA 91
SV + F P T A+A D W+++ Q L+ ++ + F DG A
Sbjct: 223 SVRGVAFSPDGQTIASASDDKTVKLWNRNG-QLLQTLTGHSSSVNGVAFRPDGQTIA 278
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 17/38 (44%)
Query: 35 SVNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMS 72
SVN F P A+ +DG WD S K+++
Sbjct: 751 SVNHCRFSPDDKLLASCSADGTLKLWDATSANERKSIN 788
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 17/38 (44%)
Query: 35 SVNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMS 72
SVN F P A+ +DG WD S K+++
Sbjct: 752 SVNHCRFSPDDELLASCSADGTLRLWDVRSANERKSIN 789
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 17/38 (44%)
Query: 35 SVNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMS 72
SVN F P A+ +DG WD S K+++
Sbjct: 745 SVNHCRFSPDDELLASCSADGTLRLWDVRSANERKSIN 782
>pdb|4HTR|A Chain A, N149w Variant Of Sirhp Bound To Sulfite
Length = 507
Score = 27.3 bits (59), Expect = 2.6, Method: Composition-based stats.
Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 14/95 (14%)
Query: 27 HRDGSEIYSVNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTD 86
+R + + + N P+H + G D WD M+R + C++ +
Sbjct: 53 NRQTFQFHGILKKNVKPVHQMLHSVGLDALATAWD---------MNR---NVLCTSNPYE 100
Query: 87 GSIFAYSVCYDWSKGAENHNPATAKTYIYLHLPQE 121
+ A + Y+W+K H + Y + L QE
Sbjct: 101 SQLHAEA--YEWAKKISEHLLPRTRAYAEIWLDQE 133
>pdb|4G38|A Chain A, Mutational Analysis Of Sulfite Reductase Hemoprotein
Reveals The Mechanism For Coordinated Electron And
Proton Transfer
Length = 570
Score = 27.3 bits (59), Expect = 2.9, Method: Composition-based stats.
Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 14/95 (14%)
Query: 27 HRDGSEIYSVNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSRCGQPIPCSTFNTD 86
+R + + + N P+H + G D WD M+R + C++ +
Sbjct: 116 NRQTFQFHGILKKNVKPVHQMLHSVGLDALATAWD---------MNR---NVLCTSNPYE 163
Query: 87 GSIFAYSVCYDWSKGAENHNPATAKTYIYLHLPQE 121
+ A + Y+W+K H + Y + L QE
Sbjct: 164 SQLHAEA--YEWAKKISEHLLPRTRAYAEIWLDQE 196
>pdb|1TRJ|A Chain A, Homology Model Of Yeast Rack1 Protein Fitted Into 11.7a
Cryo-em Map Of Yeast 80s Ribosome
Length = 314
Score = 26.6 bits (57), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 36 VNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMS 72
+N+L P A+AG DG W+ +K+ + +S
Sbjct: 199 INTLTASPDGTLIASAGKDGEIMLWNLAAKKAMYTLS 235
>pdb|3RFH|A Chain A, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|B Chain B, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|C Chain C, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|D Chain D, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
Length = 319
Score = 26.6 bits (57), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 36 VNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMS 72
+N+L P A+AG DG W+ +K+ + +S
Sbjct: 199 INTLTASPDGTLIASAGKDGEIMLWNLAAKKAMYTLS 235
>pdb|3RFG|A Chain A, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P63
pdb|3RFG|B Chain B, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P63
Length = 319
Score = 26.6 bits (57), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 36 VNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMS 72
+N+L P A+AG DG W+ +K+ + +S
Sbjct: 199 INTLTASPDGTLIASAGKDGEIMLWNLAAKKAMYTLS 235
>pdb|3JYV|R Chain R, Structure Of The 40s Rrna And Proteins And PE TRNA FOR
EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces
Lanuginosus Ribosome At 8.9a Resolution
Length = 313
Score = 26.6 bits (57), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 36 VNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMS 72
+N+L P A+AG DG W+ +K+ + +S
Sbjct: 193 INTLTASPDGTLIASAGKDGEIMLWNLAAKKAMYTLS 229
>pdb|3IZB|AA Chain a, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|T Chain T, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|T Chain T, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 319
Score = 26.6 bits (57), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 36 VNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMS 72
+N+L P A+AG DG W+ +K+ + +S
Sbjct: 199 INTLTASPDGTLIASAGKDGEIMLWNLAAKKAMYTLS 235
>pdb|2Y7C|B Chain B, Atomic Model Of The Ocr-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534.
pdb|2Y7C|C Chain C, Atomic Model Of The Ocr-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534.
pdb|2Y7H|B Chain B, Atomic Model Of The Dna-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534.
pdb|2Y7H|C Chain C, Atomic Model Of The Dna-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534
Length = 529
Score = 26.6 bits (57), Expect = 5.1, Method: Composition-based stats.
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 111 KTYIYLHLPQETEVKGKPRAGTSG 134
KT I+L PQ EV P AGT+G
Sbjct: 157 KTIIHLLKPQPREVVQDPAAGTAG 180
>pdb|3FRK|A Chain A, X-Ray Structure Of Qdtb From T. Thermosaccharolyticum In
Complex With A Plp:tdp-3-Aminoquinovose Aldimine
pdb|3FRK|B Chain B, X-Ray Structure Of Qdtb From T. Thermosaccharolyticum In
Complex With A Plp:tdp-3-Aminoquinovose Aldimine
Length = 373
Score = 26.6 bits (57), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 36/75 (48%), Gaps = 2/75 (2%)
Query: 1 VGSIEGRVGVHHLDDSQQSKNFTFKCHRDGSEIYSVNSLNFHPIHHTFATAGSDGAFNFW 60
+ I + + ++D+ Q+ +K + GS + +F+P + + G GA
Sbjct: 143 IKRIAKKYNLKLIEDAAQAHGSLYKGMKVGS-LGDAAGFSFYPAKN-LGSLGDGGAVVTN 200
Query: 61 DKDSKQRLKAMSRCG 75
DKD +++KA+S G
Sbjct: 201 DKDLAEKIKALSNYG 215
>pdb|2YFR|A Chain A, Crystal Structure Of Inulosucrase From Lactobacillus
Johnsonii Ncc533
pdb|2YFT|A Chain A, Crystal Structure Of Inulosucrase From Lactobacillus
Johnsonii Ncc533 In Complex With 1-Kestose
Length = 571
Score = 26.2 bits (56), Expect = 5.4, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 81 STFNTDGSIFAYSVCYDWSKGAENHNPATAKTYIYLHLPQETE 123
+T N DGSI Y D S NH + T +YL+L ++ +
Sbjct: 200 ATLNKDGSIQLYYTKVDTSDNNTNHQKLASAT-VYLNLEKDQD 241
>pdb|2YFS|A Chain A, Crystal Structure Of Inulosucrase From Lactobacillus
Johnsonii Ncc533 In Complex With Sucrose
Length = 571
Score = 26.2 bits (56), Expect = 5.5, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 81 STFNTDGSIFAYSVCYDWSKGAENHNPATAKTYIYLHLPQETE 123
+T N DGSI Y D S NH + T +YL+L ++ +
Sbjct: 200 ATLNKDGSIQLYYTKVDTSDNNTNHQKLASAT-VYLNLEKDQD 241
>pdb|2AR0|A Chain A, Crystal Structure Of Type I Restriction Enzyme Ecoki M
Protein (Ec 2.1.1.72) (M.Ecoki)
pdb|2AR0|B Chain B, Crystal Structure Of Type I Restriction Enzyme Ecoki M
Protein (Ec 2.1.1.72) (M.Ecoki)
Length = 541
Score = 26.2 bits (56), Expect = 6.2, Method: Composition-based stats.
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 111 KTYIYLHLPQETEVKGKPRAGTSG 134
KT I+L PQ EV P AGT+G
Sbjct: 159 KTIIHLLKPQPREVVQDPAAGTAG 182
>pdb|3IZ6|AA Chain a, Localization Of The Small Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 380
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 18/38 (47%)
Query: 36 VNSLNFHPIHHTFATAGSDGAFNFWDKDSKQRLKAMSR 73
+NS+ F P F T DG +D + +L+ +R
Sbjct: 252 INSVKFFPDGQRFGTGSDDGTCRLFDMRTGHQLQVYNR 289
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
0.317 0.132 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,778,384
Number of Sequences: 62578
Number of extensions: 190160
Number of successful extensions: 480
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 36
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 379
Number of HSP's gapped (non-prelim): 100
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
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: 46 (22.3 bits)