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= psy838
(152 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZKR|ZZ Chain z, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 92
Score = 87.4 bits (215), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 43/53 (81%), Positives = 46/53 (86%)
Query: 1 MAKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKEYKKSTDLG 53
MAKRTKKVGI GKYGTRYGASLRKMVKK+EI+QHAKYTCSFCGK K +G
Sbjct: 1 MAKRTKKVGIVGKYGTRYGASLRKMVKKIEISQHAKYTCSFCGKTKMKRRAVG 53
>pdb|4A17|Y Chain Y, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 2.
pdb|4A1A|Y Chain Y, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 3.
pdb|4A1C|Y Chain Y, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 4.
pdb|4A1E|Y Chain Y, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 1
Length = 103
Score = 79.7 bits (195), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 40/53 (75%), Positives = 43/53 (81%)
Query: 1 MAKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKEYKKSTDLG 53
MAKRT+KVGIT KYGTRYGASLRK+VKK EITQHAKY C FCGK K +G
Sbjct: 1 MAKRTQKVGITRKYGTRYGASLRKVVKKFEITQHAKYGCPFCGKVAVKRAAVG 53
>pdb|3IZS|MM Chain m, Localization Of The Large Subunit Ribosomal Proteins
Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|GG Chain g, Yeast 80s Ribosome. This Entry Consists Of The 60s
Subunit Of The First 80s In The Asymmetric Unit.
pdb|3O5H|GG Chain g, Yeast 80s Ribosome. This Entry Consists Of The 60s
Subunit Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|PP Chain p, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|PP Chain p, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|PP Chain p, Cryo-Em Structure Of The 60s Ribosomal Subunit In
Complex With Arx1 And Rei1
Length = 92
Score = 79.0 bits (193), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 38/53 (71%), Positives = 43/53 (81%)
Query: 1 MAKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKEYKKSTDLG 53
MAKRTKKVGITGKYG RYG+SLR+ VKK+EI QHA+Y CSFCGK+ K G
Sbjct: 1 MAKRTKKVGITGKYGVRYGSSLRRQVKKLEIQQHARYDCSFCGKKTVKRGAAG 53
>pdb|1S1I|9 Chain 9, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex
From Yeast Obtained By Docking Atomic Models For Rna
And Protein Components Into A 11.7 A Cryo-Em Map. This
File, 1s1i, Contains 60s Subunit. The 40s Ribosomal
Subunit Is In File 1s1h
Length = 91
Score = 76.6 bits (187), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 37/52 (71%), Positives = 42/52 (80%)
Query: 2 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKEYKKSTDLG 53
AKRTKKVGITGKYG RYG+SLR+ VKK+EI QHA+Y CSFCGK+ K G
Sbjct: 1 AKRTKKVGITGKYGVRYGSSLRRQVKKLEIQQHARYDCSFCGKKTVKRGAAG 52
>pdb|3IZR|MM Chain m, Localization Of The Large Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
Length = 92
Score = 75.1 bits (183), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 36/53 (67%), Positives = 41/53 (77%)
Query: 1 MAKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKEYKKSTDLG 53
M KRTKK GI GKYGTRYGASLRK +KKME++QH+KY C FCGK K +G
Sbjct: 1 MTKRTKKAGIVGKYGTRYGASLRKQIKKMEVSQHSKYFCEFCGKFAVKRKAVG 53
>pdb|3ZF7|OO Chain o, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 93
Score = 64.7 bits (156), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/44 (63%), Positives = 37/44 (84%)
Query: 1 MAKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGK 44
MAKRT K+G+ G+YG RYG++ RK KK+E++QHAK+ CSFCGK
Sbjct: 1 MAKRTVKMGVMGRYGARYGSNPRKRAKKLEVSQHAKHFCSFCGK 44
>pdb|1YSH|D Chain D, Localization And Dynamic Behavior Of Ribosomal Protein
L30e
Length = 73
Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 29/44 (65%), Positives = 34/44 (77%)
Query: 10 ITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKEYKKSTDLG 53
I GKYGTRYGASLRK +KKME++QH+KY C FCGK K +G
Sbjct: 1 IVGKYGTRYGASLRKQIKKMEVSQHSKYFCEFCGKFAVKRKAVG 44
>pdb|3JYW|9 Chain 9, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus
Ribosome At 8.9a Resolution
Length = 72
Score = 60.8 bits (146), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/43 (65%), Positives = 33/43 (76%)
Query: 11 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKEYKKSTDLG 53
TGKYG RYG+SLR+ VKK+EI QHA+Y CSFCGK+ K G
Sbjct: 1 TGKYGVRYGSSLRRQVKKLEIQQHARYDCSFCGKKTVKRGAAG 43
>pdb|3J21|II Chain i, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 83
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 6/61 (9%)
Query: 5 TKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKEYKKSTDLGAETKKWVWELE 64
TKKVG G++G RYG +R+ V +E K+TC CG++ K G +W+ +
Sbjct: 4 TKKVGSAGRFGARYGLKIRRRVAAVEAKMRQKHTCPVCGRKAVKRISTG------IWQCQ 57
Query: 65 E 65
+
Sbjct: 58 K 58
>pdb|3CC2|Z Chain Z, The Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution With Rrna Sequence For The 23s Rrna And
Genome-Derived Sequences For R-Proteins
pdb|3CC4|Z Chain Z, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|Z Chain Z, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CMA|Z Chain Z, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|Z Chain Z, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3I55|Z Chain Z, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|Z Chain Z, Co-Crystal Structure Of Triacetyloleandomcyin Bound To
The Large Ribosomal Subunit
Length = 116
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 27/45 (60%)
Query: 1 MAKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKE 45
MA ++ K G +G++G RYG R+ V ++E + + C CG++
Sbjct: 25 MASKSGKTGSSGRFGARYGRVSRRRVAEIESEMNEDHACPNCGED 69
>pdb|3CPW|Y Chain Y, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|4ADX|Z Chain Z, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 92
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 27/45 (60%)
Query: 1 MAKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKE 45
MA ++ K G +G++G RYG R+ V ++E + + C CG++
Sbjct: 1 MASKSGKTGSSGRFGARYGRVSRRRVAEIESEMNEDHACPNCGED 45
>pdb|2QA4|Z Chain Z, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
Length = 92
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 27/45 (60%)
Query: 1 MAKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKE 45
MA ++ K G +G++G RYG R+ V ++E + + C CG++
Sbjct: 1 MASKSGKTGRSGRFGARYGRVSRRRVAEIESEMNEDHACPNCGED 45
>pdb|1FFK|W Chain W, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 73
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 20/33 (60%)
Query: 11 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCG 43
TG++G RYG +R V+ +EI KY C CG
Sbjct: 2 TGRFGPRYGLKIRVRVRDVEIKHKKKYKCPVCG 34
>pdb|1JJ2|Y Chain Y, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|Y Chain Y, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|1 Chain 1, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|1 Chain 1, Co-Crystal Structure Of Tylosin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1KD1|1 Chain 1, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|1 Chain 1, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|1 Chain 1, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|1 Chain 1, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|1 Chain 1, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|1 Chain 1, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|1 Chain 1, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|1 Chain 1, Crystal Structure Of Ccdap-puromycin Bound At The
Peptidyl Transferase Center Of The 50s Ribosomal
Subunit
pdb|1Q81|1 Chain 1, Crystal Structure Of Minihelix With 3' Puromycin Bound
To A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|1 Chain 1, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|1 Chain 1, Crystal Structure Of Cca-Phe-Cap-Biotin Bound
Simultaneously At Half Occupancy To Both The A-Site And
P- Site Of The The 50s Ribosomal Subunit.
pdb|1QVF|Y Chain Y, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|Y Chain Y, Structure Of Cca Oligonucleotide Bound To The Trna
Binding Sites Of The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1W2B|Y Chain Y, Trigger Factor Ribosome Binding Domain In Complex With
50s
pdb|3CXC|Y Chain Y, The Structure Of An Enhanced Oxazolidinone Inhibitor
Bound To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3OW2|Y Chain Y, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 73
Score = 33.1 bits (74), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 11 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCG 43
TG++G RYG +R V +EI K+ C CG
Sbjct: 2 TGRFGPRYGLKIRVRVADVEIKHKKKHKCPVCG 34
>pdb|1YHQ|Z Chain Z, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|Z Chain Z, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|Z Chain Z, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|Z Chain Z, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|Z Chain Z, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|Z Chain Z, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|Z Chain Z, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|Z Chain Z, The Structure Of The Transition State Analogue "daa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ5|Z Chain Z, The Structure Of The Transition State Analogue "raa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ6|Z Chain Z, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|Z Chain Z, The Structure Of The Transition State Analogue "dca"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ8|Z Chain Z, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|Z Chain Z, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|Z Chain Z, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|Z Chain Z, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|Z Chain Z, The Structure Of The Transition State Analogue "dan"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQN|Z Chain Z, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To
The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|Z Chain Z, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|Z Chain Z, The Structure Of The Transition State Analogue "rap"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
Length = 83
Score = 30.4 bits (67), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 11 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKE 45
+G++G RYG R+ V ++E + + C CG++
Sbjct: 2 SGRFGARYGRVSRRRVAEIESEMNEDHACPNCGED 36
>pdb|3G4S|Z Chain Z, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|Z Chain Z, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|Z Chain Z, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
Length = 73
Score = 30.0 bits (66), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 11 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKE 45
+G++G RYG R+ V ++E + + C CG++
Sbjct: 2 SGRFGARYGRVSRRRVAEIESEMNEDHACPNCGED 36
>pdb|1S72|Z Chain Z, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|2OTJ|Z Chain Z, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|Z Chain Z, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QEX|Z Chain Z, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
Length = 73
Score = 30.0 bits (66), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 11 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKE 45
+G++G RYG R+ V ++E + + C CG++
Sbjct: 2 SGRFGARYGRVSRRRVAEIESEMNEDHACPNCGED 36
>pdb|4GGA|A Chain A, Structural Analysis Of Human Cdc20 Supports Multi-Site
Degron Recognition By ApcC
Length = 420
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 70 HSYEVCDIGWDPQGKH 85
HS EVC + W P G+H
Sbjct: 229 HSQEVCGLRWAPDGRH 244
>pdb|4GGD|A Chain A, Structural Analysis Of Human Cdc20 Supports Multisite
Degron Recognition By ApcC.
pdb|4GGD|B Chain B, Structural Analysis Of Human Cdc20 Supports Multisite
Degron Recognition By ApcC
Length = 431
Score = 26.9 bits (58), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 70 HSYEVCDIGWDPQGKH 85
HS EVC + W P G+H
Sbjct: 240 HSQEVCGLRWAPDGRH 255
>pdb|2L1O|A Chain A, Zinc To Cadmium Replacement In The A. Thaliana Superman
Cys2his2 Zinc Finger Induces Structural Rearrangements
Of Typical Dna Base Determinant Positions
pdb|1NJQ|A Chain A, Nmr Structure Of The Single Qalggh Zinc Finger Domain
From Arabidopsis Thaliana Superman Protein
Length = 39
Score = 26.9 bits (58), Expect = 4.4, Method: Composition-based stats.
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 37 YTCSFCGKEYKKSTDLGA 54
YTCSFC +E++ + LG
Sbjct: 7 YTCSFCKREFRSAQALGG 24
>pdb|2V6E|A Chain A, Protelomerase Telk Complexed With Substrate Dna
pdb|2V6E|B Chain B, Protelomerase Telk Complexed With Substrate Dna
Length = 558
Score = 26.9 bits (58), Expect = 5.1, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 5 TKKVGITGKYGTRYGASLRKMVKKM---EITQHAKYTCSFCGKEYKKSTDLGAETK 57
T + G+ S R+M++ M E + KYT +F G+ K+S D G K
Sbjct: 276 TTRRGMAPLAFALAALSGRRMIEIMLQGEFSVAGKYTVTFLGQAKKRSEDKGISRK 331
>pdb|4GGC|A Chain A, Structural Analysis Of Human Cdc20 Supports Multi-Site
Degron Recognition By ApcC
Length = 318
Score = 26.6 bits (57), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 70 HSYEVCDIGWDPQGKH 85
HS EVC + W P G+H
Sbjct: 149 HSQEVCGLRWAPDGRH 164
>pdb|4AQ5|E Chain E, Gating Movement In Acetylcholine Receptor Analysed By
Time- Resolved Electron Cryo-Microscopy (Closed Class)
pdb|4AQ9|E Chain E, Gating Movement In Acetylcholine Receptor Analysed By
Time-Resolved Electron Cryo-Microscopy (Open Class)
Length = 488
Score = 26.6 bits (57), Expect = 6.7, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 39 CSFCGKEYKKSTDLGAETKKWV 60
C+F K K+ D G+E + WV
Sbjct: 419 CNFIAKSTKEQNDSGSENENWV 440
>pdb|2BG9|E Chain E, Refined Structure Of The Nicotinic Acetylcholine Receptor
At 4a Resolution
Length = 370
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 39 CSFCGKEYKKSTDLGAETKKWV 60
C+F K K+ D G+E + WV
Sbjct: 313 CNFIAKSTKEQNDSGSENENWV 334
>pdb|1OED|E Chain E, Structure Of Acetylcholine Receptor Pore From Electron
Images
Length = 260
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 39 CSFCGKEYKKSTDLGAETKKWVW 61
C+F K K+ D G+E + WV
Sbjct: 202 CNFIAKSTKEQNDSGSENENWVL 224
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
0.320 0.134 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,712,317
Number of Sequences: 62578
Number of extensions: 189689
Number of successful extensions: 487
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 458
Number of HSP's gapped (non-prelim): 30
length of query: 152
length of database: 14,973,337
effective HSP length: 90
effective length of query: 62
effective length of database: 9,341,317
effective search space: 579161654
effective search space used: 579161654
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)