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= psy836
(122 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 = 127 bits (318), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 68/115 (59%), Positives = 77/115 (66%), Gaps = 25/115 (21%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
AKRTKKVGI GKYGTRYGASLRKMVKK+EI+QHAKYTCSFCGK MKR VGI
Sbjct: 2 AKRTKKVGIVGKYGTRYGASLRKMVKKIEISQHAKYTCSFCGKTKMKRRAVGI------- 54
Query: 67 RIVAGGAWDSMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
W C C + VAGGAW YNTT+A +V+SAIRRL+E+ +
Sbjct: 55 ------------------WHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKELKD 91
>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 = 113 bits (282), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 53/69 (76%), Positives = 61/69 (88%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
AKRT+KVGIT KYGTRYGASLRK+VKK EITQHAKY C FCGK ++KR+ VGIW CK CK
Sbjct: 2 AKRTQKVGITRKYGTRYGASLRKVVKKFEITQHAKYGCPFCGKVAVKRAAVGIWKCKPCK 61
Query: 67 RIVAGGAWD 75
+I+AGGAW+
Sbjct: 62 KIIAGGAWE 70
>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 = 111 bits (278), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 61/115 (53%), Positives = 73/115 (63%), Gaps = 25/115 (21%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
AKRTKKVGITGKYG RYG+SLR+ VKK+EI QHA+Y CSFCGK ++KR GIW+C CK
Sbjct: 2 AKRTKKVGITGKYGVRYGSSLRRQVKKLEIQQHARYDCSFCGKKTVKRGAAGIWTCSCCK 61
Query: 67 RIVAGGAWDSMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
+ VAGGA+ +T AA +VRS IRRLRE+ E
Sbjct: 62 -------------------------KTVAGGAYTVSTAAAATVRSTIRRLREMVE 91
>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 = 111 bits (278), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 61/115 (53%), Positives = 73/115 (63%), Gaps = 25/115 (21%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
AKRTKKVGITGKYG RYG+SLR+ VKK+EI QHA+Y CSFCGK ++KR GIW+C CK
Sbjct: 1 AKRTKKVGITGKYGVRYGSSLRRQVKKLEIQQHARYDCSFCGKKTVKRGAAGIWTCSCCK 60
Query: 67 RIVAGGAWDSMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
+ VAGGA+ +T AA +VRS IRRLRE+ E
Sbjct: 61 -------------------------KTVAGGAYTVSTAAAATVRSTIRRLREMVE 90
>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 = 111 bits (277), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 59/114 (51%), Positives = 70/114 (61%), Gaps = 25/114 (21%)
Query: 8 KRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKR 67
KRTKK GI GKYGTRYGASLRK +KKME++QH+KY C FCGK ++KR VGIW CK C
Sbjct: 3 KRTKKAGIVGKYGTRYGASLRKQIKKMEVSQHSKYFCEFCGKFAVKRKAVGIWGCKDC-- 60
Query: 68 IVAGGAWDSMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
++ AGGA+ NT +A +VRS IRRLRE E
Sbjct: 61 -----------------------GKVKAGGAYTMNTASAVTVRSTIRRLREQTE 91
>pdb|3ZF7|OO Chain o, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 93
Score = 94.4 bits (233), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 49/115 (42%), Positives = 67/115 (58%), Gaps = 25/115 (21%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
AKRT K+G+ G+YG RYG++ RK KK+E++QHAK+ CSFCGK + +R VGIW C C
Sbjct: 2 AKRTVKMGVMGRYGARYGSNPRKRAKKLEVSQHAKHFCSFCGKFAFRRKAVGIWRCDGC- 60
Query: 67 RIVAGGAWDSMKRSCVGIWSCKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
+ VAGGA+ +T T+VRS +RRLRE+ +
Sbjct: 61 ------------------------SKTVAGGAYTLSTPNNTTVRSTVRRLRELKQ 91
>pdb|1YSH|D Chain D, Localization And Dynamic Behavior Of Ribosomal Protein
L30e
Length = 73
Score = 90.9 bits (224), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 43/72 (59%), Positives = 53/72 (73%)
Query: 15 ITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAW 74
I GKYGTRYGASLRK +KKME++QH+KY C FCGK ++KR VGIW CK C ++ AGGA+
Sbjct: 1 IVGKYGTRYGASLRKQIKKMEVSQHSKYFCEFCGKFAVKRKAVGIWGCKDCGKVKAGGAY 60
Query: 75 DSMKRSCVGIWS 86
S V + S
Sbjct: 61 TMNTASAVTVRS 72
>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 = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 39/59 (66%), Positives = 48/59 (81%)
Query: 16 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAW 74
TGKYG RYG+SLR+ VKK+EI QHA+Y CSFCGK ++KR GIW+C CK+ VAGGA+
Sbjct: 1 TGKYGVRYGSSLRRQVKKLEIQQHARYDCSFCGKKTVKRGAAGIWTCSCCKKTVAGGAY 59
>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 = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 29/65 (44%), Positives = 41/65 (63%)
Query: 10 TKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIV 69
TKKVG G++G RYG +R+ V +E K+TC CG+ ++KR GIW C++C
Sbjct: 4 TKKVGSAGRFGARYGLKIRRRVAAVEAKMRQKHTCPVCGRKAVKRISTGIWQCQKCGATF 63
Query: 70 AGGAW 74
AGGA+
Sbjct: 64 AGGAY 68
>pdb|1FFK|W Chain W, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 73
Score = 56.2 bits (134), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 34/61 (55%)
Query: 16 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAWD 75
TG++G RYG +R V+ +EI KY C CG +KR+ IW C C +AGGA+
Sbjct: 2 TGRFGPRYGLKIRVRVRDVEIKHKKKYKCPVCGFPKLKRASTSIWVCGHCGYKIAGGAYT 61
Query: 76 S 76
Sbjct: 62 P 62
>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 = 54.3 bits (129), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 38/71 (53%)
Query: 4 TYQAKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCK 63
T A ++ K G +G++G RYG R+ V ++E + + C CG+D + R GIW C
Sbjct: 23 TTMASKSGKTGSSGRFGARYGRVSRRRVAEIESEMNEDHACPNCGEDRVDRQGTGIWQCS 82
Query: 64 RCKRIVAGGAW 74
C GG++
Sbjct: 83 YCDYKFTGGSY 93
>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 = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 37/68 (54%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
A ++ K G +G++G RYG R+ V ++E + + C CG+D + R GIW C C
Sbjct: 2 ASKSGKTGSSGRFGARYGRVSRRRVAEIESEMNEDHACPNCGEDRVDRQGTGIWQCSYCD 61
Query: 67 RIVAGGAW 74
GG++
Sbjct: 62 YKFTGGSY 69
>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 = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 37/68 (54%)
Query: 7 AKRTKKVGITGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCK 66
A ++ K G +G++G RYG R+ V ++E + + C CG+D + R GIW C C
Sbjct: 2 ASKSGKTGRSGRFGARYGRVSRRRVAEIESEMNEDHACPNCGEDRVDRQGTGIWQCSYCD 61
Query: 67 RIVAGGAW 74
GG++
Sbjct: 62 YKFTGGSY 69
>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 = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 33/61 (54%)
Query: 16 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAWD 75
TG++G RYG +R V +EI K+ C CG +KR+ GIW C C +AGG +
Sbjct: 2 TGRFGPRYGLKIRVRVADVEIKHKKKHKCPVCGFKKLKRAGTGIWMCGHCGYKIAGGCYQ 61
Query: 76 S 76
Sbjct: 62 P 62
>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 = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 32/59 (54%)
Query: 16 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAW 74
+G++G RYG R+ V ++E + + C CG+D + R GIW C C GG++
Sbjct: 2 SGRFGARYGRVSRRRVAEIESEMNEDHACPNCGEDRVDRQGTGIWQCSYCDYKFTGGSY 60
>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 = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 32/59 (54%)
Query: 16 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAW 74
+G++G RYG R+ V ++E + + C CG+D + R GIW C C GG++
Sbjct: 2 SGRFGARYGRVSRRRVAEIESEMNEDHACPNCGEDRVDRQGTGIWQCSYCDYKFTGGSY 60
>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 = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 32/59 (54%)
Query: 16 TGKYGTRYGASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRIVAGGAW 74
+G++G RYG R+ V ++E + + C CG+D + R GIW C C GG++
Sbjct: 2 SGRFGARYGRVSRRRVAEIESEMNEDHACPNCGEDRVDRQGTGIWQCSYCDYKFTGGSY 60
>pdb|2REM|A Chain A, Crystal Structure Of Oxidoreductase Dsba From Xylella
Fastidiosa
pdb|2REM|B Chain B, Crystal Structure Of Oxidoreductase Dsba From Xylella
Fastidiosa
pdb|2REM|C Chain C, Crystal Structure Of Oxidoreductase Dsba From Xylella
Fastidiosa
Length = 193
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 10/64 (15%)
Query: 24 GASLRKMVKKMEITQHAKYTCSFCGKDSMKRSCVGIWSCKRCKRI-------VAGGAWDS 76
G + K+E+ + YTC C K W ++ K + V GG WD
Sbjct: 17 GRPFAPLAGKIEVVEIFGYTCPHCAHFDSKLQA---WGARQAKDVRFTLVPAVFGGVWDP 73
Query: 77 MKRS 80
R+
Sbjct: 74 FARA 77
>pdb|1EYS|C Chain C, Crystal Structure Of Photosynthetic Reaction Center From A
Thermophilic Bacterium, Thermochromatium Tepidum
Length = 382
Score = 26.6 bits (57), Expect = 3.9, Method: Composition-based stats.
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 87 CKRCKRIVAGGAWVYNTTAATSVRSAIRRLREVNE 121
C C A W +T T+ AIR +R++N+
Sbjct: 225 CTSCHNTRAFNDWTQSTPKRTTAWYAIRHVRDINQ 259
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
0.324 0.132 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,472,405
Number of Sequences: 62578
Number of extensions: 114062
Number of successful extensions: 435
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 396
Number of HSP's gapped (non-prelim): 44
length of query: 122
length of database: 14,973,337
effective HSP length: 84
effective length of query: 38
effective length of database: 9,716,785
effective search space: 369237830
effective search space used: 369237830
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)