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= psy6375
(86 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZKR|SS Chain s, 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 = 156
Score = 145 bits (365), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 72/86 (83%), Positives = 80/86 (93%)
Query: 1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
+D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct: 71 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130
Query: 61 DGKKKAYVRLARDYDALDVANKIGII 86
DG+KKAYVRLA DYDALDVANKIGII
Sbjct: 131 DGEKKAYVRLAPDYDALDVANKIGII 156
>pdb|3IZR|X Chain X, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 152
Score = 122 bits (307), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 70/86 (81%), Positives = 76/86 (88%)
Query: 1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
+D + I+KYPLTTESAMKKIEDNNTLVFIV L+A+K IKAAVKKMYDI KVNTLIRP
Sbjct: 67 LDQYQILKYPLTTESAMKKIEDNNTLVFIVDLKADKKKIKAAVKKMYDIQAKKVNTLIRP 126
Query: 61 DGKKKAYVRLARDYDALDVANKIGII 86
DGKKKAYV+L DYDALDVANKIGII
Sbjct: 127 DGKKKAYVKLTPDYDALDVANKIGII 152
>pdb|2GO5|4 Chain 4, Structure Of Signal Recognition Particle Receptor (Sr) In
Complex With Signal Recognition Particle (Srp) And
Ribosome Nascent Chain Complex
pdb|2J37|4 Chain 4, Model Of Mammalian Srp Bound To 80s Rncs
Length = 152
Score = 122 bits (305), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 70/86 (81%), Positives = 76/86 (88%)
Query: 1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
+D + I+KYPLTTESAMKKIEDNNTLVFIV L+A+K IKAAVKKMYDI KVNTLIRP
Sbjct: 67 LDQYQILKYPLTTESAMKKIEDNNTLVFIVDLKADKKKIKAAVKKMYDIQAKKVNTLIRP 126
Query: 61 DGKKKAYVRLARDYDALDVANKIGII 86
DGKKKAYV+L DYDALDVANKIGII
Sbjct: 127 DGKKKAYVKLTPDYDALDVANKIGII 152
>pdb|3ZF7|X Chain X, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 164
Score = 122 bits (305), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 56/86 (65%), Positives = 69/86 (80%)
Query: 1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
DAF II+YPLTT+ AMKKIE+NNTL FIV +ANK IK A++K+Y + KVNTLIRP
Sbjct: 79 WDAFRIIRYPLTTDKAMKKIEENNTLTFIVDSRANKTEIKKAIRKLYQVKTVKVNTLIRP 138
Query: 61 DGKKKAYVRLARDYDALDVANKIGII 86
DG KKAY+RL+ YDALD ANK+G++
Sbjct: 139 DGLKKAYIRLSASYDALDTANKMGLV 164
>pdb|2WW9|K Chain K, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound
To The Yeast 80s Ribosome
pdb|2WWA|K Chain K, Cryo-Em Structure Of Idle Yeast Ssh1 Complex Bound To The
Yeast 80s Ribosome
pdb|2WWB|K Chain K, Cryo-Em Structure Of The Mammalian Sec61 Complex Bound To
The Actively Translating Wheat Germ 80s Ribosome
pdb|3IZS|X Chain X, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|W Chain W, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|W Chain W, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|X Chain X, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|X Chain X, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|X Chain X, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 142
Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 52/86 (60%), Positives = 73/86 (84%)
Query: 1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
+D++ +I+ P+T+E+AMKK+ED N LVF V ++ANK+ IK AVK++Y+++V KVNTL+RP
Sbjct: 57 LDSYKVIEQPITSETAMKKVEDGNILVFQVSMKANKYQIKKAVKELYEVDVLKVNTLVRP 116
Query: 61 DGKKKAYVRLARDYDALDVANKIGII 86
+G KKAYVRL DYDALD+AN+IG I
Sbjct: 117 NGTKKAYVRLTADYDALDIANRIGYI 142
>pdb|1S1I|T Chain T, 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 = 83
Score = 113 bits (283), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 51/83 (61%), Positives = 70/83 (84%)
Query: 4 FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
+ +I+ P+T+E+AMKK+ED N LVF V ++ANK+ IK AVK++Y+++V KVNTL+RP+G
Sbjct: 1 YKVIEQPITSETAMKKVEDGNILVFQVSMKANKYQIKKAVKELYEVDVLKVNTLVRPNGT 60
Query: 64 KKAYVRLARDYDALDVANKIGII 86
KKAYVRL DYDALD+AN+IG I
Sbjct: 61 KKAYVRLTADYDALDIANRIGYI 83
>pdb|3JYW|T Chain T, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus
Ribosome At 8.9a Resolution
Length = 80
Score = 110 bits (274), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 49/80 (61%), Positives = 68/80 (85%)
Query: 4 FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
+ +I+ P+T+E+AMKK+ED N LVF V ++ANK+ IK AVK++Y+++V KVNTL+RP+G
Sbjct: 1 YKVIEQPITSETAMKKVEDGNILVFQVSMKANKYQIKKAVKELYEVDVLKVNTLVRPNGT 60
Query: 64 KKAYVRLARDYDALDVANKI 83
KKAYVRL DYDALD+AN+I
Sbjct: 61 KKAYVRLTADYDALDIANRI 80
>pdb|4A17|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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 = 150
Score = 96.7 bits (239), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 47/86 (54%), Positives = 64/86 (74%)
Query: 1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
+D +++K PLTTE AMKK+ED NT+VF VH ++ K IK+A +K+Y++ V VNTL
Sbjct: 65 LDNHSVVKTPLTTEKAMKKMEDENTMVFYVHNRSTKPQIKSAFEKLYNVKVRSVNTLNTI 124
Query: 61 DGKKKAYVRLARDYDALDVANKIGII 86
G KKAY+RLA D D+L +ANKIG+I
Sbjct: 125 TGNKKAYIRLAADSDSLTLANKIGLI 150
>pdb|3BBO|V Chain V, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 198
Score = 89.0 bits (219), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 40/86 (46%), Positives = 62/86 (72%)
Query: 1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
+D + I++ P+ TE+A+K I D N+L+F V ++A+K I+ A+ + + V KVNTLIRP
Sbjct: 109 LDVYQILQSPIITEAAIKNIADENSLLFTVDVRADKKMIREAISNFFGVKVRKVNTLIRP 168
Query: 61 DGKKKAYVRLARDYDALDVANKIGII 86
DG KKAY+ L ++Y+A ++A KIGI
Sbjct: 169 DGTKKAYIMLNKEYNASELAKKIGIF 194
>pdb|3J21|T Chain T, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 86
Score = 82.8 bits (203), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 40/85 (47%), Positives = 58/85 (68%)
Query: 1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
MD + +I P+ TE A+ IE N L FIV +A K IK AV++++++ V KVNTLI P
Sbjct: 1 MDPYKVIIRPVVTEKAISLIEKENKLTFIVDRRATKQDIKRAVEEIFNVKVEKVNTLITP 60
Query: 61 DGKKKAYVRLARDYDALDVANKIGI 85
G+KKAYV+L +Y A +VA ++G+
Sbjct: 61 RGEKKAYVKLKPEYSASEVAARLGL 85
>pdb|1FFK|P Chain P, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1GIY|T Chain T, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules
Are In The File 1gix
pdb|1JJ2|R Chain R, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|R Chain R, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|T Chain T, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|T Chain T, Co-Crystal Structure Of Tylosin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1KD1|T Chain T, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|T Chain T, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|T Chain T, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1ML5|TT Chain t, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1K73|T Chain T, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|T Chain T, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|T Chain T, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|T Chain T, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|T Chain T, Crystal Structure Of Ccdap-puromycin Bound At The
Peptidyl Transferase Center Of The 50s Ribosomal
Subunit
pdb|1Q81|T Chain T, Crystal Structure Of Minihelix With 3' Puromycin Bound
To A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|T Chain T, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|T Chain T, 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|R Chain R, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|R Chain R, Structure Of Cca Oligonucleotide Bound To The Trna
Binding Sites Of The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1W2B|R Chain R, Trigger Factor Ribosome Binding Domain In Complex With
50s
pdb|1YL3|T Chain T, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. Large Subunit. The Coordinates For The Small
Subunit Are In The Pdb Entry 1yl4.
pdb|2B66|X Chain X, 50s Ribosomal Subunit From A Crystal Structure Of
Release Factor Rf1, Trnas And Mrna Bound To The
Ribosome. This File Contains The 50s Subunit From A
Crystal Structure Of Release Factor Rf1, Trnas And Mrna
Bound To The Ribosome And Is Described In Remark 400
pdb|2B9N|X Chain X, 50s Ribosomal Subunit From A Crystal Structure Of
Release Factor Rf2, Trnas And Mrna Bound To The
Ribosome. This File Contains The 50s Subunit From A
Crystal Structure Of Release Factor Rf1, Trnas And Mrna
Bound To The Ribosome And Is Described In Remark 400.
pdb|2B9P|X Chain X, 50s Ribosomal Subunit From A Crystal Structure Of The
Ribosome In Complex With Trnas And Mrna With A Stop
Codon In The A-Site. This File Contains The 50s Subunit
From A Crystal Structure Of The Ribosome In Complex
With Trnas And Mrna With A Stop Codon In The A-Site And
Is Described In Remark 400.
pdb|3CXC|R Chain R, The Structure Of An Enhanced Oxazolidinone Inhibitor
Bound To The 50s Ribosomal Subunit Of H. Marismortui
Length = 84
Score = 73.2 bits (178), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 36/84 (42%), Positives = 56/84 (66%)
Query: 3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
++++IK+P TE AM ++ N L F V +A+K + AV++ YD+ V +VNT DG
Sbjct: 1 SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDG 60
Query: 63 KKKAYVRLARDYDALDVANKIGII 86
+KKA VRL+ D DA +VA++IG+
Sbjct: 61 EKKAVVRLSEDDDAQEVASRIGVF 84
>pdb|1S72|S Chain S, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|S Chain S, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|S Chain S, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|S Chain S, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|S Chain S, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|S Chain S, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|S Chain S, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|S Chain S, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|S Chain S, The Structure Of The Transition State Analogue "daa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ5|S Chain S, The Structure Of The Transition State Analogue "raa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ6|S Chain S, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|S Chain S, The Structure Of The Transition State Analogue "dca"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ8|S Chain S, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|S Chain S, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|S Chain S, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|S Chain S, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|S Chain S, The Structure Of The Transition State Analogue "dan"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQN|S Chain S, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To
The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|S Chain S, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|S Chain S, The Structure Of The Transition State Analogue "rap"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|2OTJ|S Chain S, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|S Chain S, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|S Chain S, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|S Chain S, 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|S Chain S, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|S Chain S, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|S Chain S, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|R Chain R, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|S Chain S, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|S Chain S, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|S Chain S, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|S Chain S, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|S Chain S, Co-Crystal Structure Of Triacetyloleandomcyin Bound To
The Large Ribosomal Subunit
pdb|4ADX|S Chain S, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 85
Score = 73.2 bits (178), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 36/84 (42%), Positives = 56/84 (66%)
Query: 3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
++++IK+P TE AM ++ N L F V +A+K + AV++ YD+ V +VNT DG
Sbjct: 2 SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDG 61
Query: 63 KKKAYVRLARDYDALDVANKIGII 86
+KKA VRL+ D DA +VA++IG+
Sbjct: 62 EKKAVVRLSEDDDAQEVASRIGVF 85
>pdb|3G4S|S Chain S, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|S Chain S, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|S Chain S, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|R Chain R, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 81
Score = 68.9 bits (167), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 35/81 (43%), Positives = 54/81 (66%)
Query: 3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
++++IK+P TE AM ++ N L F V +A+K + AV++ YD+ V +VNT DG
Sbjct: 1 SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDG 60
Query: 63 KKKAYVRLARDYDALDVANKI 83
+KKA VRL+ D DA +VA++I
Sbjct: 61 EKKAVVRLSEDDDAQEVASRI 81
>pdb|1P85|R Chain R, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P86|R Chain R, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AW4|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File
Contains The 50s Subunit Of One 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes And
Is Described In Remark 400.
pdb|2AWB|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File
Contains The 50s Subunit Of The Second 70s Ribosome.
The Entire Crystal Structure Contains Two 70s Ribosomes
And Is Described In Remark 400.
pdb|1VS6|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|1VS8|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2I2T|T Chain T, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2I2V|T Chain T, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2QOV|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The First 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QOX|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The Second 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QOZ|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
First 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QP1|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QAM|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The First 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QAO|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBA|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The First 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBC|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBE|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
First 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2QBG|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2QBI|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Gentamicin
And Rrf Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBK|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With Gentamicin
And Rrf Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2Z4L|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2Z4N|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With
Paromomycin And Rrf Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2VHM|T Chain T, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 1 Of 4)
pdb|2VHN|T Chain T, Structure Of Pdf Binding Helix In Complex With The
Ribosome. (Part 2 Of 4)
pdb|2RDO|T Chain T, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|2VRH|B Chain B, Structure Of The E. Coli Trigger Factor Bound To A
Translating Ribosome
pdb|3DF2|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This
File Contains The 50s Subunit Of The First 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|3DF4|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This
File Contains The 50s Subunit Of The Second 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|3BBX|T Chain T, The Hsp15 Protein Fitted Into The Low Resolution Cryo-Em
Map 50s.Nc-Trna.Hsp15 Complex
pdb|3I1N|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1P|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1R|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1T|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I20|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I22|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KCR|T Chain T, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 3kc4
pdb|1VT2|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3ORB|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
First 70s Ribosome Bound To Cem-101.
pdb|3IZT|U Chain U, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A
Near-Cognate Codon.
pdb|3IZU|U Chain U, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A Cognate
Codon
pdb|3J01|T Chain T, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3SGF|X Chain X, Crystal Structure Of Release Factor Rf3 Trapped In The
Gtp State On A Rotated Conformation Of The Ribosome
pdb|3UOS|X Chain X, Crystal Structure Of Release Factor Rf3 Trapped In The
Gtp State On A Rotated Conformation Of The Ribosome
(Without Viomycin)
pdb|3J0T|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
pdb|4GAR|T Chain T, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAU|T Chain T, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 100
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 40/72 (55%)
Query: 4 FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
+++ P +E A +E +NT+V V A K IKAAV+K++++ V VNTL+
Sbjct: 8 LKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKV 67
Query: 64 KKAYVRLARDYD 75
K+ R+ R D
Sbjct: 68 KRHGQRIGRRSD 79
>pdb|2GYA|R Chain R, Structure Of The 50s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYC|R Chain R, Structure Of The 50s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
Length = 92
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 40/72 (55%)
Query: 4 FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
+++ P +E A +E +NT+V V A K IKAAV+K++++ V VNTL+
Sbjct: 2 LKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKV 61
Query: 64 KKAYVRLARDYD 75
K+ R+ R D
Sbjct: 62 KRHGQRIGRRSD 73
>pdb|2J28|T Chain T, Model Of E. Coli Srp Bound To 70s Rncs
pdb|3IY9|T Chain T, Leishmania Tarentolae Mitochondrial Large Ribosomal
Subunit Model
pdb|3E1B|M Chain M, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|M Chain M, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
Length = 99
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 40/72 (55%)
Query: 4 FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
+++ P +E A +E +NT+V V A K IKAAV+K++++ V VNTL+
Sbjct: 8 LKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKV 67
Query: 64 KKAYVRLARDYD 75
K+ R+ R D
Sbjct: 68 KRHGQRIGRRSD 79
>pdb|3FIK|T Chain T, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|2WWQ|T Chain T, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 50s, The P-Site
Trna And The Tnac Leader Peptide (Part 2 Of 2).
pdb|3OFQ|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OFR|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Erthromycin Bound.
pdb|3OFC|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The First 70s Ribosome With Chloramphenicol Bound.
pdb|3OFD|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OFZ|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
First 70s Ribosome Bound To Clindamycin.
pdb|3OG0|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAS|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OAT|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of
The First 70s Ribosome With Telithromycin Bound.
pdb|3R8S|T Chain T, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3R8T|T Chain T, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3J19|T Chain T, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And
Mld-Loading (50s Subunit)
Length = 93
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 40/72 (55%)
Query: 4 FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
+++ P +E A +E +NT+V V A K IKAAV+K++++ V VNTL+
Sbjct: 8 LKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKV 67
Query: 64 KKAYVRLARDYD 75
K+ R+ R D
Sbjct: 68 KRHGQRIGRRSD 79
>pdb|3PYO|T Chain T, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 50s Subunit Of The First 70s
Ribosome.
pdb|3PYR|T Chain T, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 50s Subunit Of The Second 70s
Ribosome.
pdb|3PYT|T Chain T, Crystal Structure Of A Complex Containing Domain 3 Of
Crpv Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 50s Subunit Of The First 70s Ribosome.
pdb|3PYV|T Chain T, Crystal Structure Of A Complex Containing Domain 3 Of
Crpv Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 50s Subunit Of The Second 70s Ribosome.
pdb|3TVE|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3TVH|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
Length = 92
Score = 37.7 bits (86), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 39/71 (54%), Gaps = 7/71 (9%)
Query: 3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTL-IRPD 61
A+++I P+ +E A + F VH +A K IK AV+ + + V KVNTL +R
Sbjct: 2 AYDVILAPVLSEKAYAGFAEGK-YTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVR-- 58
Query: 62 GKKKAYVRLAR 72
GKKK RL R
Sbjct: 59 GKKK---RLGR 66
>pdb|3FIN|X Chain X, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 50s Subunit
Length = 93
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 39/71 (54%), Gaps = 7/71 (9%)
Query: 3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTL-IRPD 61
A+++I P+ +E A + F VH +A K IK AV+ + + V KVNTL +R
Sbjct: 2 AYDVILAPVLSEKAYAGFAEGK-YTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVR-- 58
Query: 62 GKKKAYVRLAR 72
GKKK RL R
Sbjct: 59 GKKK---RLGR 66
>pdb|1N88|A Chain A, Nmr Structure Of The Ribosomal Protein L23 From Thermus
Thermophilus.
pdb|2J01|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 2 Of
4). This File Contains The 50s Subunit From Molecule I.
pdb|2J03|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 4 Of
4). This File Contains The 50s Subunit From Molecule
Ii.
pdb|2HGJ|W Chain W, Crystal Structure Of The 70s Thermus Thermophilus
Ribosome Showing How The 16s 3'-End Mimicks Mrna E And
P Codons. This Entry 2hgj Contains 50s Ribosomal
Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb
Entry 2hgi.
pdb|2HGQ|W Chain W, Crystal Structure Of The 70s Thermus Thermophilus
Ribosome With Translocated And Rotated Shine-Dalgarno
Duplex. This Entry 2hgq Contains 50s Ribosomal Subunit.
The 30s Ribosomal Subunit Can Be Found In Pdb Entry
2hgp.
pdb|2HGU|W Chain W, 70s T.Th. Ribosome Functional Complex With Mrna And E-
And P-Site Trnas At 4.5a. This Entry 2hgu Contains 50s
Ribosomal Subunit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgr.
pdb|1VSA|R Chain R, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome
Subunit Is In The File 2ow8
pdb|2V47|X Chain X, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe
And Trna-Fmet (Part 2 Of 4). This File Contains The 50s
Subunit For Molecule 1.
pdb|2V49|X Chain X, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe
And Trna-Fmet (Part 4 Of 4). This File Contains The 50s
Subunit Of Molecule 2.
pdb|1VSP|R Chain R, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 1vsp, Contains The 50s
Ribosome Subunit. 30s Ribosome Subunit Is In The File
2qnh
pdb|3D5B|X Chain X, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 50s Subunit Of One 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes As Described In Remark 400.
pdb|3D5D|X Chain X, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 50s Subunit Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3F1F|X Chain X, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes As Described In
Remark 400.
pdb|3F1H|X Chain X, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes As
Described In Remark 400.
pdb|2WDI|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule I.
pdb|2WDJ|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WDL|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule I.
pdb|2WDN|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule Ii.
pdb|2WH2|X Chain X, Insights Into Translational Termination From The
Structure Of Rf2 Bound To The Ribosome
pdb|2WH4|X Chain X, Insights Into Translational Termination From The
Structure Of Rf2 Bound To The Ribosome
pdb|3HUX|X Chain X, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule I.
pdb|3HUZ|X Chain X, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WRJ|X Chain X, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 2 Of
4).
pdb|2WRL|X Chain X, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State. (Part 4 Of
4).
pdb|2WRO|X Chain X, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 2 Of 4).
pdb|2WRR|X Chain X, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 4 Of 4).
pdb|3KIR|X Chain X, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 2 Of 4)
pdb|3KIT|X Chain X, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 4 Of 4)
pdb|3KIW|X Chain X, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 2 Of 4)
pdb|3KIY|X Chain X, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 4 Of 4)
pdb|3KNI|X Chain X, The Structures Of Viomycin Bound To The 70s Ribosome.
This File Contains The 50s Subunit For Molecule I
pdb|3KNK|X Chain X, The Structures Of Viomycin Bound To The 70s Ribosome.
This File Contains The 50s Subunit For Molecule Ii.
pdb|3KNM|X Chain X, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule I.
pdb|3KNO|X Chain X, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule Ii
pdb|3I8F|T Chain T, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8f Contains 50s Ribosomal Subunit. The 30s
Ribosoma Can Be Found In Pdb Entry 3i8g. Molecule B In
The Same Asym Unit Is Deposited As 3i8g (30s) And 3i8f
(50s).
pdb|3I8I|T Chain T, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8i Contains 50s Ribosomal Subnit. The 30s
Ribosomal Can Be Found In Pdb Entry 3i8h. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|3I9C|T Chain T, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9c Contains 50s Ribosomal Subunit Of Molecule
B. The 30s Subunit Can Be Found In Pdb Entry 3i9b.
Molecule A In The S Asymmetric Unit Is Deposited As
3i9d (30s) And 3i9e (50s)
pdb|3I9E|T Chain T, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9e Contains 50s Ribosomal Subunit Of Molecule
A. The 30s Subunit Can Be Found In Pdb Entry 3i9d.
Molecule B In The S Asymmetric Unit Is Deposited As
3i9b (30s) And 3i9c (50s)
pdb|2X9S|X Chain X, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9U|X Chain X, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|3MRZ|T Chain T, Recognition Of The Amber Stop Codon By Release Factor
Rf1. This Entry 3mrz Contains 50s Ribosomal Subunit.
The 30s Ribosomal Subunit Can Be Found In Pdb Entry
3ms0. Molecule A In The Same Asymmetric Unit Is
Deposited As 3mr8 (50s) And 3ms1 (30s).
pdb|3MS1|T Chain T, Recognition Of The Amber Stop Codon By Release Factor
Rf1. This Entry 3ms1 Contains 50s Ribosomal Subunit.
The 30s Ribosomal Subunit Can Be Found In Pdb Entry
3mr8. Molecule B In The Same Asymmetric Unit Is
Deposited As 3mrz (50s) And 3ms0 (30s).
pdb|2XG0|X Chain X, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 2 Of 4)
pdb|2XG2|X Chain X, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 4 Of 4)
pdb|3OH5|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Chloramphenicol. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OH7|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Chloramphenicol. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OHJ|X Chain X, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 50s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OHK|X Chain X, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 50s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OHZ|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI1|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI3|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI5|X Chain X, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2XQE|X Chain X, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The
70s Ribosome With A Gtp Analog
pdb|2XTG|X Chain X, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUX|X Chain X, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|2Y0V|X Chain X, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y0X|X Chain X, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Z|X Chain X, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound
To A Near-Cognate Codon On The 70s Ribosome
pdb|2Y11|X Chain X, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y13|X Chain X, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound
To A Near-Cognate Codon On The 70s Ribosome
pdb|2Y15|X Chain X, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound
To A Cognate Codon On The 70s Ribosome.
pdb|2Y17|X Chain X, Ef-Tu Complex 3
pdb|2Y19|X Chain X, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|3ZVP|X Chain X, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release
Factor 3
pdb|3UXQ|X Chain X, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UXR|X Chain X, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UYE|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The
Near-Cognate Trna-Leu Complex
pdb|3UYG|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The
Near-Cognate Trna-Leu Complex
pdb|3UZ1|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The
Near-Cognate Trna-Leu Complex With Paromomycin
pdb|3UZ2|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The
Near-Cognate Trna-Leu Complex With Paromomycin.
pdb|3UZ8|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZ9|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZF|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The
Near-Cognate Trna-Tyr Complex
pdb|3UZH|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The
Near-Cognate Trna-Tyr Complex.
pdb|3UZK|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The
Near-Cognate Trna-Tyr Complex With Paromomycin
pdb|3UZN|T Chain T, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The
Near-cognate Trna-tyr Complex With Paromomycin
pdb|4ABS|X Chain X, Complex Of Smpb, A Tmrna Fragment And
Ef-Tu-Gdp-Kirromycin With The 70s Ribosome
pdb|4DHA|X Chain X, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|4DHC|X Chain X, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|3V23|X Chain X, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V25|X Chain X, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 2nd Ribosome In The Asu
pdb|3V27|X Chain X, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V29|X Chain X, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Entry Contains The 50s Subunit Of The 2nd Molecule In
The Asu.
pdb|3V2D|X Chain X, Crystal Structure Of Yfia Bound To The 70s Ribosome.
This Pdb Entry Contains Coordinates For The 50s Subunit
Of The 1st Ribosome In The Asu
pdb|3V2F|X Chain X, Crystal Structure Of Yfia Bound To The 70s Ribosome.
This Pdb Entry Contains Coordinates For The 50s Subunit
Of The 2nd Ribosome In The Asu
pdb|4G5L|T Chain T, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5N|T Chain T, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule B.
pdb|4G5U|T Chain T, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5W|T Chain T, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule B
Length = 96
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 39/71 (54%), Gaps = 7/71 (9%)
Query: 3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTL-IRPD 61
A+++I P+ +E A + F VH +A K IK AV+ + + V KVNTL +R
Sbjct: 4 AYDVILAPVLSEKAYAGFAEGK-YTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVR-- 60
Query: 62 GKKKAYVRLAR 72
GKKK RL R
Sbjct: 61 GKKK---RLGR 68
>pdb|3FQD|A Chain A, Crystal Structure Of The S. Pombe Rat1-Rai1 Complex
Length = 899
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 7/41 (17%)
Query: 9 YPLTTESAMKKIEDNNTLVFIVHLQANKHH--IKAAVKKMY 47
YP TE K+ ED +TL+FI ++HH VK++Y
Sbjct: 743 YPQLTEEESKRNEDGSTLLFI-----SEHHPXFSELVKQLY 778
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
0.321 0.135 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,373,356
Number of Sequences: 62578
Number of extensions: 72304
Number of successful extensions: 199
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 178
Number of HSP's gapped (non-prelim): 21
length of query: 86
length of database: 14,973,337
effective HSP length: 54
effective length of query: 32
effective length of database: 11,594,125
effective search space: 371012000
effective search space used: 371012000
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)