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= 029362
(194 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|F Chain F, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 190
Score = 324 bits (831), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 155/190 (81%), Positives = 175/190 (92%), Gaps = 4/190 (2%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
MKTIL+SETM+IP+GV V++ AKV+ VEGPRGKL+R+FKHLNLDF L+ G RKL++
Sbjct: 1 MKTILASETMEIPEGVTVQVAAKVVTVEGPRGKLTRNFKHLNLDFQLLE----GGRKLQV 56
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNF 120
DAWFG+R+T AAIRTA+SHV NLITGVTKGYRYKMRFVYAHFPINASI N+N AIEIRNF
Sbjct: 57 DAWFGTRRTMAAIRTAISHVQNLITGVTKGYRYKMRFVYAHFPINASITNSNTAIEIRNF 116
Query: 121 LGEKKVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD 180
LGEKKVRKVDML+GVT++RS+KVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD
Sbjct: 117 LGEKKVRKVDMLEGVTILRSEKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD 176
Query: 181 GIYVSEKSTI 190
GIYVS+K TI
Sbjct: 177 GIYVSDKGTI 186
>pdb|2ZKR|EE Chain e, 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 = 192
Score = 226 bits (576), Expect = 6e-60, Method: Compositional matrix adjust.
Identities = 110/190 (57%), Positives = 139/190 (73%), Gaps = 3/190 (1%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
MKTILS++T+DIP+ V + + + + V+GPRG L RDF H+N++ L+ + K++L++
Sbjct: 1 MKTILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGKK---KKRLRV 57
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNF 120
D W+G+RK A +RT SHV N+I GVT G+RYKMR VYAHFPIN I N +EIRNF
Sbjct: 58 DKWWGNRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNF 117
Query: 121 LGEKKVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD 180
LGEK +R+V M GV S KDEL+L+GNDIELVS SAALI Q VKNKDIRKFLD
Sbjct: 118 LGEKYIRRVRMRPGVACSVSQAQKDELILEGNDIELVSNSAALIQQATTVKNKDIRKFLD 177
Query: 181 GIYVSEKSTI 190
GIYVSEK T+
Sbjct: 178 GIYVSEKGTV 187
>pdb|1S1I|H Chain H, 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.
pdb|3IZS|F Chain F, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|I Chain I, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|I Chain I, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|H Chain H, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|H Chain H, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|3J16|F Chain F, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
pdb|4B6A|H Chain H, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 191
Score = 191 bits (486), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 98/192 (51%), Positives = 136/192 (70%), Gaps = 7/192 (3%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
MK I + + +++P+GV V I +++++V GPRG L+++ KH+++ F + + +K+
Sbjct: 1 MKYIQTEQQIEVPEGVTVSIKSRIVKVVGPRGTLTKNLKHIDVTF-----TKVNNQLIKV 55
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKA--IEIR 118
G RK AA+RT S V N+ITGVTKGY+YKMR+VYAHFPIN +I + A IE+R
Sbjct: 56 AVHNGGRKHVAALRTVKSLVDNMITGVTKGYKYKMRYVYAHFPINVNIVEKDGAKFIEVR 115
Query: 119 NFLGEKKVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKF 178
NFLG+KK+R V + DGVT+ S VKDE+VL GN +E VS++AA + Q C V+NKDIRKF
Sbjct: 116 NFLGDKKIRNVPVRDGVTIEFSTNVKDEIVLSGNSVEDVSQNAADLQQICRVRNKDIRKF 175
Query: 179 LDGIYVSEKSTI 190
LDGIYVS K I
Sbjct: 176 LDGIYVSHKGFI 187
>pdb|3ZF7|YY Chain y, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 189
Score = 188 bits (478), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 97/193 (50%), Positives = 133/193 (68%), Gaps = 8/193 (4%)
Query: 4 ILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAW 63
I S + + P+ V V + +++ V+G RG L++D +HL LDF + R W
Sbjct: 3 IKSHDQITFPEDVTVSVKDRIVTVKGKRGTLTKDLRHLQLDFRV----NKKLRTFTAVRW 58
Query: 64 FGSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNFLGE 123
FG++ ++ I TALSHV N+ITGVTKG+R+K+RF YAHFPI+ ++ N+ +EIRNFLGE
Sbjct: 59 FGNKINNSTINTALSHVRNMITGVTKGFRFKVRFAYAHFPISVTV--ENQLVEIRNFLGE 116
Query: 124 KKVRKVDMLDGVTVIRSDK--VKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLDG 181
K+VR+ + D V V R+D VKDELVL+GND+E VSR AA+++Q C VK KDIRKFLDG
Sbjct: 117 KRVRRQVVADDVKVYRTDAALVKDELVLEGNDLEQVSREAAVMHQLCLVKKKDIRKFLDG 176
Query: 182 IYVSEKSTILGEE 194
IYV K+ I +E
Sbjct: 177 IYVQTKTNIEVDE 189
>pdb|3JYW|H Chain H, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 179
Score = 186 bits (473), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 94/184 (51%), Positives = 133/184 (72%), Gaps = 7/184 (3%)
Query: 6 SSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFG 65
+ + +++P+GV V I +++++V GPRG L+++ KH+++ F + ++ +K+ G
Sbjct: 1 TEQQIEVPEGVTVSIKSRIVKVVGPRGTLTKNLKHIDVTFTKVNNQL-----IKVAVHNG 55
Query: 66 SRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKA--IEIRNFLGE 123
RK AA+RT S V N+ITGVTKGY+YKMR+VYAHFPIN +I + A IE+RNFLG+
Sbjct: 56 GRKHVAALRTVKSLVDNMITGVTKGYKYKMRYVYAHFPINVNIVEKDGAKFIEVRNFLGD 115
Query: 124 KKVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLDGIY 183
KK+R V + DGVT+ S VKDE+VL GN +E VS++AA + Q C V+NKDIRKFLDGIY
Sbjct: 116 KKIRNVPVRDGVTIEFSTNVKDEIVLSGNSVEDVSQNAADLQQICRVRNKDIRKFLDGIY 175
Query: 184 VSEK 187
VS K
Sbjct: 176 VSHK 179
>pdb|4A17|E Chain E, 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|E Chain E, 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|E Chain E, 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|E Chain E, 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 = 188
Score = 169 bits (428), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 79/193 (40%), Positives = 125/193 (64%), Gaps = 5/193 (2%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
M+ +L+ + IPD V + +V+EV+GP G + R F++ ++D T + +K+
Sbjct: 1 MRHLLTEVNVPIPDKVTITAKQRVVEVKGPLGTIKRAFRYASVDIQKPTADN-----VKL 55
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNF 120
W SRK A +++ S + N+I GVT+GY++KM+ +AHFPI ++ + +IEI++F
Sbjct: 56 QIWQASRKERAVLQSIASQIKNMIRGVTEGYKFKMKLAFAHFPIQEAVAKDGSSIEIKHF 115
Query: 121 LGEKKVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD 180
LGEK++R++ L GV + R D+ K+ L L G D+ VS++ ALI+Q C VK KDIR+FLD
Sbjct: 116 LGEKRIRRIQALPGVKISRKDEEKNTLTLQGIDLNNVSQTCALIHQSCLVKEKDIRQFLD 175
Query: 181 GIYVSEKSTILGE 193
GIYVS+K + E
Sbjct: 176 GIYVSDKRLAMNE 188
>pdb|3J21|F Chain F, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 184
Score = 119 bits (299), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 72/182 (39%), Positives = 107/182 (58%), Gaps = 13/182 (7%)
Query: 8 ETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSR 67
E ++IP+GV+V + ++V+GP+G+L R+F + E G + D F R
Sbjct: 9 EEVEIPEGVEVTVEGYKVKVKGPKGELEREFFWPGIQIFT----EDGNVVIYKD--FPRR 62
Query: 68 KTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNFLGEKKVR 127
K A RT +H+ N+I GVT+G+ YK++ VY+HFPI+ + + IE NFLGEK R
Sbjct: 63 KDVAIARTFAAHIRNMIKGVTEGFTYKLKVVYSHFPISVKVQGDEVIIE--NFLGEKAPR 120
Query: 128 KVDMLDGVTVIRSDKVK-DELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLDGIYVSE 186
K +L GVTV KV+ E++++G D E V ++AA I Q + D R F DGIY+ E
Sbjct: 121 KAKILPGVTV----KVRGQEIIVEGIDKEAVGQTAANIEQATRITKWDRRIFQDGIYIVE 176
Query: 187 KS 188
K+
Sbjct: 177 KA 178
>pdb|3G4S|E Chain E, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|E Chain E, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|E Chain E, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|E Chain E, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 172
Score = 98.2 bits (243), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 60/179 (33%), Positives = 98/179 (54%), Gaps = 11/179 (6%)
Query: 10 MDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKT 69
++IP+ V + + I VEG G ++R + ++D + D + I++ + KT
Sbjct: 5 LEIPEDVDAEQDHLDITVEGDNGSVTRRLWYPDIDVSVDGD------TVVIESDEDNAKT 58
Query: 70 SAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNFLGEKKVRKV 129
+ I T SH+ N+ GVT+G+ Y M Y+HFP+ ++ + IE NFLGEK R+
Sbjct: 59 MSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNVEGDEVVIE--NFLGEKAPRRT 116
Query: 130 DMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLDGIYVSEKS 188
+ G T + D +EL + G DIE V ++AA I Q + +KD+R F DG+Y++ K
Sbjct: 117 -TIHGDTDVEID--GEELTVSGPDIEAVGQTAADIEQLTRINDKDVRVFQDGVYITRKP 172
>pdb|1FFK|1 Chain 1, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|E Chain E, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|E Chain E, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|G Chain G, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|G Chain G, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|G Chain G, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|G Chain G, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|G Chain G, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|G Chain G, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|G Chain G, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|G Chain G, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|G Chain G, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|G Chain G, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|G Chain G, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|G Chain G, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|G Chain G, 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|E Chain E, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|E Chain E, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|E Chain E, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|E Chain E, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
Length = 177
Score = 98.2 bits (243), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 60/179 (33%), Positives = 98/179 (54%), Gaps = 11/179 (6%)
Query: 10 MDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKT 69
++IP+ V + + I VEG G ++R + ++D + D + I++ + KT
Sbjct: 5 LEIPEDVDAEQDHLDITVEGDNGSVTRRLWYPDIDVSVDGD------TVVIESDEDNAKT 58
Query: 70 SAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNFLGEKKVRKV 129
+ I T SH+ N+ GVT+G+ Y M Y+HFP+ ++ + IE NFLGEK R+
Sbjct: 59 MSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNVEGDEVVIE--NFLGEKAPRRT 116
Query: 130 DMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLDGIYVSEKS 188
+ G T + D +EL + G DIE V ++AA I Q + +KD+R F DG+Y++ K
Sbjct: 117 -TIHGDTDVEID--GEELTVSGPDIEAVGQTAADIEQLTRINDKDVRVFQDGVYITRKP 172
>pdb|1S72|E Chain E, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|E Chain E, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|E Chain E, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|E Chain E, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|E Chain E, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|E Chain E, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|E Chain E, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|E Chain E, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|E Chain E, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|E Chain E, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|E Chain E, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|E Chain E, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|E Chain E, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|E Chain E, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|E Chain E, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|E Chain E, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|E Chain E, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|E Chain E, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|E Chain E, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|E Chain E, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|E Chain E, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|E Chain E, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|E Chain E, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|E Chain E, 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|E Chain E, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|E Chain E, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|E Chain E, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|E Chain E, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|E Chain E, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|E Chain E, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|E Chain E, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|E Chain E, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|E Chain E, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 178
Score = 97.8 bits (242), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 60/179 (33%), Positives = 98/179 (54%), Gaps = 11/179 (6%)
Query: 10 MDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKT 69
++IP+ V + + I VEG G ++R + ++D + D + I++ + KT
Sbjct: 6 LEIPEDVDAEQDHLDITVEGDNGSVTRRLWYPDIDVSVDGD------TVVIESDEDNAKT 59
Query: 70 SAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNFLGEKKVRKV 129
+ I T SH+ N+ GVT+G+ Y M Y+HFP+ ++ + IE NFLGEK R+
Sbjct: 60 MSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNVEGDEVVIE--NFLGEKAPRRT 117
Query: 130 DMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLDGIYVSEKS 188
+ G T + D +EL + G DIE V ++AA I Q + +KD+R F DG+Y++ K
Sbjct: 118 -TIHGDTDVEID--GEELTVSGPDIEAVGQTAADIEQLTRINDKDVRVFQDGVYITRKP 173
>pdb|2CQL|A Chain A, Solution Structure Of The N-Terminal Domain Of Human
Ribosomal Protein L9
Length = 100
Score = 92.0 bits (227), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 42/90 (46%), Positives = 64/90 (71%), Gaps = 3/90 (3%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
MKTILS++T+DIP+ V + + + + V+GPRG L RDF H+N++ L+ + K++L++
Sbjct: 8 MKTILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGKK---KKRLRV 64
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKG 90
D W+G+RK A +RT SHV N+I GVT G
Sbjct: 65 DKWWGNRKELATVRTICSHVQNMIKGVTLG 94
>pdb|2GYA|E Chain E, 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|E Chain E, 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 = 167
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 41/151 (27%), Positives = 67/151 (44%), Gaps = 15/151 (9%)
Query: 12 IPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSA 71
+P GV VKIN +VI ++G G+L+R H G R D W A
Sbjct: 6 VPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADGW-------A 58
Query: 72 AIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNFLGEKKVRKVDM 131
TA + + +++ GVT+G+ K++ V + A++ N I LG +
Sbjct: 59 QAGTARALLNSMVIGVTEGFTKKLQLVGVGY--RAAVKGN----VINLSLGFSHPVDHQL 112
Query: 132 LDGVTVIRSDKVKDELVLDGNDIELVSRSAA 162
G+T + E+VL G D +++ + AA
Sbjct: 113 PAGITA--ECPTQTEIVLKGADKQVIGQVAA 141
>pdb|1P85|E Chain E, 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|E Chain E, 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|G Chain G, 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|G Chain G, 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|2I2T|G Chain G, 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|G Chain G, 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|2J28|G Chain G, Model Of E. Coli Srp Bound To 70s Rncs
pdb|2QOV|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, 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|G Chain G, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 1 Of 4)
pdb|2VHN|G Chain G, Structure Of Pdf Binding Helix In Complex With The
Ribosome. (Part 2 Of 4)
pdb|2RDO|G Chain G, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|3DF2|G Chain G, 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|G Chain G, 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|G Chain G, The Hsp15 Protein Fitted Into The Low Resolution Cryo-Em
Map 50s.Nc-Trna.Hsp15 Complex
pdb|3FIK|G Chain G, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|2WWQ|G Chain G, 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|G Chain G, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OFR|G Chain G, 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|G Chain G, 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|G Chain G, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OFZ|G Chain G, 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|G Chain G, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAS|G Chain G, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAT|G Chain G, 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|3J01|G Chain G, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3R8S|G Chain G, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3R8T|G Chain G, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3J0T|H Chain H, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|H Chain H, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|H Chain H, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|H Chain H, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|H Chain H, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|H Chain H, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
pdb|3J19|G Chain G, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(50s Subunit)
Length = 176
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 41/151 (27%), Positives = 67/151 (44%), Gaps = 15/151 (9%)
Query: 12 IPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSA 71
+P GV VKIN +VI ++G G+L+R H G R D W A
Sbjct: 10 VPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADGW-------A 62
Query: 72 AIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNFLGEKKVRKVDM 131
TA + + +++ GVT+G+ K++ V + A++ N I LG +
Sbjct: 63 QAGTARALLNSMVIGVTEGFTKKLQLVGVGY--RAAVKGN----VINLSLGFSHPVDHQL 116
Query: 132 LDGVTVIRSDKVKDELVLDGNDIELVSRSAA 162
G+T + E+VL G D +++ + AA
Sbjct: 117 PAGITA--ECPTQTEIVLKGADKQVIGQVAA 145
>pdb|1VS6|G Chain G, 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|G Chain G, 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|3E1B|3 Chain 3, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|3 Chain 3, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
pdb|3I1N|G Chain G, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1P|G Chain G, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1R|G Chain G, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1T|G Chain G, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I20|G Chain G, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I22|G Chain G, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KCR|G Chain G, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found
In Pdb Entry 3kc4
pdb|1VT2|G Chain G, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3ORB|G Chain G, 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|H Chain H, 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|H Chain H, 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|3SGF|G Chain G, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOS|G Chain G, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|4GAR|G Chain G, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAU|G Chain G, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 177
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 41/151 (27%), Positives = 67/151 (44%), Gaps = 15/151 (9%)
Query: 12 IPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSA 71
+P GV VKIN +VI ++G G+L+R H G R D W A
Sbjct: 11 VPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADGW-------A 63
Query: 72 AIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNFLGEKKVRKVDM 131
TA + + +++ GVT+G+ K++ V + A++ N I LG +
Sbjct: 64 QAGTARALLNSMVIGVTEGFTKKLQLVGVGY--RAAVKGN----VINLSLGFSHPVDHQL 117
Query: 132 LDGVTVIRSDKVKDELVLDGNDIELVSRSAA 162
G+T + E+VL G D +++ + AA
Sbjct: 118 PAGITA--ECPTQTEIVLKGADKQVIGQVAA 146
>pdb|1RL6|A Chain A, Ribosomal Protein L6
pdb|1C04|B Chain B, Identification Of Known Protein And Rna Structures In A
5 A Map Of The Large Ribosomal Subunit From Haloarcula
Marismortui
pdb|1GIY|H Chain H, 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|1ML5|HH Chain h, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1YL3|H Chain H, 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|H Chain H, 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|H Chain H, 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|H Chain H, 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
Length = 177
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 46/94 (48%), Gaps = 7/94 (7%)
Query: 5 LSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWF 64
+ + ++IP GV V +N + V+GP+G+L+R F H ++ + + + +
Sbjct: 3 VGKKPIEIPAGVTVTVNGNTVTVKGPKGELTRTF-HPDMTITVEGN------VITVTRPS 55
Query: 65 GSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFV 98
+ A T S + N++ GV+KGY + V
Sbjct: 56 DEKHHRALHGTTRSLLANMVEGVSKGYEKALELV 89
>pdb|487D|J Chain J, Seven Ribosomal Proteins Fitted To A Cryo-Electron
Microscopic Map Of The Large 50s Subunit At 7.5
Angstroms Resolution
Length = 164
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 44/89 (49%), Gaps = 7/89 (7%)
Query: 10 MDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKT 69
++IP GV V +N + V+GP+G+L+R F H ++ + + T R +
Sbjct: 2 IEIPAGVTVTVNGNTVTVKGPKGELTRTF-HPDMTITVEGNVITVTRPSD------EKHH 54
Query: 70 SAAIRTALSHVGNLITGVTKGYRYKMRFV 98
A T S + N++ GV+KGY + V
Sbjct: 55 RALHGTTRSLLANMVEGVSKGYEKALELV 83
>pdb|1EG0|J Chain J, Fitting Of Components With Known Structure Into An 11.5
A Cryo-Em Map Of The E.Coli 70s Ribosome
Length = 171
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 44/89 (49%), Gaps = 7/89 (7%)
Query: 10 MDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKT 69
++IP GV V +N + V+GP+G+L+R F H ++ + + + + +
Sbjct: 9 IEIPAGVTVTVNGNTVTVKGPKGELTRTF-HPDMTITVEGN------VITVTRPSDEKHH 61
Query: 70 SAAIRTALSHVGNLITGVTKGYRYKMRFV 98
A T S + N++ GV+KGY + V
Sbjct: 62 RALHGTTRSLLANMVEGVSKGYEKALELV 90
>pdb|1NKW|E Chain E, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
pdb|1SM1|E Chain E, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Quinupristin And Dalfopristin
Length = 212
Score = 30.0 bits (66), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 7/87 (8%)
Query: 5 LSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWF 64
+ + + +P GV V V +V+GP+G+L+ + N + + D + +L ++
Sbjct: 31 IGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPY---NTELTVRQDGD----QLLVERPS 83
Query: 65 GSRKTSAAIRTALSHVGNLITGVTKGY 91
++K A + V N + GV+ GY
Sbjct: 84 DAQKHRALHGLTRTLVANAVKGVSDGY 110
>pdb|1NWX|E Chain E, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Abt-773
pdb|1NWY|E Chain E, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Azithromycin
pdb|1XBP|E Chain E, Inhibition Of Peptide Bond Formation By Pleuromutilins:
The Structure Of The 50s Ribosomal Subunit From
Deinococcus Radiodurans In Complex With Tiamulin
pdb|2ZJP|E Chain E, Thiopeptide Antibiotic Nosiheptide Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|2ZJQ|E Chain E, Interaction Of L7 With L11 Induced By Microccocin
Binding To The Deinococcus Radiodurans 50s Subunit
pdb|2ZJR|E Chain E, Refined Native Structure Of The Large Ribosomal Subunit
(50s) From Deinococcus Radiodurans
pdb|3CF5|E Chain E, Thiopeptide Antibiotic Thiostrepton Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|3DLL|E Chain E, The Oxazolidinone Antibiotics Perturb The Ribosomal
Peptidyl-Transferase Center And Effect Trna Positioning
pdb|3PIO|E Chain E, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
pdb|3PIP|E Chain E, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
Length = 185
Score = 30.0 bits (66), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 7/87 (8%)
Query: 5 LSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWF 64
+ + + +P GV V V +V+GP+G+L+ + N + + D + +L ++
Sbjct: 4 IGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPY---NTELTVRQDGD----QLLVERPS 56
Query: 65 GSRKTSAAIRTALSHVGNLITGVTKGY 91
++K A + V N + GV+ GY
Sbjct: 57 DAQKHRALHGLTRTLVANAVKGVSDGY 83
>pdb|1PNU|E Chain E, Crystal Structure Of A Streptomycin Dependent Ribosome
From Escherichia Coli, 50s Subunit Of 70s Ribosome.
This File, 1pnu, Contains Only Molecules Of The 50s
Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna,
And A-Site Trna Are In The Pdb File 1pns.
pdb|1PNY|E Chain E, Crystal Structure Of The Wild Type Ribosome From E.
Coli, 50s Subunit Of 70s Ribosome. This File, 1pny,
Contains Only Molecules Of The 50s Ribosomal Subunit.
The 30s Subunit Is In The Pdb File 1pnx.
pdb|1VOR|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOU|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOW|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOY|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VP0|H Chain H, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400
Length = 177
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 41/84 (48%), Gaps = 7/84 (8%)
Query: 8 ETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSR 67
+ + +P GV V V +V+GP+G+L+ + N + + D + +L ++ ++
Sbjct: 3 QPIAVPSGVTVNAQDGVFKVKGPKGELTVPY---NTELTVRQDGD----QLLVERPSDAQ 55
Query: 68 KTSAAIRTALSHVGNLITGVTKGY 91
K A + V N + GV+ GY
Sbjct: 56 KHRALHGLTRTLVANAVKGVSDGY 79
>pdb|3BBO|I Chain I, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 223
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/94 (22%), Positives = 47/94 (50%), Gaps = 6/94 (6%)
Query: 5 LSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWF 64
+ + + +P V + + + ++V+GP G+L+ + + L T EE+G L++
Sbjct: 46 IGKQPIAVPSNVTIALEGQDLKVKGPLGELALTYPR---EVEL-TKEESG--FLRVKKTV 99
Query: 65 GSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFV 98
+R+ + + N++ GV+KG+ K+ V
Sbjct: 100 ETRRANQMHGLFRTLTDNMVVGVSKGFEKKLILV 133
>pdb|3N3E|A Chain A, Zebrafish Alphaa Crystallin
pdb|3N3E|B Chain B, Zebrafish Alphaa Crystallin
Length = 106
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 20/34 (58%)
Query: 13 PDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFH 46
PD + VK+ +E++G G+ D +++ +FH
Sbjct: 23 PDELSVKVTDDYVEIQGKHGERQDDHGYISREFH 56
>pdb|3N7Q|A Chain A, Crystal Structure Of Human Mitochondrial Mterf Fragment
(Aa 99-399) In Complex With A 12-Mer Dna Encompassing
The Trnaleu(Uur) Binding Sequence
Length = 310
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 120 FLGEKKVR-KVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDI 175
FL EKK K+D L + S +++ VLD + L SR L+N C++ +I
Sbjct: 227 FLAEKKFNDKIDCLMEENISISQIIENPRVLDSSISTLKSRIKELVNAGCNLSTLNI 283
>pdb|3MVB|O Chain O, Crystal Structure Of A Triple Rfy Mutant Of Human Mterf1
Bound To The Termination Sequence
Length = 343
Score = 26.9 bits (58), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 120 FLGEKKVR-KVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDI 175
FL EKK K+D L + S +++ VLD + L SR L+N C++ +I
Sbjct: 269 FLAEKKFNDKIDCLMEENISISQIIENPRVLDSSISTLKSRIKELVNAGCNLSTLNI 325
>pdb|3N6S|A Chain A, Crystal Structure Of Human Mitochondrial Mterf In Complex
With A 15- Mer Dna Encompassing The Trnaleu(Uur) Binding
Sequence
Length = 353
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 120 FLGEKKVR-KVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDI 175
FL EKK K+D L + S +++ VLD + L SR L+N C++ +I
Sbjct: 270 FLAEKKFNDKIDCLMEENISISQIIENPRVLDSSISTLKSRIKELVNAGCNLSTLNI 326
>pdb|3MVA|O Chain O, Crystal Structure Of Human Mterf1 Bound To The Termination
Sequence
Length = 343
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 120 FLGEKKVR-KVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDI 175
FL EKK K+D L + S +++ VLD + L SR L+N C++ +I
Sbjct: 269 FLAEKKFNDKIDCLMEENISISQIIENPRVLDSSISTLKSRIKELVNAGCNLSTLNI 325
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
0.318 0.136 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,256,526
Number of Sequences: 62578
Number of extensions: 202449
Number of successful extensions: 611
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 559
Number of HSP's gapped (non-prelim): 37
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)