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= psy8861
(550 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VS5|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS7|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|3E1A|R Chain R, Structure Of The 30s Subunit And The Trnas Of E. Coli
Ribosome In Pre- Accommodation State
pdb|3E1C|R Chain R, Structure Of The 30s Subunit And The Trnas Of E. Coli
Ribosome In Post-Accommodation State
pdb|3I1M|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1O|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Q|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1S|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Z|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I21|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KC4|D Chain D, Ribosome-Secy Complex. This Entry 3kc4 Contains 30s
Ribosomal Subnit. The 50s Ribosomal Subunit Can Be Found
In Pdb Entry 3kcr
pdb|3OR9|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The First
70s Ribosome.
pdb|3ORA|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3IZV|H Chain H, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Small Subunit Of A Ribosome Programmed With A
Near-Cognate Codon, AT-Site Trna, P-Site Trna, Mrna And
Ef-Tu
pdb|3IZW|H Chain H, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding.This Entry Contains The
Small Subunit Of A Ribosome Programmed With A Cognate
Codon, AT-Site Trna, P-Site Trna, Mrna And Ef-Tu
pdb|3SFS|D Chain D, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOQ|D Chain D, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|4GAQ|D Chain D, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAS|D Chain D, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 206
Score = 268 bits (684), Expect = 8e-72, Method: Compositional matrix adjust.
Identities = 123/200 (61%), Positives = 157/200 (78%), Gaps = 1/200 (0%)
Query: 1 MARYIGPKAKLCRREGIDLFLKSARRSLDSKCKLDLRPGQHGRISGSRTSDYGYQFREKQ 60
MARY+GPK KL RREG DLFLKS R++D+KCK++ PGQHG R SDYG Q REKQ
Sbjct: 1 MARYLGPKLKLSRREGTDLFLKSGVRAIDTKCKIEQAPGQHG-ARKPRLSDYGVQLREKQ 59
Query: 61 KVKRMYGILEKQFRRYFIEGARLKGKTGEIILKLLESRFDNVVYRMGFSSTRSEARQLIS 120
KV+R+YG+LE+QFR Y+ E ARLKG TGE +L LLE R DNVVYRMGF +TR+EARQL+S
Sbjct: 60 KVRRIYGVLERQFRNYYKEAARLKGNTGENLLALLEGRLDNVVYRMGFGATRAEARQLVS 119
Query: 121 HRAFLVNKKIVNIASYKIKPGDIISVREKAKKQTRIANSLELSEHSTPFSWITVDAKKME 180
H+A +VN ++VNIASY++ P D++S+REKAKKQ+R+ +LEL+E +W+ VDA KME
Sbjct: 120 HKAIMVNGRVVNIASYQVSPNDVVSIREKAKKQSRVKAALELAEQREKPTWLEVDAGKME 179
Query: 181 GVFKSEPNRSEFANDINDLL 200
G FK +P RS+ + DIN+ L
Sbjct: 180 GTFKRKPERSDLSADINEHL 199
>pdb|1P6G|D Chain D, Real Space Refined Coordinates Of The 30s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P87|D Chain D, Real Space Refined Coordinates Of The 30s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AVY|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2AW7|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 30s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes And Is
Described In Remark 400.
pdb|2I2P|D Chain D, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2U|D Chain D, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QOU|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 30s Subunit Of The First 70s Ribosome,
With Spectinomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|2QOW|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 30s Subunit Of The Second 70s
Ribosome, With Spectinomycin Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2QOY|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 30s Subunit Of The
First 70s Ribosome, With Spectinomycin And Neomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QP0|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome, With Spectinomycin And Neomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QAL|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Neomycin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QAN|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QB9|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Gentamicin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBB|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBD|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 30s Subunit Of The
First 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBF|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 30s Subunit Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBH|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 30s
Subunit Of The First 70s Ribosome, With Gentamicin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBJ|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 30s
Subunit Of The Second 70s Ribosome, With Gentamicin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4K|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
30s Subunit Of The First 70s Ribosome, With Paromomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4M|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
30s Subunit Of The Second 70s Ribosome, With Paromomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2VHO|D Chain D, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 3 Of 4)
pdb|2VHP|D Chain D, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 4 Of 4)
pdb|3DF1|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Hygromycin B Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3DF3|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Hygromycin B Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3FIH|D Chain D, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 30s Subunit, Trnas And The Ternary
Complex.
pdb|2WWL|D Chain D, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 30s, The P-Site
Trna And The Tnac Leader Peptide (Part 1 Of 2).
pdb|3OFO|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OFP|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3OFA|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 30s Subunit Of
The First 70s Ribosome.
pdb|3OFB|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 30s Subunit Of
The Second 70s Ribosome.
pdb|3OFX|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OFY|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome
pdb|3OAQ|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OAR|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3J00|D Chain D, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|2YKR|D Chain D, 30s Ribosomal Subunit With Rsga Bound In The Presence Of
Gmppnp
pdb|4A2I|D Chain D, Cryo-Electron Microscopy Structure Of The 30s Subunit In
Complex With The Yjeq Biogenesis Factor
pdb|4ADV|D Chain D, Structure Of The E. Coli Methyltransferase Ksga Bound To
The E. Coli 30s Ribosomal Subunit
pdb|3J0U|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0V|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0X|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J0Z|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J10|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 6 Of The Six
Classes)
pdb|3J13|F Chain F, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J18|D Chain D, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(30s Subunit)
pdb|4GD1|D Chain D, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|4GD2|D Chain D, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
Length = 205
Score = 265 bits (677), Expect = 5e-71, Method: Compositional matrix adjust.
Identities = 122/199 (61%), Positives = 156/199 (78%), Gaps = 1/199 (0%)
Query: 2 ARYIGPKAKLCRREGIDLFLKSARRSLDSKCKLDLRPGQHGRISGSRTSDYGYQFREKQK 61
ARY+GPK KL RREG DLFLKS R++D+KCK++ PGQHG R SDYG Q REKQK
Sbjct: 1 ARYLGPKLKLSRREGTDLFLKSGVRAIDTKCKIEQAPGQHG-ARKPRLSDYGVQLREKQK 59
Query: 62 VKRMYGILEKQFRRYFIEGARLKGKTGEIILKLLESRFDNVVYRMGFSSTRSEARQLISH 121
V+R+YG+LE+QFR Y+ E ARLKG TGE +L LLE R DNVVYRMGF +TR+EARQL+SH
Sbjct: 60 VRRIYGVLERQFRNYYKEAARLKGNTGENLLALLEGRLDNVVYRMGFGATRAEARQLVSH 119
Query: 122 RAFLVNKKIVNIASYKIKPGDIISVREKAKKQTRIANSLELSEHSTPFSWITVDAKKMEG 181
+A +VN ++VNIASY++ P D++S+REKAKKQ+R+ +LEL+E +W+ VDA KMEG
Sbjct: 120 KAIMVNGRVVNIASYQVSPNDVVSIREKAKKQSRVKAALELAEQREKPTWLEVDAGKMEG 179
Query: 182 VFKSEPNRSEFANDINDLL 200
FK +P RS+ + DIN+ L
Sbjct: 180 TFKRKPERSDLSADINEHL 198
>pdb|2GY9|D Chain D, Structure Of The 30s 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|2GYB|D Chain D, Structure Of The 30s 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 = 204
Score = 263 bits (672), Expect = 2e-70, Method: Compositional matrix adjust.
Identities = 121/198 (61%), Positives = 155/198 (78%), Gaps = 1/198 (0%)
Query: 3 RYIGPKAKLCRREGIDLFLKSARRSLDSKCKLDLRPGQHGRISGSRTSDYGYQFREKQKV 62
RY+GPK KL RREG DLFLKS R++D+KCK++ PGQHG R SDYG Q REKQKV
Sbjct: 1 RYLGPKLKLSRREGTDLFLKSGVRAIDTKCKIEQAPGQHG-ARKPRLSDYGVQLREKQKV 59
Query: 63 KRMYGILEKQFRRYFIEGARLKGKTGEIILKLLESRFDNVVYRMGFSSTRSEARQLISHR 122
+R+YG+LE+QFR Y+ E ARLKG TGE +L LLE R DNVVYRMGF +TR+EARQL+SH+
Sbjct: 60 RRIYGVLERQFRNYYKEAARLKGNTGENLLALLEGRLDNVVYRMGFGATRAEARQLVSHK 119
Query: 123 AFLVNKKIVNIASYKIKPGDIISVREKAKKQTRIANSLELSEHSTPFSWITVDAKKMEGV 182
A +VN ++VNIASY++ P D++S+REKAKKQ+R+ +LEL+E +W+ VDA KMEG
Sbjct: 120 AIMVNGRVVNIASYQVSPNDVVSIREKAKKQSRVKAALELAEQREKPTWLEVDAGKMEGT 179
Query: 183 FKSEPNRSEFANDINDLL 200
FK +P RS+ + DIN+ L
Sbjct: 180 FKRKPERSDLSADINEHL 197
>pdb|1FKA|D Chain D, Structure Of Functionally Activated Small Ribosomal
Subunit At 3.3 A Resolution
pdb|1HNW|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1HNZ|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1IBK|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1IBL|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site And With The Antibiotic Paromomycin
pdb|1IBM|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site
pdb|1XMO|D Chain D, Crystal Structure Of Mnm5u34t6a37-Trnalysuuu Complexed
With Aag-Mrna In The Decoding Center
pdb|1XMQ|D Chain D, Crystal Structure Of T6a37-Asllysuuu Aaa-Mrna Bound To The
Decoding Center
pdb|1XNQ|D Chain D, Structure Of An Inosine-Adenine Wobble Base Pair Complex
In The Context Of The Decoding Center
pdb|1XNR|D Chain D, Crystal Structure Of An Inosine-Cytosine Wobble Base Pair
In The Context Of The Decoding Center
pdb|1YL4|G Chain G, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. 30s Subunit. The Coordinates For The 50s Subunit
Are In The Pdb Entry 1yl3
pdb|2B64|D Chain D, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf1
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Subunit, Trnas, Mrna And
Release Factor Rf1 From A Crystal Structure Of The Whole
Ribosomal Complex". The Entire Crystal Structure
Contains One 70s Ribosome, Trnas, Mrna And Release
Factor Rf1 And Is Described In Remark 400.
pdb|2B9M|D Chain D, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Ribosomal Subunit, Trnas,
Mrna And Release Factor Rf2 From A Crystal Structure Of
The Whole Ribosomal Complex". The Entire Crystal
Structure Contains One 70s Ribosome, Trnas, Mrna And
Release Factor Rf2 And Is Described In Remark 400.
pdb|2B9O|D Chain D, 30s Ribosomal Subunit, Trnas And Mrna From A Crystal
Structure Of The Whole Ribosomal Complex With A Stop
Codon In The A-Site. This File Contains The 30s Subunit,
Trnas And Mrna From A Crystal Structure Of The Whole
Ribosomal Complex With A Stop Codon In The A-Site And Is
Described In Remark 400.
pdb|2HHH|D Chain D, Crystal Structure Of Kasugamycin Bound To The 30s
Ribosomal Subunit
pdb|2J00|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 1 Of 4).
This File Contains The 30s Subunit, Mrna, A-, P- And
E-Site Trnas And Paromomycin For Molecule I.
pdb|2J02|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 3 Of 4)
This File Contains The 30s Subunit, Mrna, A-, P- And
E-Site Trnas And Paromomycin For Molecule Ii.
pdb|2HGI|G Chain G, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgi Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgj.
pdb|2HGP|G Chain G, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgp Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgq.
pdb|2HGR|G Chain G, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgr Contains 30s
Ribosomal Subunit. The 50s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgu.
pdb|2OW8|EE Chain e, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
2ow8, Contains The 30s Ribosome Subunit, Two Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File
1vsa.
pdb|2UU9|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-asl With Cmo5u In
Position 34 Bound To An Mrna With A Gug-codon In The
A-site And Paromomycin.
pdb|2UUA|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-Asl With Cmo5u In
Position 34 Bound To An Mrna With A Guc-Codon In The
A-Site And Paromomycin.
pdb|2UUB|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-Asl With Cmo5u In
Position 34 Bound To An Mrna With A Guu-Codon In The
A-Site And Paromomycin.
pdb|2UUC|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-asl With Cmo5u In
Position 34 Bound To An Mrna With A Gua-codon In The
A-site And Paromomycin.
pdb|2UXC|D Chain D, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Ucgu In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2UXB|D Chain D, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Gggu In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2V46|D Chain D, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 1 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 1.
pdb|2V48|D Chain D, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 3 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 2.
pdb|2UXD|D Chain D, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Cggg In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2QNH|EE Chain e, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 2qnh, Contains The 30s
Ribosome Subunit, Two Trna, And Mrna Molecules. 50s
Ribosome Subunit Is In The File 1vsp.
pdb|2VQE|D Chain D, Modified Uridines With C5-methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-g
Wobble Pairing During Decoding
pdb|2VQF|D Chain D, Modified Uridines With C5-Methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-G
Wobble Pairing During Decoding
pdb|2ZKQ|DD Chain d, Structure Of A Mammalian Ribosomal 40s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
pdb|3D5A|D Chain D, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of One 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes As Described In Remark 400.
pdb|3D5C|D Chain D, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3F1E|D Chain D, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of One
70s Ribosome. The Entire Crystal Structure Contains Two
70s Ribosomes As Described In Remark 400.
pdb|3F1G|D Chain D, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|2WDG|D Chain D, 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 30s Subunit A-,P-, And E-Site Trnas And
Paromomycin For Molecule I.
pdb|2WDH|D Chain D, 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 30s Subunit A-,P-, And E-Site Trnas And
Paromomycin For Molecule Ii.
pdb|2WDK|D Chain D, 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 30s
Subunit A-,P-, And E-Site Trnas And Paromomycin For
Molecule I.
pdb|2WDM|D Chain D, 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 30s
Subunit A-,P-, And E-Site Trnas And Paromomycin For
Molecule Ii.
pdb|2WH1|D Chain D, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH3|D Chain D, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome). This File Contains The
30s Subunit.
pdb|3HUW|D Chain D, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For
Molecule I.
pdb|3HUY|D Chain D, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For
Molecule Ii.
pdb|2WRI|D Chain D, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 1 Of 4).
pdb|2WRK|D Chain D, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 3 Of 4).
pdb|2WRN|D Chain D, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 1 Of 4).
pdb|2WRQ|D Chain D, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 3 Of 4).
pdb|3KIQ|DD Chain d, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 1 Of 4)
pdb|3KIS|DD Chain d, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 3 Of 4)
pdb|3KIU|DD Chain d, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 1 Of 4)
pdb|3KIX|DD Chain d, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 3 Of 4)
pdb|3KNH|D Chain D, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 30s Subunit For Molecule I
pdb|3KNJ|D Chain D, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 30s Subunit For Molecule Ii'
pdb|3KNL|D Chain D, The Structures Of Capreomycin Bound To The 70s Ribosome.
This File Contains The 30s Subunit For Molecule I
pdb|3KNN|D Chain D, The Structures Of Capreomycin Bound To The 70s Ribosome.
This File Contains The 30s Subunit For Molecule Ii
pdb|3I8G|G Chain G, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8g Contains 30s Ribosomal Subnit.The 50s
Ribosomal Can Be Found In Pdb Entry 3i8f. Molecule B In
The Same Asym Unit Is Deposited As 3i8g (30s) And 3i8f
(50s).
pdb|3I8H|G Chain G, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8h Contains 30s Ribosomal Subnit. The 50s
Ribosomal Can Be Found In Pdb Entry 3i8i. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|3I9B|G Chain G, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9b Contains 30s Ribosomal Subunit Of Molecule B.
The 50s Subunit Can Be Found In Pdb Entry 3i9c. Molecule
A In The S Asymmetric Unit Is Deposited As 3i9d (30s)
And 3i9e (50s)
pdb|3I9D|G Chain G, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9d Contains 30s Ribosomal Subunit Of Molecule A.
The 50s Subunit Can Be Found In Pdb Entry 3i9e. Molecule
B In The S Asymmetric Unit Is Deposited As 3i9b (30s)
And 3i9c (50s)
pdb|2X9R|D Chain D, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9T|D Chain D, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2XFZ|D Chain D, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 1 Of 4)
pdb|2XG1|D Chain D, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 3 Of 4)
pdb|3OTO|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From A Ksga
Mutant Of Thermus Thermophilus (Hb8)
pdb|3OGE|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed
With Chloramphenicol. This File Contains The 30s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OGY|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed
With Chloramphenicol. This File Contains The 30s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OHC|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 30s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHD|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 30s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHY|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI0|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI2|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI4|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2XQD|D Chain D, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
pdb|2XSY|D Chain D, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUY|D Chain D, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|2Y0U|D Chain D, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0W|D Chain D, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Y|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y10|D Chain D, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y12|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y14|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y16|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y18|D Chain D, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|3ZVO|D Chain D, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|3T1H|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aaa-Codon In The A-Site And Paromomycin
pdb|3T1Y|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aag-Codon In The A-Site And Paromomycin
pdb|3UXS|D Chain D, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UXT|D Chain D, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.'
pdb|4ABR|D Chain D, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
pdb|4DH9|D Chain D, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|4DHB|D Chain D, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|3V22|D Chain D, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Rmf Of The 1st Ribosome In The Asu
pdb|3V24|D Chain D, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Rmf Of The 2nd Ribosome In The Asu
pdb|3V26|D Chain D, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Hpf Of The 1st Ribosome In The Asu
pdb|3V28|D Chain D, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Hpf Of The 2nd Ribosome In The Asu
pdb|3V2C|D Chain D, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Yfia Of The 1st Ribosome In The Asu
pdb|3V2E|D Chain D, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Yfia Of The 2nd Ribosome In The Asu
pdb|4DR1|D Chain D, Crystal Structure Of The Apo 30s Ribosomal Subunit From
Thermus Thermophilus (hb8)
pdb|4DR2|D Chain D, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Multiple Copies Of Paromomycin
Molecules Bound
pdb|4DR3|D Chain D, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Streptomycin Bound
pdb|4DR4|D Chain D, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Cognate Transfer Rna
Anticodon Stem-loop And Multiple Copies Of Paromomycin
Molecules Bound
pdb|4DR5|D Chain D, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Crystallographically
Disordered Cognate Transfer Rna Anticodon Stem-loop And
Streptomycin Bound
pdb|4DR6|D Chain D, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Near-cognate Transfer Rna
Anticodon Stem-loop Mismatched At The First Codon
Position And Streptomycin Bound
pdb|4DR7|D Chain D, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Crystallographically
Disordered Near-cognate Transfer Rna Anticodon Stem-loop
Mismatched At The Second Codon Position, And
Streptomycin Bound
pdb|4DUY|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U13c
pdb|4DUZ|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U13c, Bound
With Streptomycin
pdb|4DV0|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U20g
pdb|4DV1|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U20g, Bound
With Streptomycin
pdb|4DV2|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, C912a
pdb|4DV3|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, C912a, Bound
With Streptomycin
pdb|4DV4|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A914g
pdb|4DV5|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A914g, Bound
With Streptomycin
pdb|4DV6|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A915g
pdb|4DV7|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A915g, Bound
With Streptomycin
Length = 209
Score = 183 bits (465), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 92/203 (45%), Positives = 131/203 (64%), Gaps = 4/203 (1%)
Query: 1 MARYIGPKAKLCRREGIDLFLKSARRSLDSKCKLDLRP---GQHGRISGSRTSDYGYQFR 57
M RYIGP +LCRREG+ L+LK R KC ++ RP GQHG+ R SDY + R
Sbjct: 1 MGRYIGPVCRLCRREGVKLYLKGER-CYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLR 59
Query: 58 EKQKVKRMYGILEKQFRRYFIEGARLKGKTGEIILKLLESRFDNVVYRMGFSSTRSEARQ 117
EKQK++R+YGI E+QFR F E ++ KG TG + L LLESR DNVVYR+GF+ +R +ARQ
Sbjct: 60 EKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQ 119
Query: 118 LISHRAFLVNKKIVNIASYKIKPGDIISVREKAKKQTRIANSLELSEHSTPFSWITVDAK 177
L+ H VN + V++ SY+++PGD I+V EK++ I +LE + W+++D +
Sbjct: 120 LVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVE 179
Query: 178 KMEGVFKSEPNRSEFANDINDLL 200
M+G F P+R + A +N+ L
Sbjct: 180 GMKGKFLRLPDREDLALPVNEQL 202
>pdb|1I94|D Chain D, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I95|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
pdb|1I96|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|1J5E|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1N32|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The First Codon
Position At The A Site With Paromomycin
pdb|1N33|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The Second Codon
Position At The A Site With Paromomycin
pdb|1N34|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Codon And
Crystallographically Disordered Near-Cognate Transfer
Rna Anticodon Stem-Loop Mismatched At The First Codon
Position
pdb|1N36|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Crystallographically
Disordered Codon And Near-cognate Transfer Rna Anticodon
Stem-loop Mismatched At The Second Codon Position
pdb|1PNS|D Chain D, Crystal Structure Of A Streptomycin Dependent Ribosome
From E. Coli, 30s Subunit Of 70s Ribosome. This File,
1pns, Contains The 30s Subunit, Two Trnas, And One Mrna
Molecule. The 50s Ribosomal Subunit Is In File 1pnu.
pdb|1PNX|D Chain D, Crystal Structure Of The Wild Type Ribosome From E. Coli,
30s Subunit Of 70s Ribosome. This File, 1pnx, Contains
Only Molecules Of The 30s Ribosomal Subunit. The 50s
Subunit Is In The Pdb File 1pny.
pdb|1VOQ|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOS|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOV|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOX|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOZ|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|2E5L|D Chain D, A Snapshot Of The 30s Ribosomal Subunit Capturing Mrna Via
The Shine- Dalgarno Interaction
pdb|3FIC|D Chain D, 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 30s Subunit
And The Ligands
pdb|2ZM6|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit
pdb|3MR8|D Chain D, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3mr8 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3ms1.
Molecule B In The Same Asymmetric Unit Is Deposited As
3mrz (50s) And 3ms0 (30s).
pdb|3MS0|D Chain D, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3ms0 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3mrz.
Molecule A In The Same Asymmetric Unit Is Deposited As
3mr8 (30s) And 3ms1 (50s).
pdb|3PYN|D Chain D, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 30s Subunit Of The First 70s Ribosome.
pdb|3PYQ|D Chain D, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 30s Subunit Of The Second 70s
Ribosome.
pdb|3PYS|D Chain D, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 30s Subunit Of The First 70s Ribosome.
pdb|3PYU|D Chain D, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 30s Subunit Of The Second 70s Ribosome.
pdb|3TVF|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3TVG|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3UYD|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UYF|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UZ3|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ4|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ6|G Chain G, Structure Analysis Of Ribosomal Decoding. This Entry
Contains The 30s Ribosomal Subunit Of The First 70s
Molecule In The Asymmetric Unit For The Cognate Trna-Tyr
Complex
pdb|3UZ7|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZG|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZI|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZL|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex With Paromomycin
pdb|3UZM|G Chain G, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-cognate
Trna-tyr Complex With Paromomycin
pdb|4AQY|D Chain D, Structure Of Ribosome-Apramycin Complexes
pdb|4G5K|G Chain G, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 30s Subunit Of Molecule A.
pdb|4G5M|G Chain G, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 30s Subunit Of Molecule B.
pdb|4G5T|G Chain G, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 30s Subunit Of Molecule A.
pdb|4G5V|G Chain G, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 30s Subunit Of Molecule B
Length = 208
Score = 181 bits (458), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 91/202 (45%), Positives = 130/202 (64%), Gaps = 4/202 (1%)
Query: 2 ARYIGPKAKLCRREGIDLFLKSARRSLDSKCKLDLRP---GQHGRISGSRTSDYGYQFRE 58
RYIGP +LCRREG+ L+LK R KC ++ RP GQHG+ R SDY + RE
Sbjct: 1 GRYIGPVCRLCRREGVKLYLKGER-CYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLRE 59
Query: 59 KQKVKRMYGILEKQFRRYFIEGARLKGKTGEIILKLLESRFDNVVYRMGFSSTRSEARQL 118
KQK++R+YGI E+QFR F E ++ KG TG + L LLESR DNVVYR+GF+ +R +ARQL
Sbjct: 60 KQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQL 119
Query: 119 ISHRAFLVNKKIVNIASYKIKPGDIISVREKAKKQTRIANSLELSEHSTPFSWITVDAKK 178
+ H VN + V++ SY+++PGD I+V EK++ I +LE + W+++D +
Sbjct: 120 VRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVEG 179
Query: 179 MEGVFKSEPNRSEFANDINDLL 200
M+G F P+R + A +N+ L
Sbjct: 180 MKGKFLRLPDREDLALPVNEQL 201
>pdb|1FJG|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin, And Paromomycin
pdb|1HR0|D Chain D, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1GIX|G Chain G, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1gix, Contains The 30s Ribosome Subunit,
Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is
In The File 1giy
pdb|1JGO|G Chain G, The Path Of Messenger Rna Through The Ribosome. This File,
1jgo, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGP|G Chain G, The Path Of Messenger Rna Through The Ribosome. This File,
1jgp, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGQ|G Chain G, The Path Of Messenger Rna Through The Ribosome. This File,
1jgq, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1ML5|G Chain G, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|2F4V|D Chain D, 30s Ribosome + Designer Antibiotic
Length = 209
Score = 180 bits (457), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 91/203 (44%), Positives = 130/203 (64%), Gaps = 4/203 (1%)
Query: 1 MARYIGPKAKLCRREGIDLFLKSARRSLDSKCKLDLRP---GQHGRISGSRTSDYGYQFR 57
M RYIGP +LCRREG+ L+LK R KC ++ RP GQHG+ R SDY + R
Sbjct: 1 MGRYIGPVCRLCRREGVKLYLKGER-CYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLR 59
Query: 58 EKQKVKRMYGILEKQFRRYFIEGARLKGKTGEIILKLLESRFDNVVYRMGFSSTRSEARQ 117
EKQK++R+YGI E+QFR F E ++ KG TG + L LLESR DNVVYR+GF+ +R +ARQ
Sbjct: 60 EKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQ 119
Query: 118 LISHRAFLVNKKIVNIASYKIKPGDIISVREKAKKQTRIANSLELSEHSTPFSWITVDAK 177
L+ H VN + V++ SY+++PGD I+V EK++ I +LE + W+++D +
Sbjct: 120 LVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVE 179
Query: 178 KMEGVFKSEPNRSEFANDINDLL 200
M+G F P+R + A + + L
Sbjct: 180 GMKGKFLRLPDREDLALPVQENL 202
>pdb|1P85|L Chain L, 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|L Chain L, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, Model Of E. Coli Srp Bound To 70s Rncs
pdb|2QOV|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 1 Of 4)
pdb|2VHN|N Chain N, Structure Of Pdf Binding Helix In Complex With The
Ribosome. (Part 2 Of 4)
pdb|2RDO|N Chain N, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|3DF2|N Chain N, 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|N Chain N, 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|N Chain N, The Hsp15 Protein Fitted Into The Low Resolution Cryo-Em
Map 50s.Nc-Trna.Hsp15 Complex
pdb|3E1B|G Chain G, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|G Chain G, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
pdb|3I1N|N Chain N, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1P|N Chain N, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1R|N Chain N, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1T|N Chain N, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I20|N Chain N, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I22|N Chain N, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KCR|N Chain N, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found
In Pdb Entry 3kc4
pdb|1VT2|N Chain N, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3ORB|N Chain N, 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|O Chain O, 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|O Chain O, 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|N Chain N, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3SGF|R Chain R, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOS|R Chain R, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|3J0T|P Chain P, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|P Chain P, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|P Chain P, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|P Chain P, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|P Chain P, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|P Chain P, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
pdb|4GAR|N Chain N, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAU|N Chain N, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 127
Score = 166 bits (420), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 77/120 (64%), Positives = 98/120 (81%)
Query: 430 MRHRHGFRKLNRTSSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKNTL 489
MRHR R+LNR SSHR M RNM SL+R+EIIKTTLPKAKELRRVVEP++TL+K +++
Sbjct: 1 MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSV 60
Query: 490 SNKRLAFSYLRDRKITIKLFSELGPRYIKINGGYVRILKMGFRVGDNAPMAFIELLNQTK 549
+N+RLAF+ RD +I KLF+ELGPR+ GGY RILK GFR GDNAPMA+IEL+++++
Sbjct: 61 ANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRSE 120
>pdb|3FIK|N Chain N, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|2WWQ|N Chain N, 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|N Chain N, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OFR|N Chain N, 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|N Chain N, 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|N Chain N, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OFZ|N Chain N, 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|N Chain N, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAS|N Chain N, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAT|N Chain N, 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|N Chain N, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3R8T|N Chain N, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3J19|N Chain N, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(50s Subunit)
Length = 120
Score = 164 bits (416), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 77/120 (64%), Positives = 98/120 (81%)
Query: 430 MRHRHGFRKLNRTSSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKNTL 489
MRHR R+LNR SSHR M RNM SL+R+EIIKTTLPKAKELRRVVEP++TL+K +++
Sbjct: 1 MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSV 60
Query: 490 SNKRLAFSYLRDRKITIKLFSELGPRYIKINGGYVRILKMGFRVGDNAPMAFIELLNQTK 549
+N+RLAF+ RD +I KLF+ELGPR+ GGY RILK GFR GDNAPMA+IEL+++++
Sbjct: 61 ANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRSE 120
>pdb|3IYD|A Chain A, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3IYD|B Chain B, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3LU0|A Chain A, Molecular Model Of Escherichia Coli Core Rna Polymerase
pdb|3LU0|B Chain B, Molecular Model Of Escherichia Coli Core Rna Polymerase
pdb|4IGC|A Chain A, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|B Chain B, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|F Chain F, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|G Chain G, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 329
Score = 163 bits (413), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 76/142 (53%), Positives = 103/142 (72%)
Query: 196 INDLLKPRIIDVKTLGSNHAKVIMEPFERGYGYTLGNALRRVLLSSMIGCAPTEVIISGA 255
+ + LKPR++D++ + S HAKV +EP ERG+G+TLGNALRR+LLSSM GCA TEV I G
Sbjct: 5 VTEFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 64
Query: 256 LHEYSSLEGVQEDIIDIILNLKGVILKLYNRDYAILNLKKFGKCVVLASDIELLSDIELV 315
LHEYS+ EGVQEDI++I+LNLKG+ +++ +D IL L K G V A+DI D+E+V
Sbjct: 65 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIV 124
Query: 316 NPNHIIAHLSDNEEAIRQSARV 337
P H+I HL+D +I +V
Sbjct: 125 KPQHVICHLTDENASISMRIKV 146
Score = 127 bits (319), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 65/101 (64%), Positives = 79/101 (78%), Gaps = 1/101 (0%)
Query: 326 DNEEAIRQSARVLVDQLNVFAALENTPVKKELDSSLEKVDPILLRPVDDLELTVRSANCL 385
D EEAIR++A +L +QL F L + + E+ + DPILLRPVDDLELTVRSANCL
Sbjct: 212 DPEEAIRRAATILAEQLEAFVDLRDV-RQPEVKEEKPEFDPILLRPVDDLELTVRSANCL 270
Query: 386 KAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILASRG 426
KAE IH IGDL+QR+E ELL+TPNLG+KSL EIK++LASRG
Sbjct: 271 KAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRG 311
>pdb|1BDF|A Chain A, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|B Chain B, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|C Chain C, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|D Chain D, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
Length = 235
Score = 160 bits (406), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 75/142 (52%), Positives = 102/142 (71%)
Query: 196 INDLLKPRIIDVKTLGSNHAKVIMEPFERGYGYTLGNALRRVLLSSMIGCAPTEVIISGA 255
+ + LKPR++D++ + S HAKV +EP ERG+G+TLGNALR +LLSSM GCA TEV I G
Sbjct: 5 VTEFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRAILLSSMPGCAVTEVEIDGV 64
Query: 256 LHEYSSLEGVQEDIIDIILNLKGVILKLYNRDYAILNLKKFGKCVVLASDIELLSDIELV 315
LHEYS+ EGVQEDI++I+LNLKG+ +++ +D IL L K G V A+DI D+E+V
Sbjct: 65 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIV 124
Query: 316 NPNHIIAHLSDNEEAIRQSARV 337
P H+I HL+D +I +V
Sbjct: 125 KPQHVICHLTDENASISMRIKV 146
>pdb|2GYA|L Chain L, 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|L Chain L, 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 = 114
Score = 159 bits (401), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 75/114 (65%), Positives = 92/114 (80%)
Query: 432 HRHGFRKLNRTSSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKNTLSN 491
HR R+LNR SSHR M RNM SL+R+EIIKTTLPKAKELRRVVEP++TL+K ++++N
Sbjct: 1 HRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSVAN 60
Query: 492 KRLAFSYLRDRKITIKLFSELGPRYIKINGGYVRILKMGFRVGDNAPMAFIELL 545
+RLAF+ RD +I KLF+ELGPR+ GGY RILK GFR GDNAPMA+IEL+
Sbjct: 61 RRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELV 114
>pdb|1QD7|C Chain C, Partial Model For 30s Ribosomal Subunit
pdb|1EG0|A Chain A, Fitting Of Components With Known Structure Into An 11.5 A
Cryo-Em Map Of The E.Coli 70s Ribosome
pdb|1C05|A Chain A, Solution Structure Of Ribosomal Protein S4 Delta 41,
Refined With Dipolar Couplings (Minimized Average
Structure)
pdb|1C06|A Chain A, Solution Structure Of Ribosomal Protein S4 Delta 41,
Refined With Dipolar Couplings (Ensemble Of 16
Structures)
Length = 159
Score = 142 bits (357), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 69/151 (45%), Positives = 101/151 (66%), Gaps = 2/151 (1%)
Query: 50 SDYGYQFREKQKVKRMYGILEKQFRRYFIEGARLKGKTGEIILKLLESRFDNVVYRMGFS 109
S+YG Q +EKQK++ MYG+ E+QFR+ F E ++ GK GE + LLESR DN+VYR+G +
Sbjct: 4 SEYGLQLQEKQKLRHMYGVNERQFRKTFEEAGKMPGKHGENFMILLESRLDNLVYRLGLA 63
Query: 110 STRSEARQLISHRAFLVNKKIVNIASYKIKPGDIISVREKAKKQTRIANSLELSEHSTPF 169
TR +ARQL++H LV+ VNI SY++KPG I+VREK++ I +LE + +
Sbjct: 64 RTRRQARQLVTHGHILVDGSRVNIPSYRVKPGQTIAVREKSRNLQVIKEALEANNYIP-- 121
Query: 170 SWITVDAKKMEGVFKSEPNRSEFANDINDLL 200
+++ D +KMEG + P RSE +IN+ L
Sbjct: 122 DYLSFDPEKMEGTYTRLPERSELPAEINEAL 152
>pdb|3BBN|D Chain D, Homology Model For The Spinach Chloroplast 30s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 201
Score = 115 bits (287), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 72/200 (36%), Positives = 107/200 (53%), Gaps = 8/200 (4%)
Query: 1 MARYIGPKAKLCRREGIDLFLKSARRSLDSKCKLDLRPGQHGRISGSRTSDYGYQFREKQ 60
M+RY GP+ K RR G L + R S + R G+ S Y + EKQ
Sbjct: 1 MSRYRGPRFKKIRRLGALPGLTNKRPRAGSDLRNQSRSGKR--------SQYRIRLEEKQ 52
Query: 61 KVKRMYGILEKQFRRYFIEGARLKGKTGEIILKLLESRFDNVVYRMGFSSTRSEARQLIS 120
K++ YGI E+Q +Y + KG TG+++L+LLE R DN+++R+G + T ARQL++
Sbjct: 53 KLRFHYGITERQLLKYVRIARKAKGSTGQVLLQLLEMRLDNILFRLGMAPTIPGARQLVN 112
Query: 121 HRAFLVNKKIVNIASYKIKPGDIISVREKAKKQTRIANSLELSEHSTPFSWITVDAKKME 180
HR LVN +IV+I SY+ KP D I R++ K I NSL+LS +T++ +
Sbjct: 113 HRHILVNGRIVDIPSYRCKPQDTIMARDEQKSIALIQNSLDLSPREELPKHLTLNPFPYK 172
Query: 181 GVFKSEPNRSEFANDINDLL 200
G+ + IN+LL
Sbjct: 173 GLVNQIIDSKWVGLKINELL 192
>pdb|1LB2|B Chain B, Structure Of The E. Coli Alpha C-Terminal Domain Of Rna
Polymerase In Complex With Cap And Dna
pdb|1LB2|E Chain E, Structure Of The E. Coli Alpha C-Terminal Domain Of Rna
Polymerase In Complex With Cap And Dna
pdb|3N4M|B Chain B, E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain In
Complex With Cap And Dna
pdb|3N4M|C Chain C, E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain In
Complex With Cap And Dna
pdb|3N97|B Chain B, Rna Polymerase Alpha C-Terminal Domain (E. Coli) And Sigma
Region 4 (T. Aq. Mutant) Bound To (Up,-35 Element) Dna
pdb|3N97|C Chain C, Rna Polymerase Alpha C-Terminal Domain (E. Coli) And Sigma
Region 4 (T. Aq. Mutant) Bound To (Up,-35 Element) Dna
Length = 84
Score = 110 bits (274), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 52/62 (83%), Positives = 58/62 (93%)
Query: 365 DPILLRPVDDLELTVRSANCLKAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILAS 424
DPILLRPVDDLELTVRSANCLKAE IH IGDL+QR+E ELL+TPNLG+KSL EIK++LAS
Sbjct: 5 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 64
Query: 425 RG 426
RG
Sbjct: 65 RG 66
>pdb|1XS9|D Chain D, A Model Of The Ternary Complex Formed Between Mara, The
Alpha-Ctd Of Rna Polymerase And Dna
Length = 84
Score = 109 bits (273), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 52/62 (83%), Positives = 58/62 (93%)
Query: 365 DPILLRPVDDLELTVRSANCLKAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILAS 424
DPILLRPVDDLELTVRSANCLKAE IH IGDL+QR+E ELL+TPNLG+KSL EIK++LAS
Sbjct: 5 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 64
Query: 425 RG 426
RG
Sbjct: 65 RG 66
>pdb|1COO|A Chain A, The Cooh-Terminal Domain Of Rna Polymerase Alpha Subunit
Length = 98
Score = 109 bits (273), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 52/62 (83%), Positives = 58/62 (93%)
Query: 365 DPILLRPVDDLELTVRSANCLKAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILAS 424
DPILLRPVDDLELTVRSANCLKAE IH IGDL+QR+E ELL+TPNLG+KSL EIK++LAS
Sbjct: 19 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 78
Query: 425 RG 426
RG
Sbjct: 79 RG 80
>pdb|2JZB|A Chain A, Solution Structure Of The Complex Between E.Coli Nusa-Ar2
And Rnap-Actd
Length = 99
Score = 109 bits (273), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 52/62 (83%), Positives = 58/62 (93%)
Query: 365 DPILLRPVDDLELTVRSANCLKAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILAS 424
DPILLRPVDDLELTVRSANCLKAE IH IGDL+QR+E ELL+TPNLG+KSL EIK++LAS
Sbjct: 20 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 79
Query: 425 RG 426
RG
Sbjct: 80 RG 81
>pdb|1IW7|A Chain A, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1IW7|B Chain B, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1IW7|K Chain K, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1IW7|L Chain L, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1SMY|A Chain A, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1SMY|B Chain B, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1SMY|K Chain K, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1SMY|L Chain L, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1ZYR|A Chain A, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|1ZYR|B Chain B, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|1ZYR|K Chain K, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|1ZYR|L Chain L, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|2A68|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A68|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A68|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A68|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A69|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A69|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A69|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A69|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A6E|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6E|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6E|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6E|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6H|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2A6H|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2A6H|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2A6H|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2CW0|A Chain A, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2CW0|B Chain B, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2CW0|K Chain K, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2CW0|L Chain L, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2BE5|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2BE5|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2BE5|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2BE5|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2O5I|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5I|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5I|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5I|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5J|A Chain A, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2O5J|B Chain B, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2O5J|K Chain K, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2O5J|L Chain L, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2PPB|A Chain A, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|2PPB|B Chain B, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|2PPB|K Chain K, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|2PPB|L Chain L, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|3DXJ|A Chain A, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3DXJ|B Chain B, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3DXJ|K Chain K, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3DXJ|L Chain L, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3EQL|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3EQL|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3EQL|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3EQL|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3AOH|A Chain A, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|B Chain B, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|F Chain F, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|G Chain G, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|K Chain K, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|L Chain L, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOI|A Chain A, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|B Chain B, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|F Chain F, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|G Chain G, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|K Chain K, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|L Chain L, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|4G7H|A Chain A, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7H|B Chain B, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7H|K Chain K, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7H|L Chain L, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7O|A Chain A, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7O|B Chain B, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7O|K Chain K, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7O|L Chain L, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7Z|A Chain A, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4G7Z|B Chain B, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4G7Z|K Chain K, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4G7Z|L Chain L, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4GZY|A Chain A, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
pdb|4GZY|B Chain B, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
pdb|4GZZ|A Chain A, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
pdb|4GZZ|B Chain B, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
Length = 315
Score = 108 bits (271), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 60/144 (41%), Positives = 90/144 (62%), Gaps = 5/144 (3%)
Query: 200 LKPRIIDVKTLGSNHAKVIMEPFERGYGYTLGNALRRVLLSSMIGCAPTEVIISGALHEY 259
LK + V+T G + + ++EP ERG+G TLGN LRR+LLSS+ G A T V I LHE+
Sbjct: 6 LKAPVFTVRTQGREYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEF 65
Query: 260 SSLEGVQEDIIDIILNLKGVILKLYNRDY--AILNLKKFGKCVVLASDIELLSDIELVNP 317
S++ GV+ED+++IILNLK ++++ N L LK G V A D ++D+E++NP
Sbjct: 66 STIPGVKEDVVEIILNLKELVVRFLNPSLQTVTLLLKAEGPKEVKARDFLPVADVEIMNP 125
Query: 318 NHIIAHLSDNEEAIRQSARVLVDQ 341
+ H++ EE R + V VD+
Sbjct: 126 D---LHIATLEEGGRLNMEVRVDR 146
>pdb|1GD8|A Chain A, The Crystal Structure Of Bacteria-Specific L17 Ribosomal
Protein.
pdb|1GD8|B Chain B, The Crystal Structure Of Bacteria-Specific L17 Ribosomal
Protein.
pdb|1GD8|C Chain C, The Crystal Structure Of Bacteria-Specific L17 Ribosomal
Protein.
pdb|1GD8|D Chain D, The Crystal Structure Of Bacteria-Specific L17 Ribosomal
Protein.
pdb|1GD8|E Chain E, The Crystal Structure Of Bacteria-Specific L17 Ribosomal
Protein.
pdb|1GD8|F Chain F, The Crystal Structure Of Bacteria-Specific L17 Ribosomal
Protein.
pdb|1GD8|G Chain G, The Crystal Structure Of Bacteria-Specific L17 Ribosomal
Protein.
pdb|1GD8|H Chain H, The Crystal Structure Of Bacteria-Specific L17 Ribosomal
Protein.
pdb|1GD8|I Chain I, The Crystal Structure Of Bacteria-Specific L17 Ribosomal
Protein.
pdb|1YL3|0 Chain 0, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|2J01|R Chain R, 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|R Chain R, 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|Q Chain Q, 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|Q Chain Q, 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|Q Chain Q, 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|L Chain L, 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|R Chain R, 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|R Chain R, 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|L Chain L, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH4|R Chain R, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|3HUX|R Chain R, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule I.
pdb|3HUZ|R Chain R, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WRJ|R Chain R, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 2 Of 4).
pdb|2WRL|R Chain R, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State. (Part 4 Of
4).
pdb|2WRO|R Chain R, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 2 Of 4).
pdb|2WRR|R Chain R, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 4 Of 4).
pdb|3KIR|R Chain R, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 2 Of 4)
pdb|3KIT|R Chain R, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 4 Of 4)
pdb|3KIW|R Chain R, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 2 Of 4)
pdb|3KIY|R Chain R, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 4 Of 4)
pdb|3KNI|R Chain R, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule I
pdb|3KNK|R Chain R, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule Ii.
pdb|3KNM|R Chain R, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule I.
pdb|3KNO|R Chain R, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule Ii
pdb|3I8F|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|R Chain R, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9U|R Chain R, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2XG0|R Chain R, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 2 Of 4)
pdb|2XG2|R Chain R, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 4 Of 4)
pdb|3OH5|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
pdb|2XTG|R Chain R, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUX|R Chain R, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|2Y0V|R Chain R, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0X|R Chain R, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Z|R Chain R, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y11|R Chain R, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y13|R Chain R, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y15|R Chain R, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y17|R Chain R, Ef-Tu Complex 3
pdb|2Y19|R Chain R, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|3ZVP|R Chain R, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|3UXQ|R Chain R, 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|R Chain R, 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|3TVE|0 Chain 0, 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|3UYE|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|0 Chain 0, 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|R Chain R, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
pdb|4DHA|R Chain R, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|4DHC|R Chain R, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|3V23|R Chain R, 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|R Chain R, 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|R Chain R, 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|R Chain R, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Entry Contains The 50s Subunit Of The 2nd Molecule In
The Asu.
pdb|3V2D|R Chain R, 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|R Chain R, 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|0 Chain 0, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5N|0 Chain 0, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule B.
pdb|4G5U|0 Chain 0, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5W|0 Chain 0, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule B
Length = 118
Score = 105 bits (262), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 58/117 (49%), Positives = 75/117 (64%), Gaps = 1/117 (0%)
Query: 430 MRHRHGFRKLNRTSSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKNTL 489
MRH RKLNR SSHRL + RN SLL + I TT+PKAKELR V+ ++ L+K+ L
Sbjct: 1 MRHLKSGRKLNRHSSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDHLIHLAKRGDL 60
Query: 490 SNKRLAFSYLRDRKITIKLFSELGPRYIKINGGYVRILKMG-FRVGDNAPMAFIELL 545
+RL L+D K+ KLF E+ PRY GGY R+LK+ R GD AP+A +EL+
Sbjct: 61 HARRLVLRDLQDVKLVRKLFDEIAPRYRDRQGGYTRVLKLAERRRGDGAPLALVELV 117
>pdb|1L9U|A Chain A, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|B Chain B, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|J Chain J, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|K Chain K, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|A Chain A, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1L9Z|B Chain B, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1YNJ|A Chain A, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNJ|B Chain B, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNN|A Chain A, Taq Rna Polymerase-rifampicin Complex
pdb|1YNN|B Chain B, Taq Rna Polymerase-rifampicin Complex
pdb|2GHO|A Chain A, Recombinant Thermus Aquaticus Rna Polymerase For
Structural Studies
pdb|2GHO|B Chain B, Recombinant Thermus Aquaticus Rna Polymerase For
Structural Studies
Length = 314
Score = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 82/130 (63%), Gaps = 2/130 (1%)
Query: 200 LKPRIIDVKTLGSNHAKVIMEPFERGYGYTLGNALRRVLLSSMIGCAPTEVIISGALHEY 259
LK + T G ++ + ++EP ERG+G TLGN LRR+LLSS+ G A T V I LHE+
Sbjct: 6 LKAPVFTATTQGDHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEF 65
Query: 260 SSLEGVQEDIIDIILNLKGVILKLYNRDYA--ILNLKKFGKCVVLASDIELLSDIELVNP 317
S++ GV+ED+++IILNLK ++++ + A L L+ G V A D +D+E++NP
Sbjct: 66 STIPGVKEDVVEIILNLKELVVRFLDPKMASTTLILRAEGPKEVRAGDFTPSADVEIMNP 125
Query: 318 NHIIAHLSDN 327
+ IA L +
Sbjct: 126 DLHIATLEEG 135
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 53/101 (52%), Gaps = 3/101 (2%)
Query: 329 EAIRQSARVLVDQLNVFAALENTPVKKELDSSLEK---VDPILLRPVDDLELTVRSANCL 385
EA+ Q+ +L + LN FA E + + S EK + L P+++L L+ R + L
Sbjct: 209 EALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDLPLEELGLSTRVLHSL 268
Query: 386 KAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILASRG 426
K E I + L+ + +L P +G +SL EI++ LA +G
Sbjct: 269 KEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKG 309
>pdb|1HQM|A Chain A, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
pdb|1HQM|B Chain B, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
Length = 313
Score = 103 bits (258), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 53/129 (41%), Positives = 82/129 (63%), Gaps = 1/129 (0%)
Query: 200 LKPRIIDVKTLGSNHAKVIMEPFERGYGYTLGNALRRVLLSSMIGCAPTEVIISGALHEY 259
LK + T G ++ + ++EP ERG+G TLGN LRR+LLSS+ G A T V I LHE+
Sbjct: 6 LKAPVFTATTQGDHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEF 65
Query: 260 SSLEGVQEDIIDIILNLKGVILKLYNRDY-AILNLKKFGKCVVLASDIELLSDIELVNPN 318
S++ GV+ED+++IILNLK ++++ + + L L+ G V A D +D+E++NP+
Sbjct: 66 STIPGVKEDVVEIILNLKELVVRFLDPRWRTTLILRAEGPKEVRAVDFTPSADVEIMNPD 125
Query: 319 HIIAHLSDN 327
IA L +
Sbjct: 126 LHIATLEEG 134
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 53/101 (52%), Gaps = 3/101 (2%)
Query: 329 EAIRQSARVLVDQLNVFAALENTPVKKELDSSLEK---VDPILLRPVDDLELTVRSANCL 385
EA+ Q+ +L + LN FA E + + S EK + L P+++L L+ R + L
Sbjct: 208 EALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDLPLEELGLSTRVLHSL 267
Query: 386 KAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILASRG 426
K E I + L+ + +L P +G +SL EI++ LA +G
Sbjct: 268 KEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKG 308
>pdb|1I6V|A Chain A, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
pdb|1I6V|B Chain B, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
Length = 314
Score = 103 bits (257), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 82/130 (63%), Gaps = 2/130 (1%)
Query: 200 LKPRIIDVKTLGSNHAKVIMEPFERGYGYTLGNALRRVLLSSMIGCAPTEVIISGALHEY 259
LK + T G ++ + ++EP ERG+G TLGN LRR+LLSS+ G A T V I LHE+
Sbjct: 6 LKAPVFTATTQGDHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEF 65
Query: 260 SSLEGVQEDIIDIILNLKGVILKLYNRDYA--ILNLKKFGKCVVLASDIELLSDIELVNP 317
S++ GV+ED+++IILNLK ++++ + A L L+ G V A D +D+E++NP
Sbjct: 66 STIPGVKEDVVEIILNLKELVVRFLDPKMASTTLILRAEGPKEVRAVDFTPSADVEIMNP 125
Query: 318 NHIIAHLSDN 327
+ IA L +
Sbjct: 126 DLHIATLEEG 135
Score = 45.4 bits (106), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 53/101 (52%), Gaps = 3/101 (2%)
Query: 329 EAIRQSARVLVDQLNVFAALENTPVKKELDSSLEK---VDPILLRPVDDLELTVRSANCL 385
EA+ Q+ +L + LN FA E + + S EK + L P+++L L+ R + L
Sbjct: 209 EALNQAVAILKEHLNYFANPEASSLPTPEVSKGEKRESAEEDLDLPLEELGLSTRVLHSL 268
Query: 386 KAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILASRG 426
K E I + L+ + +L P +G +SL EI++ LA +G
Sbjct: 269 KEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKG 309
>pdb|3FIN|R Chain R, 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.
pdb|3MRZ|N Chain N, 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|N Chain N, 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|3PYO|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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|3TVH|0 Chain 0, 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 = 117
Score = 103 bits (256), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 57/116 (49%), Positives = 74/116 (63%), Gaps = 1/116 (0%)
Query: 431 RHRHGFRKLNRTSSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKNTLS 490
RH RKLNR SSHRL + RN SLL + I TT+PKAKELR V+ ++ L+K+ L
Sbjct: 1 RHLKSGRKLNRHSSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDHLIHLAKRGDLH 60
Query: 491 NKRLAFSYLRDRKITIKLFSELGPRYIKINGGYVRILKMG-FRVGDNAPMAFIELL 545
+RL L+D K+ KLF E+ PRY GGY R+LK+ R GD AP+A +EL+
Sbjct: 61 ARRLVLRDLQDVKLVRKLFDEIAPRYRDRQGGYTRVLKLAERRRGDGAPLALVELV 116
>pdb|3K4G|A Chain A, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit
C-Terminal Domain
pdb|3K4G|B Chain B, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit
C-Terminal Domain
pdb|3K4G|C Chain C, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit
C-Terminal Domain
pdb|3K4G|D Chain D, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit
C-Terminal Domain
pdb|3K4G|E Chain E, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit
C-Terminal Domain
pdb|3K4G|F Chain F, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit
C-Terminal Domain
pdb|3K4G|G Chain G, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit
C-Terminal Domain
pdb|3K4G|H Chain H, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit
C-Terminal Domain
Length = 86
Score = 101 bits (251), Expect = 1e-21, Method: Composition-based stats.
Identities = 49/62 (79%), Positives = 53/62 (85%)
Query: 365 DPILLRPVDDLELTVRSANCLKAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILAS 424
DPILLRPVDDLELTVRSANCL AE IH IGDL+QR+E ELL TPNLG SL EI ++LAS
Sbjct: 7 DPILLRPVDDLELTVRSANCLXAEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVLAS 66
Query: 425 RG 426
RG
Sbjct: 67 RG 68
>pdb|3BBO|P Chain P, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 205
Score = 95.1 bits (235), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 48/118 (40%), Positives = 76/118 (64%)
Query: 428 YYMRHRHGFRKLNRTSSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKN 487
+ MRH KLNR R +LR +T LL++ IKTT +A+ +R+ V+ ++T++K
Sbjct: 88 FAMRHGRKVPKLNRPPDQRRALLRGLTTQLLKHGRIKTTKARARAVRKYVDKMITMAKDG 147
Query: 488 TLSNKRLAFSYLRDRKITIKLFSELGPRYIKINGGYVRILKMGFRVGDNAPMAFIELL 545
+L +R A ++ +++I LF+E+ RY + NGGY RI++ R GDNAPMA+IEL+
Sbjct: 148 SLHKRRQALGFIYEKQIVHALFAEVPDRYGERNGGYTRIIRTLPRRGDNAPMAYIELV 205
>pdb|1NKW|L Chain L, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
pdb|1NWX|L Chain L, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Abt-773
pdb|1NWY|L Chain L, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Azithromycin
pdb|1SM1|L Chain L, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Quinupristin And Dalfopristin
pdb|1XBP|L Chain L, Inhibition Of Peptide Bond Formation By Pleuromutilins:
The Structure Of The 50s Ribosomal Subunit From
Deinococcus Radiodurans In Complex With Tiamulin
pdb|2ZJP|K Chain K, Thiopeptide Antibiotic Nosiheptide Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|2ZJQ|K Chain K, Interaction Of L7 With L11 Induced By Microccocin Binding
To The Deinococcus Radiodurans 50s Subunit
pdb|2ZJR|K Chain K, Refined Native Structure Of The Large Ribosomal Subunit
(50s) From Deinococcus Radiodurans
pdb|3CF5|K Chain K, Thiopeptide Antibiotic Thiostrepton Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|3DLL|K Chain K, The Oxazolidinone Antibiotics Perturb The Ribosomal
Peptidyl-Transferase Center And Effect Trna Positioning
pdb|3PIO|K Chain K, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
pdb|3PIP|K Chain K, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
Length = 116
Score = 93.2 bits (230), Expect = 3e-19, Method: Composition-based stats.
Identities = 52/116 (44%), Positives = 71/116 (61%)
Query: 430 MRHRHGFRKLNRTSSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKNTL 489
MRH RKLNR SS R+ + R +LLR I+TTL KAKELR VE ++T +K L
Sbjct: 1 MRHGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDL 60
Query: 490 SNKRLAFSYLRDRKITIKLFSELGPRYIKINGGYVRILKMGFRVGDNAPMAFIELL 545
++RL + D+ + K+ E+ P+Y + GGY RIL++G R GD MA IEL+
Sbjct: 61 HSRRLVAQDIHDKDVVRKVMDEVAPKYAERPGGYTRILRVGTRRGDGVTMALIELV 116
>pdb|1PNU|L Chain L, 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|L Chain L, 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|O Chain O, 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|O Chain O, 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|O Chain O, 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|O Chain O, 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|O Chain O, 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 = 114
Score = 89.0 bits (219), Expect = 6e-18, Method: Composition-based stats.
Identities = 50/114 (43%), Positives = 69/114 (60%)
Query: 432 HRHGFRKLNRTSSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKNTLSN 491
H RKLNR SS R+ + R +LLR I+TTL KAKELR VE ++T +K L +
Sbjct: 1 HGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDLHS 60
Query: 492 KRLAFSYLRDRKITIKLFSELGPRYIKINGGYVRILKMGFRVGDNAPMAFIELL 545
+RL + D+ + K+ E+ P+Y + GGY RIL++G R GD MA IEL+
Sbjct: 61 RRLVAQDIHDKDVVRKVMDEVAPKYAERPGGYTRILRVGTRRGDGVTMALIELV 114
>pdb|2FTC|J Chain J, Structural Model For The Large Subunit Of The Mammalian
Mitochondrial Ribosome
pdb|3IY9|S Chain S, Leishmania Tarentolae Mitochondrial Large Ribosomal
Subunit Model
Length = 116
Score = 60.8 bits (146), Expect = 2e-09, Method: Composition-based stats.
Identities = 37/114 (32%), Positives = 59/114 (51%), Gaps = 2/114 (1%)
Query: 432 HRHGFRKLNRTSSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKNTLSN 491
H FR++ R+ +LRN+ L+R+E I+ + E+R E ++ K +
Sbjct: 1 HGRVFRRMGLGPESRIHLLRNLLTGLVRHERIEAPWARVDEMRGYAEKLIDYGKLGDTNE 60
Query: 492 K--RLAFSYLRDRKITIKLFSELGPRYIKINGGYVRILKMGFRVGDNAPMAFIE 543
+ R+A +L ++ + KLF L PRY GGY R+L++ R D A MA IE
Sbjct: 61 RAMRMADFWLTEKDLIPKLFQVLAPRYKDQTGGYTRMLQIPNRSLDRAKMAVIE 114
>pdb|2CQM|A Chain A, Solution Structure Of The Mitochondrial Ribosomal Protein
L17 Isolog
Length = 122
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/103 (33%), Positives = 54/103 (52%), Gaps = 2/103 (1%)
Query: 443 SSHRLIMLRNMTISLLRYEIIKTTLPKAKELRRVVEPILTLSKKNTLSNK--RLAFSYLR 500
SS +LRN+ L+R+E I+ + E+R E ++ K + + R+A +L
Sbjct: 2 SSGSSGLLRNLLTGLVRHERIEAPWARVDEMRGYAEKLIDYGKLGDTNERAMRMADFWLT 61
Query: 501 DRKITIKLFSELGPRYIKINGGYVRILKMGFRVGDNAPMAFIE 543
++ + KLF L PRY GGY R+L++ R D A MA IE
Sbjct: 62 EKDLIPKLFQVLAPRYKDQTGGYTRMLQIPNRSLDRAKMAVIE 104
>pdb|3IHQ|B Chain B, Crystal Structure Of Reduced C10s Spx In Complex With The
Alpha C-Terminal Domain Of Rna Polymeras
Length = 75
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 41/62 (66%)
Query: 365 DPILLRPVDDLELTVRSANCLKAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILAS 424
+ +L +++L+L+VRS NCLK I+ + +L ++E ++++ NLGRKSL E+K L
Sbjct: 6 EKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEE 65
Query: 425 RG 426
G
Sbjct: 66 LG 67
>pdb|1Z3E|B Chain B, Crystal Structure Of Spx In Complex With The C-Terminal
Domain Of The Rna Polymerase Alpha Subunit
Length = 73
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 41/62 (66%)
Query: 365 DPILLRPVDDLELTVRSANCLKAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILAS 424
+ +L +++L+L+VRS NCLK I+ + +L ++E ++++ NLGRKSL E+K L
Sbjct: 4 EKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEE 63
Query: 425 RG 426
G
Sbjct: 64 LG 65
>pdb|3GFK|B Chain B, Crystal Structure Of Bacillus Subtilis SpxRNA POLYMERASE
Alpha Subunit C-Terminal Domain Complex
Length = 79
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 41/62 (66%)
Query: 365 DPILLRPVDDLELTVRSANCLKAENIHCIGDLIQRSENELLRTPNLGRKSLNEIKEILAS 424
+ +L +++L+L+VRS NCLK I+ + +L ++E ++++ NLGRKSL E+K L
Sbjct: 11 EKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEE 70
Query: 425 RG 426
G
Sbjct: 71 LG 72
>pdb|3J20|D Chain D, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 180
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 26/46 (56%)
Query: 91 ILKLLESRFDNVVYRMGFSSTRSEARQLISHRAFLVNKKIVNIASY 136
I +LE R +VY+ G + T +ARQLI H VN +I+ SY
Sbjct: 97 IEDILERRLQTIVYKKGLARTMRQARQLIVHGHIEVNGQIIRSPSY 142
>pdb|3IZB|C Chain C, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|E Chain E, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|E Chain E, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|J Chain J, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|J Chain J, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 197
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%)
Query: 94 LLESRFDNVVYRMGFSSTRSEARQLISHRAFLVNKKIVNIASYKIK 139
LE R VY++G + + AR LI+ R V K+IVNI S+ ++
Sbjct: 104 FLERRLQTQVYKLGLAKSVHHARVLITQRHIAVGKQIVNIPSFMVR 149
>pdb|3JYV|D Chain D, Structure Of The 40s Rrna And Proteins And PE TRNA FOR
EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces
Lanuginosus Ribosome At 8.9a Resolution
Length = 158
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%)
Query: 94 LLESRFDNVVYRMGFSSTRSEARQLISHRAFLVNKKIVNIASYKIK 139
LE R VY++G + + AR LI+ R V K+IVNI S+ ++
Sbjct: 99 FLERRLQTQVYKLGLAKSVHHARVLITQRHIAVGKQIVNIPSFMVR 144
>pdb|1S1H|D Chain D, 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,
1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is
In File 1s1i
Length = 179
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%)
Query: 94 LLESRFDNVVYRMGFSSTRSEARQLISHRAFLVNKKIVNIASYKIK 139
LE R VY++G + + AR LI+ R V K+IVNI S+ ++
Sbjct: 86 FLERRLQTQVYKLGLAKSVHHARVLITQRHIAVGKQIVNIPSFMVR 131
>pdb|2XZM|D Chain D, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|D Chain D, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 181
Score = 34.7 bits (78), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 7/74 (9%)
Query: 66 YGILEKQFRRYFIEGARLKGKTGEIILKLLESRFDNVVYRMGFSSTRSEARQLISHRAFL 125
YG+L +Q R+ L G I KL+E R V+++ +++ +R LI R
Sbjct: 83 YGLLSEQERK-------LDYVLGLTIHKLMERRLQTRVFKLNLANSIHHSRVLIRQRHIK 135
Query: 126 VNKKIVNIASYKIK 139
V K +VN+ S+ ++
Sbjct: 136 VGKNLVNVPSFMVR 149
>pdb|3ZEY|6 Chain 6, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 190
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 94 LLESRFDNVVYRMGFSSTRSEARQLISHRAFLVNKKIVNIASYKIK 139
+LE R VV++ G + + +R LI R V K+IV I S+ ++
Sbjct: 103 ILERRLQTVVFKHGLAKSVHHSRVLIQQRHIAVAKQIVTIPSFIVR 148
>pdb|1WOM|A Chain A, Crystal Structure Of Rsbq
pdb|1WOM|B Chain B, Crystal Structure Of Rsbq
pdb|1WPR|A Chain A, Crystal Structure Of Rsbq Inhibited By Pmsf
pdb|1WPR|B Chain B, Crystal Structure Of Rsbq Inhibited By Pmsf
Length = 271
Score = 32.0 bits (71), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 46/195 (23%), Positives = 86/195 (44%), Gaps = 47/195 (24%)
Query: 207 VKTLGSNHAKVIMEPFERGYGY--TLGNAL-------RRVLLSSMIGCAPTEVIISGALH 257
VK GS A ++ P G+G ++ NA+ RV+L +G ++ + + L+
Sbjct: 13 VKVKGSGKASIMFAP---GFGCDQSVWNAVAPAFEEDHRVILFDYVGSGHSD-LRAYDLN 68
Query: 258 EYSSLEGVQEDIIDII--LNLKGVILKLYNRDYAILNLKKFGKCVVLASDI---ELLSDI 312
Y +L+G +D++D+ L+LK + ++ G + + + I EL S +
Sbjct: 69 RYQTLDGYAQDVLDVCEALDLKETVFVGHS----------VGALIGMLASIRRPELFSHL 118
Query: 313 ELVNPNHIIAHLSDNEE------------AIRQSARVLVDQLNVFAA-LENTP----VKK 355
+V P+ +L+D E + + + VFAA + N P +K+
Sbjct: 119 VMVGPS--PCYLNDPPEYYGGFEEEQLLGLLEMMEKNYIGWATVFAATVLNQPDRPEIKE 176
Query: 356 ELDSSLEKVDPILLR 370
EL+S DP++ R
Sbjct: 177 ELESRFCSTDPVIAR 191
>pdb|2P22|A Chain A, Structure Of The Yeast Escrt-i Heterotetramer Core
Length = 174
Score = 30.0 bits (66), Expect = 3.4, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 4/77 (5%)
Query: 271 DIILNLKGVILKLYNRDYAILNLKKFGKCVVLASDIELLSDIELVNPNHIIAHLSDNEEA 330
+++ NL+ V+ +LY D + K + V+ I +I ++ NH+ A E+A
Sbjct: 12 EMLQNLQTVVNELYREDVDYVADKILTRQTVMQESIARFHEIIAIDKNHLRA----VEQA 67
Query: 331 IRQSARVLVDQLNVFAA 347
I Q+ L Q++V A
Sbjct: 68 IEQTMHSLNAQIDVLTA 84
>pdb|2ORY|A Chain A, Crystal Structure Of M37 Lipase
pdb|2ORY|B Chain B, Crystal Structure Of M37 Lipase
Length = 346
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 22/33 (66%), Gaps = 4/33 (12%)
Query: 154 TRIANSLELSEHSTPFSWITVDAKKMEGVFKSE 186
TRIANSL++ P++W T KK++ ++ SE
Sbjct: 229 TRIANSLDI----VPYAWNTNSLKKLKSIYISE 257
>pdb|2PHZ|A Chain A, Crystal Structure Of Iron-Uptake System-Binding Protein
Feua From Bacillus Subtilis. Northeast Structural
Genomics Target Sr580
Length = 311
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 12/89 (13%)
Query: 288 YAILNLKKFGKC-VVLASDIELLSDIELVNPNHIIAHLSDNEEAIRQSARVLVDQLNVFA 346
Y L LK + A ++ L + NP+HI SD+E A D+ +
Sbjct: 203 YGDLGLKAPNEVKAAKAQELSSLEKLSEXNPDHIFVQFSDDENA---------DKPDALK 253
Query: 347 ALENTPVKKELDSSLEKVDPILLRPVDDL 375
LE P+ K L + E D + + VD L
Sbjct: 254 DLEKNPIWKSLKAVKE--DHVYVNSVDPL 280
>pdb|1AJ0|A Chain A, Crystal Structure Of A Ternary Complex Of E. Coli
Dihydropteroate Synthase
pdb|1AJ2|A Chain A, Crystal Structure Of A Binary Complex Of E. Coli
Dihydropteroate Synthase
pdb|1AJZ|A Chain A, Structure Of Dihydropteroate Pyrophosphorylase
Length = 282
Score = 28.9 bits (63), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 119 ISHRAFLVNK--KIVNIASYKIKPGDI-ISVREKAKKQTRIANSLELSEHSTPFS-WITV 174
+ H ++N I+++ +PG +SV E+ ++ + ++ + F WI+V
Sbjct: 41 VKHANLMINAGATIIDVGGESTRPGAAEVSVEEELQRVIPVVEAI-----AQRFEVWISV 95
Query: 175 DAKKMEGVFKSEPNRSEFANDINDLLKPRIIDVKT 209
D K E + +S + NDI L +P ++
Sbjct: 96 DTSKPEVIRESAKVGAHIINDIRSLSEPGALEAAA 130
>pdb|2PL2|A Chain A, Crystal Structure Of Ttc0263: A Thermophilic Tpr Protein
In Thermus Thermophilus Hb27
pdb|2PL2|B Chain B, Crystal Structure Of Ttc0263: A Thermophilic Tpr Protein
In Thermus Thermophilus Hb27
Length = 217
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 40/96 (41%), Gaps = 12/96 (12%)
Query: 302 LASDIELLSDIELVNPNHIIAHLS-----------DNEEAIRQSARVLVDQLNVFAALEN 350
L + +L D E VNP + HL D EA + A L D + +AL
Sbjct: 100 LEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALAE 159
Query: 351 TPVK-KELDSSLEKVDPILLRPVDDLELTVRSANCL 385
+ LD +L + L + DL+L VR A+ L
Sbjct: 160 LYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASAL 195
>pdb|2WI8|A Chain A, Crystal Structure Of The Triscatecholate Siderophore
Binding Protein Feua From Bacillus Subtilis
pdb|2WHY|A Chain A, Crystal Structure Of The Triscatecholate Siderophore
Binding Protein Feua From Bacillus Subtilis Complexed
With Ferri-Bacillibactin
pdb|2XUZ|A Chain A, Crystal Structure Of The Triscatecholate Siderophore
Binding Protein Feua From Bacillus Subtilis Complexed
With Ferri-Enterobactin
pdb|2XV1|A Chain A, Crystal Structure Of The Triscatecholate Siderophore
Binding Protein Feua From Bacillus Subtilis Complexed
With Ferric Mecam
Length = 311
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 11/61 (18%)
Query: 315 VNPNHIIAHLSDNEEAIRQSARVLVDQLNVFAALENTPVKKELDSSLEKVDPILLRPVDD 374
+NP+HI SD+E A D+ + LE P+ K L + E D + + VD
Sbjct: 226 MNPDHIFVQFSDDENA---------DKPDALKDLEKNPIWKSLKAVKE--DHVYVNSVDP 274
Query: 375 L 375
L
Sbjct: 275 L 275
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 0.138 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,896,818
Number of Sequences: 62578
Number of extensions: 586551
Number of successful extensions: 1664
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1600
Number of HSP's gapped (non-prelim): 57
length of query: 550
length of database: 14,973,337
effective HSP length: 104
effective length of query: 446
effective length of database: 8,465,225
effective search space: 3775490350
effective search space used: 3775490350
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)