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Protein Structures and Oligomeric States

Enter a protein name, UniProt accession or PDB ID. Name searches ask you to confirm the protein identity before related structures are queried.

Current Protein Identity：P62658 New Search
25PDB entries
43Biological assembly
43chain/assembly records
Main Difference Dimensions in This Set
Different construct Different assembly state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
1XMO Crystal Structure of mnm5U34t6A37-tRNALysUUU Complexed with AAG-mRNA in the Decoding Center Deposited 2004-10-04 Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric（23） Consistent with all polymers
Chain Q 0–104（105 aa）
Not recorded PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 107 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, magnesium chloride, potassium chloride, ammonium chloride, MES-KOH, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.K
Resolution 3.25 Å R-free 0.284
1XMQ Crystal Structure of t6A37-ASLLysUUU AAA-mRNA Bound to the Decoding Center Deposited 2004-10-04 Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric（23） Consistent with all polymers
Chain Q 0–104（105 aa）
Not recorded PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 107 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, magnesium chloride, potassium chloride, ammonium chloride, MES-KOH, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.K
Resolution 3.00 Å R-free 0.236
1XNQ Structure of an Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center Deposited 2004-10-05 Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric（23） Consistent with all polymers
Chain Q 0–104（105 aa）
Not recorded PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 107 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, magnesium chloride, potassium chloride, ammonium chloride, MES-KOH, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.K
Resolution 3.05 Å R-free 0.270
1XNR Crystal Structure of an Inosine-Cytosine Wobble Base Pair in the Context of the Decoding Center Deposited 2004-10-05 Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric（23） Consistent with all polymers
Chain Q 0–104（105 aa）
Not recorded PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 108 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, magnesium chloride, potassium chloride, ammonium chloride, MES-KOH, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.K
Resolution 3.10 Å R-free 0.273
4V4I Crystal Structure of a 70S Ribosome-tRNA Complex Reveals Functional Interactions and Rearrangements. Deposited 2007-02-15 Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric（54） Consistent with all polymers
Chain r 1–105（105 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；24-26% MPD, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Resolution 3.71 Å R-free 0.353
4V4J Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. Deposited 2007-07-18 Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric（54） Consistent with all polymers
Chain r 1–105（105 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；298 K；Buffer conditions: 25 mM K-HEPES (pH 7.5), 12.5 mM Na-cacodylate pH 5.5, 2.5 mM Tris-HCl (pH 7.5), 80 mM NH_4 Cl, 80 mM KCl, 11 mM MgCl_2, 6.5 mM Thermine HCl and 0.2 M KSCN. Crystallization by the hanging drop method over 26-30% MPD in the above buffer mix, using 2 uL of ribosome complex mixed with 2 uL of well mixture on siliconized cover slips, temperature 298K
Resolution 3.83 Å R-free 0.351
4V63 Structural basis for translation termination on the 70S ribosome. Deposited 2008-05-16 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain AQ 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 1260 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；296 K；100 mM TRIS-OAc, 200 mM KSCN, 3.5-4.5 % (w/v) PEG20K, 4-9 % PEG200, DEOXY BIGCHAP, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Resolution 3.21 Å R-free 0.319
4V63 Structural basis for translation termination on the 70S ribosome. Deposited 2008-05-16 Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain CQ 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 1317 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；296 K；100 mM TRIS-OAc, 200 mM KSCN, 3.5-4.5 % (w/v) PEG20K, 4-9 % PEG200, DEOXY BIGCHAP, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Resolution 3.21 Å R-free 0.319
4V67 Crystal structure of a translation termination complex formed with release factor RF2. Deposited 2008-10-27 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain AQ 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 1587 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；296 K；100 MM TRIS-OAC, 200 MM KSCN, 3.5-4.5 % (W/V) PEG20K, 4-9 % PEG200, DEOXY BIGCHAP, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Resolution 3.00 Å R-free 0.316
4V67 Crystal structure of a translation termination complex formed with release factor RF2. Deposited 2008-10-27 Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain CQ 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 801 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；296 K；100 MM TRIS-OAC, 200 MM KSCN, 3.5-4.5 % (W/V) PEG20K, 4-9 % PEG200, DEOXY BIGCHAP, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Resolution 3.00 Å R-free 0.316
4V7P Recognition of the amber stop codon by release factor RF1. Deposited 2010-04-29 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric（55） Consistent with all polymers
Chain AQ 2–100（99 aa）
Not recorded MG MAGNESIUM ION × 250 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；295.5 K；crystals were grown by the sitting-drop vapor diffusion method dispensed robotically using 1-2 uL ribosome complexes mixed with 1-2 uL reservoir solution (100 mM Tris-OAc, pH 7.0, 200 mM KSCN, 3.4-4.8% PEG20,000, 2.5-11.5% PEG200) at 22.5 C, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K
Resolution 3.62 Å R-free 0.291
4V7P Recognition of the amber stop codon by release factor RF1. Deposited 2010-04-29 Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric（55） Consistent with all polymers
Chain DQ 2–100（99 aa）
Not recorded MG MAGNESIUM ION × 160 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；295.5 K；crystals were grown by the sitting-drop vapor diffusion method dispensed robotically using 1-2 uL ribosome complexes mixed with 1-2 uL reservoir solution (100 mM Tris-OAc, pH 7.0, 200 mM KSCN, 3.4-4.8% PEG20,000, 2.5-11.5% PEG200) at 22.5 C, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K
Resolution 3.62 Å R-free 0.291
4V83 Crystal structure of a complex containing domain 3 from the PSIV IGR IRES RNA bound to the 70S ribosome. Deposited 2010-12-13 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric（53） Consistent with all polymers
Chain AQ 2–100（99 aa）
Not recorded MG MAGNESIUM ION × 1169 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；295 K；100 mM Tris-OAc, pH 7.0, 200 mM KSCN, 3.6-5% PEG20,000, 6-14% MPD, vapor diffusion, temperature 295K
Resolution 3.50 Å R-free 0.264
4V83 Crystal structure of a complex containing domain 3 from the PSIV IGR IRES RNA bound to the 70S ribosome. Deposited 2010-12-13 Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric（53） Consistent with all polymers
Chain CQ 2–100（99 aa）
Not recorded MG MAGNESIUM ION × 1488 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；295 K；100 mM Tris-OAc, pH 7.0, 200 mM KSCN, 3.6-5% PEG20,000, 6-14% MPD, vapor diffusion, temperature 295K
Resolution 3.50 Å R-free 0.264
4V84 Crystal structure of a complex containing domain 3 of CrPV IGR IRES RNA bound to the 70S ribosome. Deposited 2010-12-13 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric（53） Consistent with all polymers
Chain AQ 2–100（99 aa）
Not recorded MG MAGNESIUM ION × 595 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；295 K；100 mM Tris-OAc, pH 7.0, 200 mM KSCN, 3.6-5% PEG20,000, 6-14% MPD, vapor diffusion, temperature 295K
Resolution 3.40 Å R-free 0.266
4V84 Crystal structure of a complex containing domain 3 of CrPV IGR IRES RNA bound to the 70S ribosome. Deposited 2010-12-13 Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric（53） Consistent with all polymers
Chain CQ 2–100（99 aa）
Not recorded MG MAGNESIUM ION × 599 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；295 K；100 mM Tris-OAc, pH 7.0, 200 mM KSCN, 3.6-5% PEG20,000, 6-14% MPD, vapor diffusion, temperature 295K
Resolution 3.40 Å R-free 0.266
4V9J 70S ribosome translocation intermediate GDPNP-II containing elongation factor EFG/GDPNP, mRNA, and tRNA bound in the pe*/E state. Deposited 2013-04-23 Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 61-meric（61） Consistent with all polymers
Chain AQ 2–101（100 aa）
Not recorded GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 2.9% PEG20000, 2.8% PPG P400, 5.1% PEG550 MME, 200 mM potassium thiocyanate, Tris acetate
Resolution 3.86 Å R-free 0.317
4V9J 70S ribosome translocation intermediate GDPNP-II containing elongation factor EFG/GDPNP, mRNA, and tRNA bound in the pe*/E state. Deposited 2013-04-23 Assembly 2 Protein–RNA Heteromer；Protein × 56 PDB declaration: 61-meric（61） Consistent with all polymers
Chain CQ 2–101（100 aa）
Not recorded GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 2.9% PEG20000, 2.8% PPG P400, 5.1% PEG550 MME, 200 mM potassium thiocyanate, Tris acetate
Resolution 3.86 Å R-free 0.317
4V9K 70S ribosome translocation intermediate GDPNP-I containing elongation factor EFG/GDPNP, mRNA, and tRNA bound in the pe*/E state. Deposited 2013-04-24 Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 61-meric（61） Consistent with all polymers
Chain AQ 2–101（100 aa）
Not recorded GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 2.9% PEG 20K, 2.8% PPG P400, 5.1% MME 550, KSCN 200 mM, TRIS ACETATE 100mM
Resolution 3.50 Å R-free 0.309
4V9K 70S ribosome translocation intermediate GDPNP-I containing elongation factor EFG/GDPNP, mRNA, and tRNA bound in the pe*/E state. Deposited 2013-04-24 Assembly 2 Protein–RNA Heteromer；Protein × 56 PDB declaration: 61-meric（61） Consistent with all polymers
Chain CQ 2–101（100 aa）
Not recorded GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 2.9% PEG 20K, 2.8% PPG P400, 5.1% MME 550, KSCN 200 mM, TRIS ACETATE 100mM
Resolution 3.50 Å R-free 0.309
4V9L 70S Ribosome translocation intermediate FA-3.6A containing elongation factor EFG/FUSIDIC ACID/GDP, mRNA, and tRNA bound in the pe*/E state. Deposited 2013-04-24 Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 61-meric（61） Consistent with all polymers
Chain AQ 2–101（100 aa）
Not recorded FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 2.9% PEG 20K, 2.8% PPG P400, 5.1% MME 550, KSCN 200 mM, TRIS ACETATE 100mM
Resolution 3.50 Å R-free 0.328
4V9L 70S Ribosome translocation intermediate FA-3.6A containing elongation factor EFG/FUSIDIC ACID/GDP, mRNA, and tRNA bound in the pe*/E state. Deposited 2013-04-24 Assembly 2 Protein–RNA Heteromer；Protein × 56 PDB declaration: 61-meric（61） Consistent with all polymers
Chain CQ 2–101（100 aa）
Not recorded FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 2.9% PEG 20K, 2.8% PPG P400, 5.1% MME 550, KSCN 200 mM, TRIS ACETATE 100mM
Resolution 3.50 Å R-free 0.328
4V9M 70S Ribosome translocation intermediate FA-4.2A containing elongation factor EFG/FUSIDIC ACID/GDP, mRNA, and tRNA bound in the pe*/E state. Deposited 2013-04-25 Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 60-meric（60） Consistent with all polymers
Chain AQ 2–101（100 aa）
Not recorded FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 2.9% PEG 20K, 2.8% PPG P400, 5.1% MME 550, KSCN 200 mM, TRIS ACETATE 100mM
Resolution 4.00 Å R-free 0.329
4V9M 70S Ribosome translocation intermediate FA-4.2A containing elongation factor EFG/FUSIDIC ACID/GDP, mRNA, and tRNA bound in the pe*/E state. Deposited 2013-04-25 Assembly 2 Protein–RNA Heteromer；Protein × 55 PDB declaration: 60-meric（60） Consistent with all polymers
Chain CQ 2–101（100 aa）
Not recorded FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 2.9% PEG 20K, 2.8% PPG P400, 5.1% MME 550, KSCN 200 mM, TRIS ACETATE 100mM
Resolution 4.00 Å R-free 0.329
4V9N Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. Deposited 2013-04-26 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric（55） Consistent with all polymers
Chain AQ 2–100（99 aa）
Not recorded MG MAGNESIUM ION × 1284 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7；pH 7.0
Resolution 3.40 Å R-free 0.268
4V9N Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. Deposited 2013-04-26 Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric（55） Consistent with all polymers
Chain CQ 2–100（99 aa）
Not recorded MG MAGNESIUM ION × 1126 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7；pH 7.0
Resolution 3.40 Å R-free 0.268
4V9Q Crystal Structure of Blasticidin S Bound to Thermus Thermophilus 70S Ribosome. Deposited 2013-06-12 Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric（54） Consistent with all polymers
Chain BQ 2–100（99 aa）
Not recorded BLS BLASTICIDIN S × 1 MG MAGNESIUM ION × 2050 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；Mix complex 1:1 with solution containing 4% PEG 20000, 8% MPD, 0.2M KSCN, 0.1M Tris-HCl , pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Resolution 3.40 Å R-free 0.268
4V9Q Crystal Structure of Blasticidin S Bound to Thermus Thermophilus 70S Ribosome. Deposited 2013-06-12 Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric（54） Consistent with all polymers
Chain DQ 2–100（99 aa）
Not recorded BLS BLASTICIDIN S × 1 MG MAGNESIUM ION × 2313 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；Mix complex 1:1 with solution containing 4% PEG 20000, 8% MPD, 0.2M KSCN, 0.1M Tris-HCl , pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Resolution 3.40 Å R-free 0.268
4XEJ IRES bound to bacterial Ribosome Deposited 2014-12-23 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric（53） Consistent with all polymers
Chain AS17 2–100（99 aa）
Not recorded ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；295.5 K；Initial crystallization screening was performed around conditions previously reported (31, 48) by dispensing 0.2 + 0.2 mL sitting drops with a Phoenix robotic liquid handling system (Art Robbins) on 96-well plates. Once optimal crystallization conditions were determined, crystals were grown by the sitting-drop vapor-diffusion method using drops dispensed by the Phoenix with 1- to 2-mL ribosome complexes mixed with 1-2 mL of reservoir solution [100 mM Tris-OAc, pH 7.0, 200 mM potassium thiocyanate (KSCN), 3.6-5% PEG 20,000, 6-14% 2-methyl-2,4-pentanediol (MPD)] at 22.5C. Crystals emerged after 5-7 d and matured between 2-3 wk. Crystals were then subjected to cryoprotection by gradually replacing the mother liquor with cryoprotection buffer I (100 mM Tris-OAc, pH 7.0, 200 mM KSCN, 5% PEG 20,000, 25% MPD, 14% PEG 200, and 10 mM Mg(OAc)2). The crystals then were flash-frozen by plunging into liquid nitrogen.
Resolution 3.80 Å R-free 0.284
4XEJ IRES bound to bacterial Ribosome Deposited 2014-12-23 Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric（53） Consistent with all polymers
Chain BS17 2–100（99 aa）
Not recorded ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；295.5 K；Initial crystallization screening was performed around conditions previously reported (31, 48) by dispensing 0.2 + 0.2 mL sitting drops with a Phoenix robotic liquid handling system (Art Robbins) on 96-well plates. Once optimal crystallization conditions were determined, crystals were grown by the sitting-drop vapor-diffusion method using drops dispensed by the Phoenix with 1- to 2-mL ribosome complexes mixed with 1-2 mL of reservoir solution [100 mM Tris-OAc, pH 7.0, 200 mM potassium thiocyanate (KSCN), 3.6-5% PEG 20,000, 6-14% 2-methyl-2,4-pentanediol (MPD)] at 22.5C. Crystals emerged after 5-7 d and matured between 2-3 wk. Crystals were then subjected to cryoprotection by gradually replacing the mother liquor with cryoprotection buffer I (100 mM Tris-OAc, pH 7.0, 200 mM KSCN, 5% PEG 20,000, 25% MPD, 14% PEG 200, and 10 mM Mg(OAc)2). The crystals then were flash-frozen by plunging into liquid nitrogen.
Resolution 3.80 Å R-free 0.284
5A9Z Complex of Thermous thermophilus ribosome bound to BipA-GDPCP Deposited 2015-07-23 Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric（55） Consistent with all polymers
Chain BU 2–105（104 aa）
Not recorded NMY NEOMYCIN × 2 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer 5 MM HEPES PH 7.5, 10 MM MGAC, 50 MM KCL, 10 MM NH4CL, AND 6 MM 2- MERCAPTOETHANOL；pH 7.5；5 MM HEPES PH 7.5, 10 MM MGAC, 50 MM KCL, 10 MM NH4CL, AND 6 MM 2- MERCAPTOETHANOL
cryo-EM vitrification conditions Cryogen ETHANE；LIQUID ETHANE
Resolution 4.70 Å
5D8B Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch Deposited 2015-08-17 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric（55） Consistent with all polymers
Chain RA 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 1069 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3.1 uL 70S*mRNA*tRNAfMet complex + 3.1 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate), reservoir: 300 uL 0.5-0.7 M sodium chloride, 3-fold molar excess of E. coli release factor 1 and 650 uM blasticidin S added during complex formation to stabilize the complex
Resolution 3.63 Å R-free 0.287
5D8B Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch Deposited 2015-08-17 Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric（55） Consistent with all polymers
Chain NC 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 1149 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3.1 uL 70S*mRNA*tRNAfMet complex + 3.1 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate), reservoir: 300 uL 0.5-0.7 M sodium chloride, 3-fold molar excess of E. coli release factor 1 and 650 uM blasticidin S added during complex formation to stabilize the complex
Resolution 3.63 Å R-free 0.287
5J4D E. coli release factor 1 bound to the 70S ribosome in response to a pseudouridylated stop codon Deposited 2016-03-31 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain ZA 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 1510 ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3.1 uL 70S*mRNA*tRNAfMet complex + 3.1 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate), reservoir: 300 uL 0.5-0.7 M sodium chloride, 4-fold molar excess of E. coli release factor 1 added during complex formation
Resolution 3.10 Å R-free 0.256
5J4D E. coli release factor 1 bound to the 70S ribosome in response to a pseudouridylated stop codon Deposited 2016-03-31 Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain ED 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 1383 ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3.1 uL 70S*mRNA*tRNAfMet complex + 3.1 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate), reservoir: 300 uL 0.5-0.7 M sodium chloride, 4-fold molar excess of E. coli release factor 1 added during complex formation
Resolution 3.10 Å R-free 0.256
6B4V Antibiotic blasticidin S and E. coli release factor 1 bound to the 70S ribosome Deposited 2017-09-27 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain ZA 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 896 BLS BLASTICIDIN S × 1 ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
Resolution 3.40 Å
6B4V Antibiotic blasticidin S and E. coli release factor 1 bound to the 70S ribosome Deposited 2017-09-27 Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain DD 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 787 BLS BLASTICIDIN S × 1 ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
Resolution 3.40 Å
6BOH Antibiotic blasticidin S and E. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosome Deposited 2017-11-20 Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric（57） Consistent with all polymers
Chain AB 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 727 BLS BLASTICIDIN S × 1 ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
Resolution 3.40 Å
6BOH Antibiotic blasticidin S and E. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosome Deposited 2017-11-20 Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric（57） Consistent with all polymers
Chain FD 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 701 BLS BLASTICIDIN S × 1 ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1*antibiotic complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 and 1 mM blasticidin S were added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
Resolution 3.40 Å
6BOK E. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosome Deposited 2017-11-20 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain YA 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 826 ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
Resolution 3.55 Å
6BOK E. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosome Deposited 2017-11-20 Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain BD 1–105（105 aa）
Not recorded MG MAGNESIUM ION × 692 ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；3 uL of 70S*mRNA*tRNAfMet*RF1 complex + 3 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate). 4-fold molar excess of E. coli release factor 1 was added during complex formation. Reservoir: 300 uL 0.4-0.6 M sodium chloride.
Resolution 3.55 Å
6N1D X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State Deposited 2018-11-08 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric（55） Consistent with all polymers
Chain AS17 2–105（104 aa）
Not recorded MG MAGNESIUM ION × 141 SF4 IRON/SULFUR CLUSTER × 1 X-RAY DIFFRACTION
X-ray crystallization conditions LIQUID DIFFUSION；pH 7；295 K；pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Resolution 3.20 Å R-free 0.321
6N1D X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State Deposited 2018-11-08 Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric（56） Consistent with all polymers
Chain BS17 2–105（104 aa）
Not recorded MG MAGNESIUM ION × 218 SF4 IRON/SULFUR CLUSTER × 1 X-RAY DIFFRACTION
X-ray crystallization conditions LIQUID DIFFUSION；pH 7；295 K；pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Resolution 3.20 Å R-free 0.321

This page presents structural evidence recorded in PDB/mmCIF.“No recorded non-water small molecule” does not prove that the experimental sample was ligand-free; experimental conditions belong to the PDB experiment, while ligands and copy counts are shown for each biological assembly.