RNA 3D Hub //

Equivalence class NR_2.5_83593.6 Current

Showing 1 to 9 of 9 entries
#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
15AXM|1|P (rep)Transfer RNARNA (75-MER)Saccharomyces cerevisiaeEukaryaRF00005Crystal structure of Thg1 like protein (TLP) with tRNA(Phe)X-ray diffraction2.21732016-08-03
21EVV|1|ATransfer RNAPHENYLALANINE TRANSFER RNASaccharomycesEukaryaRF00005CRYSTAL STRUCTURE OF YEAST PHENYLALANINE TRANSFER RNA AT 2.0 A RESOLUTIONX-ray diffraction2762000-05-01
34TNA|1|ATransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005FURTHER REFINEMENT OF THE STRUCTURE OF YEAST T-RNA-PHEX-ray diffraction2.5761978-04-12
41EHZ|1|ATransfer RNATRANSFER RNA (PHE)Saccharomyces cerevisiaeEukaryaRF00005The crystal structure of yeast phenylalanine tRNA at 1.93 A resolutionX-ray diffraction1.93762000-10-02
58CCS|1|BbTransfer RNAMessenger RNA, Transfer RNA PheSaccharomyces cerevisiaeEukaryaRF0000580S S. cerevisiae ribosome with ligands in hybrid-1 pre-translocation (PRE-H1) complexElectron microscopy1.97762023-09-20
68CDR|1|BbTransfer RNAMessenger RNA, Transfer RNA PheSaccharomyces cerevisiaeEukaryaRF00005Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarinElectron microscopy2.04762023-09-20
78CEH|1|BbTransfer RNAMessenger RNA, Transfer RNA PheSaccharomyces cerevisiaeEukaryaRF00005Translocation intermediate 4 (TI-4) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarinElectron microscopy2.05762023-09-20
86XZ7|1|gTransfer RNAfMet-Phe-tRNA(Phe)Saccharomyces cerevisiaeEukaryaRF00005E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).Electron microscopy2.1762020-07-22
98CIV|1|BbTransfer RNAMessenger RNA, Transfer RNA PheSaccharomyces cerevisiaeEukaryaRF00005Translocation intermediate 5 (TI-5) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarinElectron microscopy2.47762023-09-20

Release history

Release3.3783.3793.3803.3813.3823.3833.3843.3853.3863.3873.3883.3893.3903.3913.392
Date2025-03-132025-03-192025-03-262025-04-022025-04-092025-04-162025-04-232025-04-302025-05-072025-05-142025-05-212025-05-282025-06-042025-06-112025-06-18

Parents

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Children

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Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.

Showing 1 to 9 of 9 entries
#SViewPDBTitleMethodResolution#NTs
14TNA|1|AFURTHER REFINEMENT OF THE STRUCTURE OF YEAST T-RNA-PHEX-RAY DIFFRACTION2.576
21EHZ|1|AThe crystal structure of yeast phenylalanine tRNA at 1.93 A resolutionX-RAY DIFFRACTION1.9376
31EVV|1|ACRYSTAL STRUCTURE OF YEAST PHENYLALANINE TRANSFER RNA AT 2.0 A RESOLUTIONX-RAY DIFFRACTION276
45AXM|1|PCrystal structure of Thg1 like protein (TLP) with tRNA(Phe)X-RAY DIFFRACTION2.2173
58CCS|1|Bb80S S. cerevisiae ribosome with ligands in hybrid-1 pre-translocation (PRE-H1) complexELECTRON MICROSCOPY1.9776
68CIV|1|BbTranslocation intermediate 5 (TI-5) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarinELECTRON MICROSCOPY2.4776
78CEH|1|BbTranslocation intermediate 4 (TI-4) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarinELECTRON MICROSCOPY2.0576
88CDR|1|BbTranslocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarinELECTRON MICROSCOPY2.0476
96XZ7|1|gE. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).ELECTRON MICROSCOPY2.176

Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.

4TNA|1|A:4TNA|1|A = 04TNA|1|A:1EHZ|1|A = 0.10164TNA|1|A:1EVV|1|A = 0.16654TNA|1|A:5AXM|1|P = 0.26514TNA|1|A:8CCS|1|Bb = 0.33974TNA|1|A:8CIV|1|Bb = 0.37134TNA|1|A:8CEH|1|Bb = 0.35504TNA|1|A:8CDR|1|Bb = 0.38454TNA|1|A:6XZ7|1|g = 0.41371EHZ|1|A:4TNA|1|A = 0.10161EHZ|1|A:1EHZ|1|A = 01EHZ|1|A:1EVV|1|A = 0.16461EHZ|1|A:5AXM|1|P = 0.26171EHZ|1|A:8CCS|1|Bb = 0.36161EHZ|1|A:8CIV|1|Bb = 0.38321EHZ|1|A:8CEH|1|Bb = 0.36511EHZ|1|A:8CDR|1|Bb = 0.39541EHZ|1|A:6XZ7|1|g = 0.42071EVV|1|A:4TNA|1|A = 0.16651EVV|1|A:1EHZ|1|A = 0.16461EVV|1|A:1EVV|1|A = 01EVV|1|A:5AXM|1|P = 0.25541EVV|1|A:8CCS|1|Bb = 0.37411EVV|1|A:8CIV|1|Bb = 0.37841EVV|1|A:8CEH|1|Bb = 0.36491EVV|1|A:8CDR|1|Bb = 0.39081EVV|1|A:6XZ7|1|g = 0.41455AXM|1|P:4TNA|1|A = 0.26515AXM|1|P:1EHZ|1|A = 0.26175AXM|1|P:1EVV|1|A = 0.25545AXM|1|P:5AXM|1|P = 05AXM|1|P:8CCS|1|Bb = 0.33095AXM|1|P:8CIV|1|Bb = 0.33475AXM|1|P:8CEH|1|Bb = 0.31715AXM|1|P:8CDR|1|Bb = 0.33455AXM|1|P:6XZ7|1|g not available8CCS|1|Bb:4TNA|1|A = 0.33978CCS|1|Bb:1EHZ|1|A = 0.36168CCS|1|Bb:1EVV|1|A = 0.37418CCS|1|Bb:5AXM|1|P = 0.33098CCS|1|Bb:8CCS|1|Bb = 08CCS|1|Bb:8CIV|1|Bb = 0.22138CCS|1|Bb:8CEH|1|Bb = 0.23168CCS|1|Bb:8CDR|1|Bb = 0.24328CCS|1|Bb:6XZ7|1|g = 0.36528CIV|1|Bb:4TNA|1|A = 0.37138CIV|1|Bb:1EHZ|1|A = 0.38328CIV|1|Bb:1EVV|1|A = 0.37848CIV|1|Bb:5AXM|1|P = 0.33478CIV|1|Bb:8CCS|1|Bb = 0.22138CIV|1|Bb:8CIV|1|Bb = 08CIV|1|Bb:8CEH|1|Bb = 0.12998CIV|1|Bb:8CDR|1|Bb = 0.14598CIV|1|Bb:6XZ7|1|g = 0.33928CEH|1|Bb:4TNA|1|A = 0.35508CEH|1|Bb:1EHZ|1|A = 0.36518CEH|1|Bb:1EVV|1|A = 0.36498CEH|1|Bb:5AXM|1|P = 0.31718CEH|1|Bb:8CCS|1|Bb = 0.23168CEH|1|Bb:8CIV|1|Bb = 0.12998CEH|1|Bb:8CEH|1|Bb = 08CEH|1|Bb:8CDR|1|Bb = 0.12468CEH|1|Bb:6XZ7|1|g = 0.32888CDR|1|Bb:4TNA|1|A = 0.38458CDR|1|Bb:1EHZ|1|A = 0.39548CDR|1|Bb:1EVV|1|A = 0.39088CDR|1|Bb:5AXM|1|P = 0.33458CDR|1|Bb:8CCS|1|Bb = 0.24328CDR|1|Bb:8CIV|1|Bb = 0.14598CDR|1|Bb:8CEH|1|Bb = 0.12468CDR|1|Bb:8CDR|1|Bb = 08CDR|1|Bb:6XZ7|1|g = 0.33716XZ7|1|g:4TNA|1|A = 0.41376XZ7|1|g:1EHZ|1|A = 0.42076XZ7|1|g:1EVV|1|A = 0.41456XZ7|1|g:5AXM|1|P not available6XZ7|1|g:8CCS|1|Bb = 0.36526XZ7|1|g:8CIV|1|Bb = 0.33926XZ7|1|g:8CEH|1|Bb = 0.32886XZ7|1|g:8CDR|1|Bb = 0.33716XZ7|1|g:6XZ7|1|g = 04TNA|1|A1EHZ|1|A1EVV|1|A5AXM|1|P8CCS|1|Bb8CIV|1|Bb8CEH|1|Bb8CDR|1|Bb6XZ7|1|gDiscrepancy0.000.100.200.300.40

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