#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodÅDate
15AXM|1|P (rep)Transfer RNARNA (75-MER)Saccharomyces cerevisiaeEukaryaRF00005Crystal structure of Thg1 like protein (TLP) with tRNA(Phe)X-ray diffraction2.212016-08-03
21EVV|1|ATransfer RNAPHENYLALANINE TRANSFER RNASaccharomycesEukaryaRF00005CRYSTAL STRUCTURE OF YEAST PHENYLALANINE TRANSFER RNA AT 2.0 A RESOLUTIONX-ray diffraction22000-05-01
35AXN|1|PTransfer RNARNA (75-MER)Saccharomyces cerevisiaeEukaryaRF00005Crystal structure of Thg1 like protein (TLP) with tRNA(Phe) and GDPNPX-ray diffraction2.72016-08-03
41OB2|1|BTransfer RNATRANSFER-RNA, PHESaccharomyces cerevisiaeEukaryaRF00005E. coli elongation factor EF-Tu complexed with the antibiotic kirromycin, a GTP analog, and Phe-tRNAX-ray diffraction3.352004-05-27
56LVR|1|DTransfer RNAyeast phenylalanine tRNASaccharomyces cerevisiaeEukaryaRF00005Crystal structure of the PPR domain of Arabidopsis thaliana protein-only RNase P 1 (PRORP1) in complex with tRNAX-ray diffraction2.852020-08-12
63WC2|1|PTransfer RNA76mer-tRNARF00005Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a tRNA(Phe)(GUG)X-ray diffraction3.642013-12-18
76LVR|1|BTransfer RNAyeast phenylalanine tRNASaccharomyces cerevisiaeEukaryaRF00005Crystal structure of the PPR domain of Arabidopsis thaliana protein-only RNase P 1 (PRORP1) in complex with tRNAX-ray diffraction2.852020-08-12
83WC2|1|QTransfer RNA76mer-tRNARF00005Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a tRNA(Phe)(GUG)X-ray diffraction3.642013-12-18
91SZ1|1|FTransfer RNAT-RNA (76-MER)RF00005Mechanism of CCA-adding enzymes specificity revealed by crystal structures of ternary complexesX-ray diffraction6.212004-08-10
101SZ1|1|ETransfer RNAT-RNA (76-MER)RF00005Mechanism of CCA-adding enzymes specificity revealed by crystal structures of ternary complexesX-ray diffraction6.212004-08-10
114TNA|1|ATransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005FURTHER REFINEMENT OF THE STRUCTURE OF YEAST T-RNA-PHEX-ray diffraction2.51978-04-12
121EHZ|1|ATransfer RNATRANSFER RNA (PHE)Saccharomyces cerevisiaeEukaryaRF00005The crystal structure of yeast phenylalanine tRNA at 1.93 A resolutionX-ray diffraction1.932000-10-02
136XZ7|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 microscopy2.12020-07-22
141I9V|1|ATransfer RNAPHENYLALANINE TRANSFER RNASaccharomyces cerevisiaeEukaryaRF00005CRYSTAL STRUCTURE ANALYSIS OF A TRNA-NEOMYCIN COMPLEXX-ray diffraction2.62001-06-04
156XZB|1|g2Transfer RNAfMet-Phe-tRNA(Phe)Saccharomyces cerevisiaeEukaryaRF00005E. coli 70S ribosome in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet) (focused classification).Electron microscopy2.542020-11-04
166XIR|1|AZTransfer RNATransfer RNASaccharomyces cerevisiaeEukaryaRF00005Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative StressElectron microscopy3.22020-08-26
176XIR|1|AXTransfer RNATransfer RNASaccharomyces cerevisiaeEukaryaRF00005Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative StressElectron microscopy3.22020-08-26
186GZ5|1|BwTransfer RNAE/E-site-tRNA, mRNASaccharomyces cerevisiaeEukaryaRF00005tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)Electron microscopy3.52018-12-05
191TN1|1|ATransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005CRYSTALLOGRAPHIC AND BIOCHEMICAL INVESTIGATION OF THE LEAD(II)-CATALYZED HYDROLYSIS OF YEAST PHENYLALANINE TRNAX-ray diffraction31987-01-15
201TN2|1|ATransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005CRYSTALLOGRAPHIC AND BIOCHEMICAL INVESTIGATION OF THE LEAD(II)-CATALYZED HYDROLYSIS OF YEAST PHENYLALANINE T-RNAX-ray diffraction31986-10-24
216GZ3|1|BwTransfer RNApe/E-site-tRNA, mRNASaccharomyces cerevisiaeEukaryaRF00005tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-1 (TI-POST-1)Electron microscopy3.62018-12-05
221TTT|1|FTransfer RNATRANSFER RIBONUCLEIC ACID (YEAST, PHE)RF00005Phe-tRNA, elongation factoR EF-TU:GDPNP ternary complexX-ray diffraction2.71996-12-23
235M1J|1|A3Transfer RNAyeast Phe-tRNA-Phe, nonstop mRNASaccharomyces cerevisiaeEukaryaRF00005Nonstop ribosomal complex bound with Dom34 and Hbs1Electron microscopy3.32017-01-18
248CTH|1|CPhe-tRNASaccharomyces cerevisiaeEukaryaCryo-EM structure of human METTL1-WDR4-tRNA(Phe) complexElectron microscopy3.32022-12-07
254TRA|1|ATransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005RESTRAINED REFINEMENT OF TWO CRYSTALLINE FORMS OF YEAST ASPARTIC ACID AND PHENYLALANINE TRANSFER RNA CRYSTALSX-ray diffraction31987-11-06
266TNA|1|ATransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005CRYSTAL STRUCTURE OF YEAST PHENYLALANINE T-RNA. I.CRYSTALLOGRAPHIC REFINEMENTX-ray diffraction2.71979-01-16
276GQV|1|AYTransfer RNATransfer RNA - Phe, Messenger RNASaccharomyces cerevisiaeEukaryaRF00005Cryo-EM recosntruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GMPPCP)Electron microscopy42018-07-11
281TTT|1|DTransfer RNATRANSFER RIBONUCLEIC ACID (YEAST, PHE)RF00005Phe-tRNA, elongation factoR EF-TU:GDPNP ternary complexX-ray diffraction2.71996-12-23
291TTT|1|ETransfer RNATRANSFER RIBONUCLEIC ACID (YEAST, PHE)RF00005Phe-tRNA, elongation factoR EF-TU:GDPNP ternary complexX-ray diffraction2.71996-12-23
306GQB|1|AXTransfer RNATransfer RNA - Phe, Messenger RNASaccharomyces cerevisiaeEukaryaRF00005Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GDP+AlF4/sordarin)Electron microscopy3.92018-07-11
316XIQ|1|AXTransfer RNATransfer RNASaccharomyces cerevisiaeEukaryaRF00005Cryo-EM Structure of K63R Ubiquitin Mutant Ribosome under Oxidative StressElectron microscopy4.22020-08-26
326XIQ|1|AZTransfer RNATransfer RNASaccharomyces cerevisiaeEukaryaRF00005Cryo-EM Structure of K63R Ubiquitin Mutant Ribosome under Oxidative StressElectron microscopy4.22020-08-26
336GQ1|1|AXTransfer RNATransfer RNA - Phe, Messenger RNASaccharomyces cerevisiaeEukaryaRF00005Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GMPPCP/sordarin)Electron microscopy4.42018-07-11
341TRA|1|ATransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005RESTRAINED REFINEMENT OF THE MONOCLINIC FORM OF YEAST PHENYLALANINE TRANSFER RNA. TEMPERATURE FACTORS AND DYNAMICS, COORDINATED WATERS, AND BASE-PAIR PROPELLER TWIST ANGLESX-ray diffraction31986-07-14
351JGQ|1|CTransfer RNAtRNA(Phe), MESSENGER RNA MF36RF00005The 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 1GIYX-ray diffraction52001-07-20
361JGQ|1|BTransfer RNAtRNA(Phe)RF00005The 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 1GIYX-ray diffraction52001-07-20
374V42|1|ACTransfer RNATRNA(PHE), A- AND P-SITE MESSENGER RNA CODONSRF00005Crystal structure of the ribosome at 5.5 A resolution.X-ray diffraction5.52014-07-09
384V42|1|ABTransfer RNATRNA(PHE), A- AND P-SITE MESSENGER RNA CODONSRF00005Crystal structure of the ribosome at 5.5 A resolution.X-ray diffraction5.52014-07-09
391JGO|1|CTransfer RNAtRNA(Phe), MESSENGER RNA MK27RF00005The 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 1GIYX-ray diffraction5.62001-07-20
401JGO|1|BTransfer RNAtRNA(Phe), MESSENGER RNA MK27RF00005The 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 1GIYX-ray diffraction5.62001-07-20
414V69|1|AYTransfer RNAA/T-site tRNA Phe, mRNARF00005Ternary complex-bound E.coli 70S ribosome.Electron microscopy6.72014-07-09
421JGP|1|CTransfer RNAtRNA(Phe), MESSENGER RNA MV36RF00005The 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 1GIYX-ray diffraction72001-07-20
431JGP|1|BTransfer RNAtRNA(Phe), MESSENGER RNA MV36RF00005The 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 1GIYX-ray diffraction72001-07-20
441QZB|1|BTransfer RNAPhe-tRNARF00005Coordinates of the A-site tRNA model fitted into the cryo-EM map of 70S ribosome in the pre-translocational stateElectron microscopy92003-11-04
451QZA|1|BTransfer RNAPhe-tRNARF00005Coordinates of the A/T site tRNA model fitted into the cryo-EM map of EF-Tu ternary complex (GDP.Kirromycin) bound 70S ribosomeElectron microscopy102003-11-04
461LS2|1|BTransfer RNAPhenylalanine transfer RNASaccharomyces cerevisiaeEukaryaRF00005Fitting of EF-Tu and tRNA in the Low Resolution Cryo-EM Map of an EF-Tu Ternary Complex (GDP and Kirromycin) Bound to E. coli 70S RibosomeElectron microscopy16.82002-06-26
471FCW|1|ATransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005TRNA POSITIONS DURING THE ELONGATION CYCLEElectron microscopy172000-08-11
481FCW|1|DTransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005TRNA POSITIONS DURING THE ELONGATION CYCLEElectron microscopy172000-08-11
491FCW|1|BTransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005TRNA POSITIONS DURING THE ELONGATION CYCLEElectron microscopy172000-08-11
501FCW|1|ETransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005TRNA POSITIONS DURING THE ELONGATION CYCLEElectron microscopy172000-08-11
511FCW|1|CTransfer RNATRNAPHESaccharomyces cerevisiaeEukaryaRF00005TRNA POSITIONS DURING THE ELONGATION CYCLEElectron microscopy172000-08-11

Release history

Release3.2603.2613.2623.2633.2643.2653.2663.2673.2683.2693.2703.2713.2723.2733.2743.2753.2763.2773.2783.279
Date2022-12-072022-12-142022-12-212022-12-282023-01-042023-01-112023-01-182023-01-252023-02-012023-02-082023-02-152023-02-222023-03-012023-03-082023-03-152023-03-222023-03-292023-04-052023-04-122023-04-19

Children

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Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5

#S - ordering by similarity (same as in the heat map).
#SPDBTitleMethodResolutionLength
14V69|1|AYTernary complex-bound E.coli 70S ribosome.ELECTRON MICROSCOPY6.776
21TTT|1|FPhe-tRNA, elongation factoR EF-TU:GDPNP ternary complexX-RAY DIFFRACTION2.762
31TTT|1|EPhe-tRNA, elongation factoR EF-TU:GDPNP ternary complexX-RAY DIFFRACTION2.762
41OB2|1|BE. coli elongation factor EF-Tu complexed with the antibiotic kirromycin, a GTP analog, and Phe-tRNAX-RAY DIFFRACTION3.3563
51TTT|1|DPhe-tRNA, elongation factoR EF-TU:GDPNP ternary complexX-RAY DIFFRACTION2.762
66XZ7|1|gE. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).ELECTRON MICROSCOPY2.161
76XZB|1|g2E. coli 70S ribosome in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet) (focused classification).ELECTRON MICROSCOPY2.5461
85M1J|1|A3Nonstop ribosomal complex bound with Dom34 and Hbs1ELECTRON MICROSCOPY3.362
91JGO|1|CThe 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 1GIYX-RAY DIFFRACTION5.662
101JGP|1|CThe 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 1GIYX-RAY DIFFRACTION762
114V42|1|ACCrystal structure of the ribosome at 5.5 A resolution.X-RAY DIFFRACTION5.562
121JGQ|1|CThe 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 1GIYX-RAY DIFFRACTION562
133WC2|1|QCrystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a tRNA(Phe)(GUG)X-RAY DIFFRACTION3.6473
143WC2|1|PCrystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a tRNA(Phe)(GUG)X-RAY DIFFRACTION3.6474
151SZ1|1|EMechanism of CCA-adding enzymes specificity revealed by crystal structures of ternary complexesX-RAY DIFFRACTION6.2162
161SZ1|1|FMechanism of CCA-adding enzymes specificity revealed by crystal structures of ternary complexesX-RAY DIFFRACTION6.2162
171JGO|1|BThe 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 1GIYX-RAY DIFFRACTION5.662
181JGP|1|BThe 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 1GIYX-RAY DIFFRACTION762
194V42|1|ABCrystal structure of the ribosome at 5.5 A resolution.X-RAY DIFFRACTION5.562
201JGQ|1|BThe 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 1GIYX-RAY DIFFRACTION562
216LVR|1|BCrystal structure of the PPR domain of Arabidopsis thaliana protein-only RNase P 1 (PRORP1) in complex with tRNAX-RAY DIFFRACTION2.8558
226LVR|1|DCrystal structure of the PPR domain of Arabidopsis thaliana protein-only RNase P 1 (PRORP1) in complex with tRNAX-RAY DIFFRACTION2.8558
235AXM|1|PCrystal structure of Thg1 like protein (TLP) with tRNA(Phe)X-RAY DIFFRACTION2.2172
245AXN|1|PCrystal structure of Thg1 like protein (TLP) with tRNA(Phe) and GDPNPX-RAY DIFFRACTION2.765
251EVV|1|ACRYSTAL STRUCTURE OF YEAST PHENYLALANINE TRANSFER RNA AT 2.0 A RESOLUTIONX-RAY DIFFRACTION262
261I9V|1|ACRYSTAL STRUCTURE ANALYSIS OF A TRNA-NEOMYCIN COMPLEXX-RAY DIFFRACTION2.674
271FCW|1|ATRNA POSITIONS DURING THE ELONGATION CYCLEELECTRON MICROSCOPY1762
281FCW|1|BTRNA POSITIONS DURING THE ELONGATION CYCLEELECTRON MICROSCOPY1762
291FCW|1|CTRNA POSITIONS DURING THE ELONGATION CYCLEELECTRON MICROSCOPY1762
301FCW|1|DTRNA POSITIONS DURING THE ELONGATION CYCLEELECTRON MICROSCOPY1762
311FCW|1|ETRNA POSITIONS DURING THE ELONGATION CYCLEELECTRON MICROSCOPY1762
324TRA|1|ARESTRAINED REFINEMENT OF TWO CRYSTALLINE FORMS OF YEAST ASPARTIC ACID AND PHENYLALANINE TRANSFER RNA CRYSTALSX-RAY DIFFRACTION362
336TNA|1|ACRYSTAL STRUCTURE OF YEAST PHENYLALANINE T-RNA. I.CRYSTALLOGRAPHIC REFINEMENTX-RAY DIFFRACTION2.762
341TN2|1|ACRYSTALLOGRAPHIC AND BIOCHEMICAL INVESTIGATION OF THE LEAD(II)-CATALYZED HYDROLYSIS OF YEAST PHENYLALANINE T-RNAX-RAY DIFFRACTION362
351TN1|1|ACRYSTALLOGRAPHIC AND BIOCHEMICAL INVESTIGATION OF THE LEAD(II)-CATALYZED HYDROLYSIS OF YEAST PHENYLALANINE TRNAX-RAY DIFFRACTION362
364TNA|1|AFURTHER REFINEMENT OF THE STRUCTURE OF YEAST T-RNA-PHEX-RAY DIFFRACTION2.562
371TRA|1|ARESTRAINED REFINEMENT OF THE MONOCLINIC FORM OF YEAST PHENYLALANINE TRANSFER RNA. TEMPERATURE FACTORS AND DYNAMICS, COORDINATED WATERS, AND BASE-PAIR PROPELLER TWIST ANGLESX-RAY DIFFRACTION362
381EHZ|1|AThe crystal structure of yeast phenylalanine tRNA at 1.93 A resolutionX-RAY DIFFRACTION1.9362
398CTH|1|CCryo-EM structure of human METTL1-WDR4-tRNA(Phe) complexELECTRON MICROSCOPY3.362
406GZ5|1|BwtRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)ELECTRON MICROSCOPY3.576
416GZ3|1|BwtRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-1 (TI-POST-1)ELECTRON MICROSCOPY3.676
426GQB|1|AXCryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GDP+AlF4/sordarin)ELECTRON MICROSCOPY3.976
436GQ1|1|AXCryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GMPPCP/sordarin)ELECTRON MICROSCOPY4.476
446GQV|1|AYCryo-EM recosntruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GMPPCP)ELECTRON MICROSCOPY476
456XIR|1|AZCryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative StressELECTRON MICROSCOPY3.273
466XIR|1|AXCryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative StressELECTRON MICROSCOPY3.273
476XIQ|1|AZCryo-EM Structure of K63R Ubiquitin Mutant Ribosome under Oxidative StressELECTRON MICROSCOPY4.276
486XIQ|1|AXCryo-EM Structure of K63R Ubiquitin Mutant Ribosome under Oxidative StressELECTRON MICROSCOPY4.276
491LS2|1|BFitting of EF-Tu and tRNA in the Low Resolution Cryo-EM Map of an EF-Tu Ternary Complex (GDP and Kirromycin) Bound to E. coli 70S RibosomeELECTRON MICROSCOPY16.876
501QZA|1|BCoordinates of the A/T site tRNA model fitted into the cryo-EM map of EF-Tu ternary complex (GDP.Kirromycin) bound 70S ribosomeELECTRON MICROSCOPY1075
511QZB|1|BCoordinates of the A-site tRNA model fitted into the cryo-EM map of 70S ribosome in the pre-translocational stateELECTRON MICROSCOPY975