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Equivalence class NR_4.0_57938.1 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
14YCO|1|D (rep)Transfer RNAtRNApheEscherichia coliBacteriaRF00005E. coli dihydrouridine synthase C (DusC) in complex with tRNAPheX-ray diffraction2.12015-04-22
24YCO|1|ETransfer RNAtRNApheEscherichia coliBacteriaRF00005E. coli dihydrouridine synthase C (DusC) in complex with tRNAPheX-ray diffraction2.12015-04-22
33FOZ|1|CTransfer RNAtRNA(Phe)RF00005Structure of E. coli Isopentenyl-tRNA transferase in complex with E. coli tRNA(Phe)X-ray diffraction2.52009-01-20
44YCO|1|FTransfer RNAtRNApheEscherichia coliBacteriaRF00005E. coli dihydrouridine synthase C (DusC) in complex with tRNAPheX-ray diffraction2.12015-04-22
53JCE|1|6Transfer RNAtRNA, mRNAsynthetic constructSyntheticRF00005Structure of Escherichia coli EF4 in pretranslocational ribosomes (Pre EF4)Electron microscopy3.22016-01-13
65AFI|1|yTransfer RNAA/T-site Phe-tRNAPhe, mRNAEscherichia coliBacteriaRF000052.9A Structure of E. coli ribosome-EF-TU complex by cs-corrected cryo-EMElectron microscopy2.92015-03-11
75DOY|1|1wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolutionX-ray diffraction2.62015-12-30
85J4B|1|1wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-ray diffraction2.62016-04-27
95IQR|1|6Transfer RNAA/T tRNA(Phe), mRNAEscherichia coliBacteriaRF00005Structure of RelA bound to the 70S ribosomeElectron microscopy32016-05-04
105J4B|1|1yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-ray diffraction2.62016-04-27
115DOY|1|2wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolutionX-ray diffraction2.62015-12-30
125DOY|1|1yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolutionX-ray diffraction2.62015-12-30
133JCD|1|8Transfer RNAtRNA, mRNAsynthetic constructSyntheticRF00005Structure of Escherichia coli EF4 in posttranslocational ribosomes (Post EF4)Electron microscopy3.72016-01-13
145J4B|1|2yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-ray diffraction2.62016-04-27
155J4B|1|2wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-ray diffraction2.62016-04-27
165DOY|1|2yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolutionX-ray diffraction2.62015-12-30
174V5G|1|CVTransfer RNAE-SITE TRNA PHE OR P-SITE TRNA PHE, MRNAEscherichia coliBacteriaRF00005The crystal structure of the 70S ribosome bound to EF-Tu and tRNAX-ray diffraction3.62014-07-09
184V5G|1|AVTransfer RNAE-SITE TRNA PHE OR P-SITE TRNA PHE, MRNAEscherichia coliBacteriaRF00005The crystal structure of the 70S ribosome bound to EF-Tu and tRNAX-ray diffraction3.62014-07-09
194V9I|1|AWTransfer RNAE-SITE tRNAEscherichia coliBacteriaRF00005Crystal structure of thermus thermophilus 70S in complex with tRNAs and mRNA containing a pseudouridine in a stop codonX-ray diffraction3.32014-07-09
203JBV|1|VTransfer RNARNA (76-MER), RNA (5'-R(P*CP*UP*GP*GP*CP*CP*CP*UP*CP*AP*A)-3')Escherichia coliBacteriaRF00005Mechanisms of Ribosome Stalling by SecM at Multiple Elongation StepsElectron microscopy3.322016-01-27
213JCD|1|9Transfer RNAtRNAsynthetic constructSyntheticRF00005Structure of Escherichia coli EF4 in posttranslocational ribosomes (Post EF4)Electron microscopy3.72016-01-13
224V9I|1|CWTransfer RNAE-SITE tRNAEscherichia coliBacteriaRF00005Crystal structure of thermus thermophilus 70S in complex with tRNAs and mRNA containing a pseudouridine in a stop codonX-ray diffraction3.32014-07-09
234WRO|1|1LTransfer RNAtRNA-PheEscherichia coliBacteriaRF00005Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-siteX-ray diffraction3.052015-06-10
245IQR|1|4Transfer RNAE-site tRNA(Phe)Escherichia coliBacteriaRF00005Structure of RelA bound to the 70S ribosomeElectron microscopy32016-05-04
253JCE|1|9Transfer RNAtRNAsynthetic constructSyntheticRF00005Structure of Escherichia coli EF4 in pretranslocational ribosomes (Pre EF4)Electron microscopy3.22016-01-13
264V5G|1|CWTransfer RNAE-SITE TRNA PHE OR P-SITE TRNA PHEEscherichia coliBacteriaRF00005The crystal structure of the 70S ribosome bound to EF-Tu and tRNAX-ray diffraction3.62014-07-09
274V5G|1|AWTransfer RNAE-SITE TRNA PHE OR P-SITE TRNA PHEEscherichia coliBacteriaRF00005The crystal structure of the 70S ribosome bound to EF-Tu and tRNAX-ray diffraction3.62014-07-09
284WRO|1|1KTransfer RNAtRNA-Phe, RNA (30-MER)Escherichia coliBacteriaRF00005Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-siteX-ray diffraction3.052015-06-10
294WRO|1|3LTransfer RNAtRNA-PheEscherichia coliBacteriaRF00005Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-siteX-ray diffraction3.052015-06-10
304WRO|1|3KTransfer RNAtRNA-PheEscherichia coliBacteriaRF00005Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-siteX-ray diffraction3.052015-06-10

Release history

Release6.0
Date2017-04-04

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_4.0_57938.1NR_4.0_75770.16.0(30) 4WRO|1|3L, 3FOZ|1|C, 5IQR|1|6, 4YCO|1|E, 3JCD|1|8, 4V5G|1|CW, 5IQR|1|4, 4YCO|1|D, 5J4B|1|1w, 3JCE|1|6, 5AFI|1|y, 4V9I|1|CW, 3JCD|1|9, 4YCO|1|F, 4V9I|1|AW, 5J4B|1|2w, 5DOY|1|1w, 4WRO|1|1L, 5J4B|1|1y, 3JCE|1|9, 4WRO|1|1K, 5DOY|1|2w, 4WRO|1|3K, 5J4B|1|2y, 4V5G|1|AV, 5DOY|1|1y, 5DOY|1|2y, 4V5G|1|CV, 4V5G|1|AW, 3JBV|1|V(0) (127) 4V5D|1|CY, 4W2F|1|AY, 4V5J|1|AW, 4W2F|1|AW, 4Y4P|1|2y, 4WT1|1|3K, 4V9C|1|AV, 4WQU|1|DY, 4V5C|1|CW, 4P6F|1|QW, 4WT1|1|1L, 4V5C|1|AY, 4V6F|1|CB, 3L0U|1|A, 4WQR|1|1K, 4V5S|1|AV, 4WPO|1|BY, 4V6F|1|BD, 4WQF|1|DY, 1VY5|1|CY, 4WPO|1|BW, 4V5Q|1|AW, 1VY4|1|AW, 4V5L|1|AV, 4W2F|1|CY, 4V5Q|1|AV, 4W2H|1|CY, 4V5J|1|CW, 4Z3S|1|1y, 4W2F|1|CW, 4WZO|1|3K, 4V5D|1|AV, 4Z3S|1|1w, 4V5E|1|AV, 4V9D|1|AV, 4V5C|1|CY, 4V6F|1|CD, 4WSD|1|1L, 4WQR|1|3K, 4V9C|1|CV, 4WSD|1|1K, 2ZM5|1|C, 4P6F|1|XW, 4WQR|1|1L, 1VY7|1|CY, 4V5S|1|CV, 4V5Q|1|CW, 4V5S|1|AW, 4W2I|1|CW, 4WPO|1|DW, 4V5Q|1|CV, 1VY4|1|CW, 4W2I|1|AY, 4Z3S|1|2y, 4V5E|1|CW, 1VY4|1|AY, 4V5L|1|AW, 4Z3S|1|2w, 4W2G|1|AW, 4V5E|1|CV, 4V9H|1|AV, 4WSD|1|3L, 4WZO|1|3L, 4V9D|1|BV, 4V5D|1|AW, 4WSD|1|3K, 4V51|1|AW, 4WQR|1|3L, 4V6F|1|BB, 4V8J|1|AW, 4V5S|1|CW, 4WQF|1|BW, 2ZM5|1|D, 1VY5|1|AW, 4W2I|1|CY, 4V5P|1|CV, 4V5R|1|AV, 1VY4|1|CY, 4V5P|1|AW, 4W2G|1|CW, 4V5J|1|AV, 4Y4P|1|2w, 5J4C|1|1w, 4W2G|1|AY, 4Y4P|1|1y, 4V5D|1|CV, 4WT1|1|1K, 4V97|1|CW, 4V5C|1|AW, 4W2E|1|w, 4V5D|1|AY, 4V97|1|AW, 4WQU|1|BY, 4V6F|

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_4.0_57938.1NR_4.0_00480.17.0(30) 4V9I|1|AW, 5DOY|1|2w, 4WRO|1|3L, 5J4B|1|2w, 5DOY|1|1w, 5J4B|1|1w, 3JCD|1|8, 4V5G|1|CV, 4WRO|1|1L, 3JCE|1|9, 4YCO|1|F, 4V9I|1|CW, 5IQR|1|4, 3JCD|1|9, 4YCO|1|D, 5J4B|1|2y, 3FOZ|1|C, 5J4B|1|1y, 4V5G|1|CW, 4WRO|1|3K, 4V5G|1|AW, 4WRO|1|1K, 5IQR|1|6, 3JBV|1|V, 5DOY|1|2y, 5DOY|1|1y, 5AFI|1|y, 4V5G|1|AV, 3JCE|1|6, 4YCO|1|E(0) (127) 1VY5|1|CW, 5J4C|1|1y, 4V8J|1|CW, 4V5S|1|CV, 4Z3S|1|1y, 4V5R|1|CV, 4W2E|1|x, 1VY4|1|CY, 4V6F|1|CC, 5J4C|1|2y, 4Y4P|1|2w, 4V6F|1|BB, 4V5Q|1|CW, 4Z3S|1|2y, 4WZO|1|3K, 4WQU|1|DY, 4V9D|1|BV, 4V5P|1|CW, 4WQR|1|3L, 4V5S|1|AW, 4WT1|1|1L, 4V5R|1|AW, 4V5P|1|AV, 4WSD|1|1L, 4WQR|1|1K, 4V5J|1|CV, 4Z3S|1|1w, 4WQF|1|BW, 4V5C|1|CY, 4V5Q|1|CV, 4WQU|1|DW, 4V5P|1|CV, 4V5E|1|CW, 4WQR|1|3K, 4WPO|1|BY, 4V5D|1|CY, 4V5C|1|AW, 4W2I|1|CY, 4P6F|1|XW, 4V5L|1|AV, 4WQF|1|DY, 4V5D|1|AY, 4WPO|1|DY, 4W2I|1|AW, 4V5C|1|CW, 2ZXU|1|D, 4W2G|1|CW, 4V9H|1|AV, 1VY7|1|CY, 4V9C|1|AV, 4WPO|1|BW, 4V51|1|CW, 4W2F|1|CY, 4P6F|1|QW, 1VY4|1|CW, 4W2I|1|CW, 4V6F|1|CB, 4Y4P|1|1y, 2ZXU|1|C, 4V97|1|CW, 4V5S|1|AV, 1VY7|1|AY, 4WT1|1|1K, 4V8J|1|AW, 4V6F|1|BD, 1VY5|1|AY, 4Y4P|1|1w, 4V5Q|1|AW, 4WQU|1|BY, 4V5E|1|CV, 4WT1|1|3L, 4WSD|1|3L, 4V5S|1|CW, 4WQF|1|DW, 4V5D|1|AW, 4WSD|1|1K, 4V5J|1|AW, 4V5E|1|AW, 4WOI|1|DW, 4V51|1|AW, 4WQU|1|BW, 4W2F|1|CW, 4V5D|1|CW, 4W2H|1|AY, 2ZM5|1|D, 4V9D|1|AV, 4V5D|1|AV, 4W2G|1|AY, 4W2F|1|AY, 4V5C|1|AY, 1VY5|1|AW, 4V6F|1|CD, 4Y4P|1|2y, 1VY4|

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).
#SPDBTitleMethodResolutionLengthNAKB_NA_annotationNAKB_protein_annotation
15AFI|1|yTitle: 2.9A Structure of E. coli ribosome-EF-TU complex by cs-corrected cryo-EMELECTRON MICROSCOPY2.967
25IQR|1|6Title: Structure of RelA bound to the 70S ribosomeELECTRON MICROSCOPY367
33FOZ|1|CTitle: Structure of E. coli Isopentenyl-tRNA transferase in complex with E. coli tRNA(Phe)X-RAY DIFFRACTION2.574
44WRO|1|1LTitle: Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-siteX-RAY DIFFRACTION3.0568
54WRO|1|1KTitle: Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-siteX-RAY DIFFRACTION3.0567
65J4B|1|2wTitle: Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-RAY DIFFRACTION2.665
75J4B|1|1wTitle: Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-RAY DIFFRACTION2.667
85DOY|1|1wTitle: Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolutionX-RAY DIFFRACTION2.668
95DOY|1|2wTitle: Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolutionX-RAY DIFFRACTION2.667
103JBV|1|VTitle: Mechanisms of Ribosome Stalling by SecM at Multiple Elongation StepsELECTRON MICROSCOPY3.3276
114V5G|1|AVTitle: The crystal structure of the 70S ribosome bound to EF-Tu and tRNAX-RAY DIFFRACTION3.676
124V5G|1|CVTitle: The crystal structure of the 70S ribosome bound to EF-Tu and tRNAX-RAY DIFFRACTION3.676
133JCD|1|8Title: Structure of Escherichia coli EF4 in posttranslocational ribosomes (Post EF4)ELECTRON MICROSCOPY3.776
144YCO|1|ETitle: E. coli dihydrouridine synthase C (DusC) in complex with tRNAPheX-RAY DIFFRACTION2.167
154YCO|1|DTitle: E. coli dihydrouridine synthase C (DusC) in complex with tRNAPheX-RAY DIFFRACTION2.174
164YCO|1|FTitle: E. coli dihydrouridine synthase C (DusC) in complex with tRNAPheX-RAY DIFFRACTION2.171
173JCE|1|6Title: Structure of Escherichia coli EF4 in pretranslocational ribosomes (Pre EF4)ELECTRON MICROSCOPY3.275
184WRO|1|3LTitle: Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-siteX-RAY DIFFRACTION3.0568
194WRO|1|3KTitle: Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-siteX-RAY DIFFRACTION3.0568
204V9I|1|AWTitle: Crystal structure of thermus thermophilus 70S in complex with tRNAs and mRNA containing a pseudouridine in a stop codonX-RAY DIFFRACTION3.376
214V9I|1|CWTitle: Crystal structure of thermus thermophilus 70S in complex with tRNAs and mRNA containing a pseudouridine in a stop codonX-RAY DIFFRACTION3.376
225J4B|1|2yTitle: Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-RAY DIFFRACTION2.666
235DOY|1|2yTitle: Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolutionX-RAY DIFFRACTION2.666
245J4B|1|1yTitle: Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-RAY DIFFRACTION2.667
255DOY|1|1yTitle: Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolutionX-RAY DIFFRACTION2.667
263JCE|1|9Title: Structure of Escherichia coli EF4 in pretranslocational ribosomes (Pre EF4)ELECTRON MICROSCOPY3.276
275IQR|1|4Title: Structure of RelA bound to the 70S ribosomeELECTRON MICROSCOPY376
284V5G|1|CWTitle: The crystal structure of the 70S ribosome bound to EF-Tu and tRNAX-RAY DIFFRACTION3.676
294V5G|1|AWTitle: The crystal structure of the 70S ribosome bound to EF-Tu and tRNAX-RAY DIFFRACTION3.676
303JCD|1|9Title: Structure of Escherichia coli EF4 in posttranslocational ribosomes (Post EF4)ELECTRON MICROSCOPY3.776

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