NR_4.0_76703.9

Members (34)
History
Heat map

#	IFE	Standardized name	Molecule	Organism	Source	Rfam	Title	Method	Res. Å	Date
1	5E81\|1\|1K (rep)	Transfer RNA	tRNA-Lys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair	X-ray diffraction	2.95	2016-01-27
2	5EL6\|1\|1L	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin	X-ray diffraction	3.1	2016-01-27
3	5EL4\|1\|1K	Transfer RNA	tRNA-Lys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position	X-ray diffraction	3.15	2016-01-27
4	5IB8\|1\|1K	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNALys with U-G mismatch in the A-site	X-ray diffraction	3.13	2016-05-25
5	5IB7\|1\|1K	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin	X-ray diffraction	2.99	2016-05-25
6	5E7K\|1\|1K	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site	X-ray diffraction	3.2	2016-01-27
7	5EL4\|1\|1L	Transfer RNA	tRNA-Lys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position	X-ray diffraction	3.15	2016-01-27
8	5EL6\|1\|1K	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin	X-ray diffraction	3.1	2016-01-27
9	5EL7\|1\|1K	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin	X-ray diffraction	3.15	2016-01-27
10	5E81\|1\|1L	Transfer RNA	tRNA-Lys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair	X-ray diffraction	2.95	2016-01-27
11	5IB7\|1\|1L	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin	X-ray diffraction	2.99	2016-05-25
12	5E7K\|1\|1L	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site	X-ray diffraction	3.2	2016-01-27
13	5EL7\|1\|1L	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin	X-ray diffraction	3.15	2016-01-27
14	5EL5\|1\|1K	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position	X-ray diffraction	3.15	2016-01-27
15	5EL5\|1\|1L	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position	X-ray diffraction	3.15	2016-01-27
16	8BF7\|1\|5	Transfer RNA	Dipeptidyl A-site tRNA(Lys), mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and AAA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	Electron microscopy	2.33	2023-08-16
17	7N1P\|1\|Pt	Transfer RNA	tRNA, mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformation	Electron microscopy	2.33	2021-07-14
18	7N2U\|1\|Pt	Transfer RNA	tRNA, mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating 70S ribosome complex in a hybrid-H1 pre-translocation (PRE-H1) conformation	Electron microscopy	2.53	2021-07-14
19	8BH4\|1\|5	Transfer RNA	Dipeptidyl A-site tRNA(Lys), mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and AAm6A mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	Electron microscopy	2.62	2023-08-16
20	7N30\|1\|Pt	Transfer RNA	tRNA, mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating 70S ribosome complex in a hybrid-H2* pre-translocation (PRE-H2*) conformation	Electron microscopy	2.66	2021-07-14
21	7N31\|1\|Pt	Transfer RNA	tRNA, mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating 70S ribosome complex in a post-translocation (POST) conformation	Electron microscopy	2.69	2021-07-14
22	7N2C\|1\|Pt	Transfer RNA	Chains: Pt, Chains: mR	Escherichia coli	Bacteria	RF00005	Elongating 70S ribosome complex in a fusidic acid-stalled intermediate state of translocation bound to EF-G(GDP) (INT2)	Electron microscopy	2.72	2021-07-14
23	8BHJ\|1\|5	Transfer RNA	Dipeptidyl A-site tRNA(Lys), mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and Am6AA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	Electron microscopy	2.81	2023-08-16
24	7ZTA\|1\|PTR1	Transfer RNA	tRNA-Lys, mRNA	Escherichia coli K-12	Bacteria	RF00005	Structure of an Escherichia coli 70S ribosome stalled by Tetracenomycin X during translation of an MAAAPQK(C) peptide	Electron microscopy	2.7	2023-04-12
25	8BHN\|1\|5	Transfer RNA	Dipeptidyl A-site tRNA(Lys), mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and m6AAA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	Electron microscopy	2.85	2023-08-16
26	7D6Z\|1\|4	Transfer RNA	A-site tRNA	Escherichia coli	Bacteria	RF00005	Molecular model of the cryo-EM structure of 70S ribosome in complex with peptide deformylase and trigger factor	Electron microscopy	3.4	2021-04-07
27	8FON\|1\|QV	Transfer RNA	P-site tRNA^Lys(SUU), mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of tRNA^Lys(SUU) bound to AUA codon in the ribosomal P site	X-ray diffraction	3.64	2023-03-29
28	8FON\|1\|XV	Transfer RNA	P-site tRNA^Lys(SUU), A-site ASL^Phe, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of tRNA^Lys(SUU) bound to AUA codon in the ribosomal P site	X-ray diffraction	3.64	2023-03-29
29	5UYQ\|1\|Y	Transfer RNA	tRNALys, mRNA	Escherichia coli	Bacteria	RF00005	70S ribosome bound with near-cognate ternary complex base-paired to A site codon, closed 30S (Structure III-nc)	Electron microscopy	3.8	2017-06-07
30	5JTE\|1\|AW	Transfer RNA	A-site Lysine tRNA Lysine, mRNA	Escherichia coli	Bacteria	RF00005	Cryo-EM structure of an ErmBL-stalled ribosome in complex with A-, P-, and E-tRNA	Electron microscopy	3.6	2016-07-20
31	8FOM\|1\|QV	Transfer RNA	P-site tRNA^Lys(SUU), mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of tRNA^Lys(SUU) bound to UAA codon in the ribosomal P site	X-ray diffraction	3.58	2023-03-29
32	8FOM\|1\|XV	Transfer RNA	P-site tRNA^Lys(SUU), mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of tRNA^Lys(SUU) bound to UAA codon in the ribosomal P site	X-ray diffraction	3.58	2023-03-29
33	5UYP\|1\|Y	Transfer RNA	tRNALys	Escherichia coli	Bacteria	RF00005	70S ribosome bound with near-cognate ternary complex base-paired to A site codon, open 30S (Structure II-nc)	Electron microscopy	3.9	2017-06-07
34	5UYN\|1\|Y	Transfer RNA	tRNALys	Escherichia coli	Bacteria	RF00005	70S ribosome bound with near-cognate ternary complex not base-paired to A site codon (Structure I-nc)	Electron microscopy	4	2017-06-07

Release history

Release	3.296	3.297	3.298	3.299	3.300	3.301	3.302	3.303	3.304	3.305	3.306	3.307	3.308	3.309
Date	2023-08-16	2023-08-23	2023-08-30	2023-09-06	2023-09-13	2023-09-20	2023-09-27	2023-10-04	2023-10-11	2023-10-18	2023-10-25	2023-11-01	2023-11-08	2023-11-15

Parents

This class	Parent classes	Release id	Intersection	Added to this class	Only in parent
NR_4.0_76703.9	NR_4.0_76703.8	3.296	(30) 5UYN\|1\|Y, 5E7K\|1\|1K, 7N31\|1\|Pt, 5EL6\|1\|1K, 5JTE\|1\|AW, 7N30\|1\|Pt, 5EL5\|1\|1L, 5IB8\|1\|1K, 7N2U\|1\|Pt, 5EL5\|1\|1K, 5IB7\|1\|1L, 7N2C\|1\|Pt, 5EL4\|1\|1L, 8FON\|1\|XV, 5IB7\|1\|1K, 7N1P\|1\|Pt, 5EL4\|1\|1K, 8FON\|1\|QV, 5EL7\|1\|1L, 7D6Z\|1\|4, 5E81\|1\|1L, 8FOM\|1\|XV, 5EL7\|1\|1K, 5UYQ\|1\|Y, 5E81\|1\|1K, 8FOM\|1\|QV, 5UYP\|1\|Y, 5E7K\|1\|1L, 7ZTA\|1\|PTR1, 5EL6\|1\|1L	(4) 8BHJ\|1\|5, 8BH4\|1\|5, 8BF7\|1\|5, 8BHN\|1\|5	(0)

Children

This class	Descendant classes	Release id	Intersection	Only in this class	Added to child

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).

#S	PDB	Title	Method	Resolution	Length
1	5EL5\|1\|1K	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position	X-RAY DIFFRACTION	3.15	64
2	5IB8\|1\|1K	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNALys with U-G mismatch in the A-site	X-RAY DIFFRACTION	3.13	66
3	5IB7\|1\|1K	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin	X-RAY DIFFRACTION	2.99	67
4	5E81\|1\|1K	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair	X-RAY DIFFRACTION	2.95	67
5	5E7K\|1\|1K	Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site	X-RAY DIFFRACTION	3.2	66
6	5EL7\|1\|1K	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin	X-RAY DIFFRACTION	3.15	64
7	5EL6\|1\|1K	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin	X-RAY DIFFRACTION	3.1	64
8	5EL4\|1\|1K	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position	X-RAY DIFFRACTION	3.15	64
9	5EL4\|1\|1L	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position	X-RAY DIFFRACTION	3.15	72
10	5EL6\|1\|1L	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin	X-RAY DIFFRACTION	3.1	68
11	5E7K\|1\|1L	Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site	X-RAY DIFFRACTION	3.2	68
12	5E81\|1\|1L	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair	X-RAY DIFFRACTION	2.95	64
13	5IB7\|1\|1L	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin	X-RAY DIFFRACTION	2.99	66
14	5EL7\|1\|1L	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin	X-RAY DIFFRACTION	3.15	68
15	5EL5\|1\|1L	Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position	X-RAY DIFFRACTION	3.15	71
16	5JTE\|1\|AW	Cryo-EM structure of an ErmBL-stalled ribosome in complex with A-, P-, and E-tRNA	ELECTRON MICROSCOPY	3.6	66
17	7D6Z\|1\|4	Molecular model of the cryo-EM structure of 70S ribosome in complex with peptide deformylase and trigger factor	ELECTRON MICROSCOPY	3.4	66
18	7N1P\|1\|Pt	Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformation	ELECTRON MICROSCOPY	2.33	67
19	7N30\|1\|Pt	Elongating 70S ribosome complex in a hybrid-H2* pre-translocation (PRE-H2*) conformation	ELECTRON MICROSCOPY	2.66	66
20	7N2U\|1\|Pt	Elongating 70S ribosome complex in a hybrid-H1 pre-translocation (PRE-H1) conformation	ELECTRON MICROSCOPY	2.53	67
21	7N2C\|1\|Pt	Elongating 70S ribosome complex in a fusidic acid-stalled intermediate state of translocation bound to EF-G(GDP) (INT2)	ELECTRON MICROSCOPY	2.72	67
22	7N31\|1\|Pt	Elongating 70S ribosome complex in a post-translocation (POST) conformation	ELECTRON MICROSCOPY	2.69	67
23	8FOM\|1\|QV	Crystal structure of tRNA^Lys(SUU) bound to UAA codon in the ribosomal P site	X-RAY DIFFRACTION	3.58	66
24	8FOM\|1\|XV	Crystal structure of tRNA^Lys(SUU) bound to UAA codon in the ribosomal P site	X-RAY DIFFRACTION	3.58	66
25	8FON\|1\|XV	Crystal structure of tRNA^Lys(SUU) bound to AUA codon in the ribosomal P site	X-RAY DIFFRACTION	3.64	72
26	8FON\|1\|QV	Crystal structure of tRNA^Lys(SUU) bound to AUA codon in the ribosomal P site	X-RAY DIFFRACTION	3.64	72
27	7ZTA\|1\|PTR1	Structure of an Escherichia coli 70S ribosome stalled by Tetracenomycin X during translation of an MAAAPQK(C) peptide	ELECTRON MICROSCOPY	2.7	66
28	8BHJ\|1\|5	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and Am6AA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	ELECTRON MICROSCOPY	2.81	70
29	8BH4\|1\|5	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and AAm6A mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	ELECTRON MICROSCOPY	2.62	70
30	8BF7\|1\|5	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and AAA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	ELECTRON MICROSCOPY	2.33	70
31	8BHN\|1\|5	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and m6AAA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	ELECTRON MICROSCOPY	2.85	70
32	5UYN\|1\|Y	70S ribosome bound with near-cognate ternary complex not base-paired to A site codon (Structure I-nc)	ELECTRON MICROSCOPY	4	75
33	5UYP\|1\|Y	70S ribosome bound with near-cognate ternary complex base-paired to A site codon, open 30S (Structure II-nc)	ELECTRON MICROSCOPY	3.9	75
34	5UYQ\|1\|Y	70S ribosome bound with near-cognate ternary complex base-paired to A site codon, closed 30S (Structure III-nc)	ELECTRON MICROSCOPY	3.8	75

Equivalence class NR_4.0_76703.9 Current

Release history

Parents

Children