NR_all_30153.8

Members (30)
History
Heat map

#	IFE	Standardized name	Molecule	Organism	Source	Rfam	Title	Method	Res. Å	Date
1	5AXM\|1\|P (rep)	Transfer RNA	RNA (75-MER)	Saccharomyces cerevisiae	Eukarya	RF00005	Crystal structure of Thg1 like protein (TLP) with tRNA(Phe)	X-ray diffraction	2.21	2016-08-03
2	5AXN\|1\|P	Transfer RNA	RNA (75-MER)	Saccharomyces cerevisiae	Eukarya	RF00005	Crystal structure of Thg1 like protein (TLP) with tRNA(Phe) and GDPNP	X-ray diffraction	2.7	2016-08-03
3	1OB2\|1\|B	Transfer RNA	TRANSFER-RNA, PHE	Saccharomyces cerevisiae	Eukarya	RF00005	E. coli elongation factor EF-Tu complexed with the antibiotic kirromycin, a GTP analog, and Phe-tRNA	X-ray diffraction	3.35	2004-05-27
4	6LVR\|1\|D	Transfer RNA	yeast phenylalanine tRNA	Saccharomyces cerevisiae	Eukarya	RF00005	Crystal structure of the PPR domain of Arabidopsis thaliana protein-only RNase P 1 (PRORP1) in complex with tRNA	X-ray diffraction	2.85	2020-08-12
5	6LVR\|1\|B	Transfer RNA	yeast phenylalanine tRNA	Saccharomyces cerevisiae	Eukarya	RF00005	Crystal structure of the PPR domain of Arabidopsis thaliana protein-only RNase P 1 (PRORP1) in complex with tRNA	X-ray diffraction	2.85	2020-08-12
6	4TNA\|1\|A	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	FURTHER REFINEMENT OF THE STRUCTURE OF YEAST T-RNA-PHE	X-ray diffraction	2.5	1978-04-12
7	1EHZ\|1\|A	Transfer RNA	TRANSFER RNA (PHE)	Saccharomyces cerevisiae	Eukarya	RF00005	The crystal structure of yeast phenylalanine tRNA at 1.93 A resolution	X-ray diffraction	1.93	2000-10-02
8	6XZ7\|1\|g	Transfer RNA	fMet-Phe-tRNA(Phe)	Saccharomyces cerevisiae	Eukarya	RF00005	E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).	Electron microscopy	2.1	2020-07-22
9	1I9V\|1\|A	Transfer RNA	PHENYLALANINE TRANSFER RNA	Saccharomyces cerevisiae	Eukarya	RF00005	CRYSTAL STRUCTURE ANALYSIS OF A TRNA-NEOMYCIN COMPLEX	X-ray diffraction	2.6	2001-06-04
10	6XIR\|1\|AZ	Transfer RNA	Transfer RNA	Saccharomyces cerevisiae	Eukarya	RF00005	Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative Stress	Electron microscopy	3.2	2020-08-26
11	6XIR\|1\|AX	Transfer RNA	Transfer RNA	Saccharomyces cerevisiae	Eukarya	RF00005	Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative Stress	Electron microscopy	3.2	2020-08-26
12	6GZ5\|1\|Bw	Transfer RNA	E/E-site-tRNA, mRNA	Saccharomyces cerevisiae	Eukarya	RF00005	tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)	Electron microscopy	3.5	2018-12-05
13	6GZ3\|1\|Bw	Transfer RNA	pe/E-site-tRNA, mRNA	Saccharomyces cerevisiae	Eukarya	RF00005	tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-1 (TI-POST-1)	Electron microscopy	3.6	2018-12-05
14	1TN1\|1\|A	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	CRYSTALLOGRAPHIC AND BIOCHEMICAL INVESTIGATION OF THE LEAD(II)-CATALYZED HYDROLYSIS OF YEAST PHENYLALANINE TRNA	X-ray diffraction	3	1987-01-15
15	1TN2\|1\|A	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	CRYSTALLOGRAPHIC AND BIOCHEMICAL INVESTIGATION OF THE LEAD(II)-CATALYZED HYDROLYSIS OF YEAST PHENYLALANINE T-RNA	X-ray diffraction	3	1986-10-24
16	5M1J\|1\|A3	Transfer RNA	yeast Phe-tRNA-Phe, nonstop mRNA	Saccharomyces cerevisiae	Eukarya	RF00005	Nonstop ribosomal complex bound with Dom34 and Hbs1	Electron microscopy	3.3	2017-01-18
17	6GQV\|1\|AY	Transfer RNA	Transfer RNA - Phe, Messenger RNA	Saccharomyces cerevisiae	Eukarya	RF00005	Cryo-EM recosntruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GMPPCP)	Electron microscopy	4	2018-07-11
18	4TRA\|1\|A	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	RESTRAINED REFINEMENT OF TWO CRYSTALLINE FORMS OF YEAST ASPARTIC ACID AND PHENYLALANINE TRANSFER RNA CRYSTALS	X-ray diffraction	3	1987-11-06
19	6TNA\|1\|A	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	CRYSTAL STRUCTURE OF YEAST PHENYLALANINE T-RNA. I.CRYSTALLOGRAPHIC REFINEMENT	X-ray diffraction	2.7	1979-01-16
20	6GQB\|1\|AX	Transfer RNA	Transfer RNA - Phe, Messenger RNA	Saccharomyces cerevisiae	Eukarya	RF00005	Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GDP+AlF4/sordarin)	Electron microscopy	3.9	2018-07-11
21	6XIQ\|1\|AX	Transfer RNA	Transfer RNA	Saccharomyces cerevisiae	Eukarya	RF00005	Cryo-EM Structure of K63R Ubiquitin Mutant Ribosome under Oxidative Stress	Electron microscopy	4.2	2020-08-26
22	6XIQ\|1\|AZ	Transfer RNA	Transfer RNA	Saccharomyces cerevisiae	Eukarya	RF00005	Cryo-EM Structure of K63R Ubiquitin Mutant Ribosome under Oxidative Stress	Electron microscopy	4.2	2020-08-26
23	6GQ1\|1\|AX	Transfer RNA	Transfer RNA - Phe, Messenger RNA	Saccharomyces cerevisiae	Eukarya	RF00005	Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GMPPCP/sordarin)	Electron microscopy	4.4	2018-07-11
24	1TRA\|1\|A	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	RESTRAINED REFINEMENT OF THE MONOCLINIC FORM OF YEAST PHENYLALANINE TRANSFER RNA. TEMPERATURE FACTORS AND DYNAMICS, COORDINATED WATERS, AND BASE-PAIR PROPELLER TWIST ANGLES	X-ray diffraction	3	1986-07-14
25	1LS2\|1\|B	Transfer RNA	Phenylalanine transfer RNA	Saccharomyces cerevisiae	Eukarya	RF00005	Fitting 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 Ribosome	Electron microscopy	16.8	2002-06-26
26	1FCW\|1\|A	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	TRNA POSITIONS DURING THE ELONGATION CYCLE	Electron microscopy	17	2000-08-11
27	1FCW\|1\|D	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	TRNA POSITIONS DURING THE ELONGATION CYCLE	Electron microscopy	17	2000-08-11
28	1FCW\|1\|B	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	TRNA POSITIONS DURING THE ELONGATION CYCLE	Electron microscopy	17	2000-08-11
29	1FCW\|1\|E	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	TRNA POSITIONS DURING THE ELONGATION CYCLE	Electron microscopy	17	2000-08-11
30	1FCW\|1\|C	Transfer RNA	TRNAPHE	Saccharomyces cerevisiae	Eukarya	RF00005	TRNA POSITIONS DURING THE ELONGATION CYCLE	Electron microscopy	17	2000-08-11

Release history

Release	3.141	3.142	3.143	3.144	3.145	3.146	3.147	3.148	3.149	3.150
Date	2020-08-26	2020-09-02	2020-09-09	2020-09-16	2020-09-23	2020-09-30	2020-10-07	2020-10-14	2020-10-21	2020-10-28

Parents

This class	Parent classes	Release id	Intersection	Added to this class	Only in parent
NR_all_30153.8	NR_all_30153.7	3.141	(26) 4TRA\|1\|A, 6GZ5\|1\|Bw, 1FCW\|1\|E, 4TNA\|1\|A, 6GZ3\|1\|Bw, 1FCW\|1\|D, 1TRA\|1\|A, 6GQV\|1\|AY, 1FCW\|1\|C, 1TN2\|1\|A, 6GQB\|1\|AX, 1FCW\|1\|B, 1TN1\|1\|A, 6GQ1\|1\|AX, 1FCW\|1\|A, 6XZ7\|1\|g, 1OB2\|1\|B, 5M1J\|1\|A3, 1EHZ\|1\|A, 6TNA\|1\|A, 1LS2\|1\|B, 5AXN\|1\|P, 6LVR\|1\|D, 1I9V\|1\|A, 5AXM\|1\|P, 6LVR\|1\|B	(4) 6XIR\|1\|AX, 6XIQ\|1\|AZ, 6XIQ\|1\|AX, 6XIR\|1\|AZ	(0)

Children

This class	Descendant classes	Release id	Intersection	Only in this class	Added to child
NR_all_30153.8	NR_all_83593.1	3.151	(30) 4TRA\|1\|A, 6LVR\|1\|D, 1TN1\|1\|A, 6GQV\|1\|AY, 1FCW\|1\|D, 6XZ7\|1\|g, 5AXM\|1\|P, 6TNA\|1\|A, 1EHZ\|1\|A, 1TN2\|1\|A, 6GZ3\|1\|Bw, 1FCW\|1\|E, 5AXN\|1\|P, 6XIQ\|1\|AX, 1FCW\|1\|A, 1TRA\|1\|A, 1I9V\|1\|A, 5M1J\|1\|A3, 6XIQ\|1\|AZ, 1FCW\|1\|B, 4TNA\|1\|A, 6GZ5\|1\|Bw, 1LS2\|1\|B, 6GQ1\|1\|AX, 6XIR\|1\|AX, 1FCW\|1\|C, 6LVR\|1\|B, 1OB2\|1\|B, 6GQB\|1\|AX, 6XIR\|1\|AZ	(0)	(18) 4V42\|1\|AB, 1TTT\|1\|F, 1JGQ\|1\|B, 1JGP\|1\|B, 4V42\|1\|AC, 1EVV\|1\|A, 3WC2\|1\|P, 1TTT\|1\|D, 1SZ1\|1\|E, 1JGP\|1\|C, 1JGO\|1\|B, 3WC2\|1\|Q, 4V69\|1\|AY, 1TTT\|1\|E, 1JGO\|1\|C, 6XZB\|1\|g2, 1SZ1\|1\|F, 1JGQ\|1\|C

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	1LS2\|1\|B	Fitting 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 Ribosome	ELECTRON MICROSCOPY	16.8	76
2	1I9V\|1\|A	CRYSTAL STRUCTURE ANALYSIS OF A TRNA-NEOMYCIN COMPLEX	X-RAY DIFFRACTION	2.6	74
3	1FCW\|1\|C	TRNA POSITIONS DURING THE ELONGATION CYCLE	ELECTRON MICROSCOPY	17	62
4	1FCW\|1\|A	TRNA POSITIONS DURING THE ELONGATION CYCLE	ELECTRON MICROSCOPY	17	62
5	1FCW\|1\|B	TRNA POSITIONS DURING THE ELONGATION CYCLE	ELECTRON MICROSCOPY	17	62
6	1FCW\|1\|D	TRNA POSITIONS DURING THE ELONGATION CYCLE	ELECTRON MICROSCOPY	17	62
7	1FCW\|1\|E	TRNA POSITIONS DURING THE ELONGATION CYCLE	ELECTRON MICROSCOPY	17	62
8	4TRA\|1\|A	RESTRAINED REFINEMENT OF TWO CRYSTALLINE FORMS OF YEAST ASPARTIC ACID AND PHENYLALANINE TRANSFER RNA CRYSTALS	X-RAY DIFFRACTION	3	62
9	6TNA\|1\|A	CRYSTAL STRUCTURE OF YEAST PHENYLALANINE T-RNA. I.CRYSTALLOGRAPHIC REFINEMENT	X-RAY DIFFRACTION	2.7	62
10	1EHZ\|1\|A	The crystal structure of yeast phenylalanine tRNA at 1.93 A resolution	X-RAY DIFFRACTION	1.93	62
11	1TRA\|1\|A	RESTRAINED REFINEMENT OF THE MONOCLINIC FORM OF YEAST PHENYLALANINE TRANSFER RNA. TEMPERATURE FACTORS AND DYNAMICS, COORDINATED WATERS, AND BASE-PAIR PROPELLER TWIST ANGLES	X-RAY DIFFRACTION	3	62
12	4TNA\|1\|A	FURTHER REFINEMENT OF THE STRUCTURE OF YEAST T-RNA-PHE	X-RAY DIFFRACTION	2.5	62
13	1TN1\|1\|A	CRYSTALLOGRAPHIC AND BIOCHEMICAL INVESTIGATION OF THE LEAD(II)-CATALYZED HYDROLYSIS OF YEAST PHENYLALANINE TRNA	X-RAY DIFFRACTION	3	62
14	1TN2\|1\|A	CRYSTALLOGRAPHIC AND BIOCHEMICAL INVESTIGATION OF THE LEAD(II)-CATALYZED HYDROLYSIS OF YEAST PHENYLALANINE T-RNA	X-RAY DIFFRACTION	3	62
15	5AXN\|1\|P	Crystal structure of Thg1 like protein (TLP) with tRNA(Phe) and GDPNP	X-RAY DIFFRACTION	2.7	65
16	5AXM\|1\|P	Crystal structure of Thg1 like protein (TLP) with tRNA(Phe)	X-RAY DIFFRACTION	2.21	72
17	6LVR\|1\|B	Crystal structure of the PPR domain of Arabidopsis thaliana protein-only RNase P 1 (PRORP1) in complex with tRNA	X-RAY DIFFRACTION	2.85	58
18	6LVR\|1\|D	Crystal structure of the PPR domain of Arabidopsis thaliana protein-only RNase P 1 (PRORP1) in complex with tRNA	X-RAY DIFFRACTION	2.85	58
19	5M1J\|1\|A3	Nonstop ribosomal complex bound with Dom34 and Hbs1	ELECTRON MICROSCOPY	3.3	62
20	6XZ7\|1\|g	E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).	ELECTRON MICROSCOPY	2.1	61
21	1OB2\|1\|B	E. coli elongation factor EF-Tu complexed with the antibiotic kirromycin, a GTP analog, and Phe-tRNA	X-RAY DIFFRACTION	3.35	63
22	6GZ5\|1\|Bw	tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)	ELECTRON MICROSCOPY	3.5	76
23	6GZ3\|1\|Bw	tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-1 (TI-POST-1)	ELECTRON MICROSCOPY	3.6	76
24	6GQV\|1\|AY	Cryo-EM recosntruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GMPPCP)	ELECTRON MICROSCOPY	4	76
25	6GQB\|1\|AX	Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GDP+AlF4/sordarin)	ELECTRON MICROSCOPY	3.9	76
26	6GQ1\|1\|AX	Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GMPPCP/sordarin)	ELECTRON MICROSCOPY	4.4	76
27	6XIR\|1\|AX	Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative Stress	ELECTRON MICROSCOPY	3.2	73
28	6XIR\|1\|AZ	Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative Stress	ELECTRON MICROSCOPY	3.2	73
29	6XIQ\|1\|AZ	Cryo-EM Structure of K63R Ubiquitin Mutant Ribosome under Oxidative Stress	ELECTRON MICROSCOPY	4.2	76
30	6XIQ\|1\|AX	Cryo-EM Structure of K63R Ubiquitin Mutant Ribosome under Oxidative Stress	ELECTRON MICROSCOPY	4.2	76

Equivalence class NR_all_30153.8 Obsolete

Release history

Parents

Children