Equivalence class NR_4.0_73428.14 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 6ZM6|1|B (rep) | mitochondrial tRNAVal | Homo sapiens | Human mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNA | Electron microscopy | 2.59 | 2021-01-13 | |||
| 2 | 6ZM5|1|B | mitochondrial tRNAVal | Homo sapiens | Human mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide | Electron microscopy | 2.89 | 2021-01-13 | |||
| 3 | 7ODR|1|B | mitochondrial tRNAVal | Homo sapiens | State A of the human mitoribosomal large subunit assembly intermediate | Electron microscopy | 2.9 | 2021-06-23 | |||
| 4 | 7OF0|1|B | mitochondrial tRNAVal | Homo sapiens | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset1). | Electron microscopy | 2.2 | 2021-06-09 | |||
| 5 | 7ODT|1|B | mitochondrial tRNAVal | Homo sapiens | State C of the human mitoribosomal large subunit assembly intermediate | Electron microscopy | 3.1 | 2021-06-23 | |||
| 6 | 7ODS|1|B | mitochondrial tRNAVal | Homo sapiens | State B of the human mitoribosomal large subunit assembly intermediate | Electron microscopy | 3.1 | 2021-06-23 | |||
| 7 | 7O9M|1|B | MT-TRNAVAL | Homo sapiens | Human mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1 and the MALSU module | Electron microscopy | 2.5 | 2021-06-30 | |||
| 8 | 7OF7|1|B | mitochondrial tRNAVal | Homo sapiens | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset1). | Electron microscopy | 2.5 | 2021-06-23 | |||
| 9 | 7OF6|1|B | Mitochondrial tRNAVal | Homo sapiens | Structure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 2). | Electron microscopy | 2.6 | 2021-06-09 | |||
| 10 | 7OF4|1|B | mitochondrial tRNAVal | Homo sapiens | Structure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 1). | Electron microscopy | 2.7 | 2021-06-09 | |||
| 11 | 7OF3|1|B | Mitochondrial tRNAVal | Homo sapiens | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset2). | Electron microscopy | 2.7 | 2021-05-19 | |||
| 12 | 7OF2|1|B | mitochondrial tRNAVal | Homo sapiens | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with GTPBP6. | Electron microscopy | 2.7 | 2021-06-02 | |||
| 13 | 7O9K|1|B | MT-TRNAVAL | Homo sapiens | Human mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1, the MALSU module, GTPBP5 and mtEF-Tu | Electron microscopy | 3.1 | 2021-06-30 | |||
| 14 | 7OF5|1|B | Mitochondrial tRNAVal | Homo sapiens | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset2). | Electron microscopy | 2.9 | 2021-06-09 | |||
| 15 | 6VMI|1|B | tRNAval | Homo sapiens | Structure of the human mitochondrial ribosome-EF-G1 complex (ClassIII) | Electron microscopy | 2.96 | 2020-08-05 | |||
| 16 | 6VLZ|1|B | tRNAval | Homo sapiens | Structure of the human mitochondrial ribosome-EF-G1 complex (ClassI) | Electron microscopy | 2.97 | 2020-08-05 | |||
| 17 | 7A5J|1|B | mt-tRNAVal | Homo sapiens | Structure of the split human mitoribosomal large subunit with P-and E-site mt-tRNAs | Electron microscopy | 3.1 | 2020-12-23 | |||
| 18 | 7OIC|1|B | mitochondrial Val tRNA | Homo sapiens | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 4 | Electron microscopy | 3.1 | 2021-09-15 | |||
| 19 | 5OOL|1|B | mitochondrial tRNAVal | Homo sapiens | Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA | Electron microscopy | 3.06 | 2017-09-13 | |||
| 20 | 5OOM|1|B | mitochondrial tRNAVal | Homo sapiens | Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA | Electron microscopy | 3.03 | 2017-09-13 | |||
| 21 | 7L20|1|B | tRNAval | Homo sapiens | Cryo-EM structure of the human 39S mitoribosomal subunit in complex with RRFmt and EF-G2mt. | Electron microscopy | 3.15 | 2021-05-12 | |||
| 22 | 7OIA|1|B | mitochondrial Val tRNA | Homo sapiens | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3C | Electron microscopy | 3.2 | 2021-09-15 | |||
| 23 | 7OIB|1|B | mitochondrial Val tRNA | Homo sapiens | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3D | Electron microscopy | 3.3 | 2021-09-15 | |||
| 24 | 7OI9|1|B | mitochondrial Val tRNA | Homo sapiens | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3B | Electron microscopy | 3.3 | 2021-09-15 | |||
| 25 | 7A5H|1|B | mt-tRNAVal | Homo sapiens | Structure of the split human mitoribosomal large subunit with rescue factors mtRF-R and MTRES1 | Electron microscopy | 3.3 | 2020-12-23 | |||
| 26 | 6ZSC|1|XB | mt-tRNAVal | Homo sapiens | Human mitochondrial ribosome in complex with E-site tRNA | Electron microscopy | 3.5 | 2020-09-16 | |||
| 27 | 7L08|1|B | tRNAVAL | Homo sapiens | Cryo-EM structure of the human 55S mitoribosome-RRFmt complex. | Electron microscopy | 3.49 | 2021-05-12 | |||
| 28 | 7OI7|1|B | mitochondrial Val tRNA | Homo sapiens | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 2 | Electron microscopy | 3.5 | 2021-09-15 | |||
| 29 | 7OIE|1|B | mitochondrial Val tRNA | Homo sapiens | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5B | Electron microscopy | 3.5 | 2021-09-15 | |||
| 30 | 7OI8|1|B | mitochondrial Val tRNA | Homo sapiens | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3A | Electron microscopy | 3.5 | 2021-09-15 | |||
| 31 | 6ZSD|1|XB | mt-tRNAVal | Homo sapiens | Human mitochondrial ribosome in complex with mRNA, P-site tRNA and E-site tRNA | Electron microscopy | 3.7 | 2020-09-16 | |||
| 32 | 6I9R|1|B | tRNA Val | Homo sapiens | Large subunit of the human mitochondrial ribosome in complex with Virginiamycin M and Quinupristin | Electron microscopy | 3.9 | 2020-07-08 | |||
| 33 | 7OID|1|B | mitochondrial Val tRNA | Homo sapiens | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5A | Electron microscopy | 3.7 | 2021-09-15 | |||
| 34 | 7A5I|1|B3 | mt-tRNAVal | Homo sapiens | Structure of the human mitoribosome with A- P-and E-site mt-tRNAs | Electron microscopy | 3.7 | 2020-12-23 | |||
| 35 | 7A5K|1|B3 | mt-tRNAVal | Homo sapiens | Structure of the human mitoribosome in the post translocation state bound to mtEF-G1 | Electron microscopy | 3.7 | 2020-12-23 | |||
| 36 | 7OG4|1|XB | mitochondrial tRNAVal | Homo sapiens | Human mitochondrial ribosome in complex with P/E-tRNA | Electron microscopy | 3.8 | 2021-06-23 | |||
| 37 | 3J7Y|1|B | mt-tRNAVal | Homo sapiens | Structure of the large ribosomal subunit from human mitochondria | Electron microscopy | 3.4 | 2014-10-15 | |||
| 38 | 6ZS9|1|XB | mt-tRNAVal | Homo sapiens | Human mitochondrial ribosome in complex with ribosome recycling factor | Electron microscopy | 4 | 2020-10-14 | |||
| 39 | 6ZSA|1|XB | mt-tRNAVal | Homo sapiens | Human mitochondrial ribosome bound to mRNA, A-site tRNA and P-site tRNA | Electron microscopy | 4 | 2020-10-21 | |||
| 40 | 6ZSG|1|XB | mt-tRNA Val | Homo sapiens | Human mitochondrial ribosome in complex with mRNA, A-site tRNA, P-site tRNA and E-site tRNA | Electron microscopy | 4 | 2020-10-14 | |||
| 41 | 3J9M|1|B | mt-tRNAVal | Homo sapiens | Structure of the human mitochondrial ribosome (class 1) | Electron microscopy | 3.5 | 2015-04-15 |
Release history
| Release | 3.200 | 3.201 | 3.202 | 3.203 | 3.204 | 3.205 | 3.206 | 3.207 | 3.208 | 3.209 | 3.210 | 3.211 | 3.212 | 3.213 | 3.214 | 3.215 | 3.216 | 3.217 | 3.218 | 3.219 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2021-10-13 | 2021-10-20 | 2021-10-27 | 2021-11-03 | 2021-11-10 | 2021-11-17 | 2021-11-24 | 2021-12-01 | 2021-12-08 | 2021-12-15 | 2021-12-22 | 2021-12-29 | 2022-01-05 | 2022-01-12 | 2022-01-19 | 2022-01-26 | 2022-02-02 | 2022-02-09 | 2022-02-16 | 2022-02-23 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_73428.14 | NR_4.0_73428.13 | 3.200 | (41) 3J7Y|1|B, 3J9M|1|B, 5OOL|1|B, 5OOM|1|B, 6I9R|1|B, 6VLZ|1|B, 6VMI|1|B, 6ZM5|1|B, 6ZM6|1|B, 6ZS9|1|XB, 6ZSA|1|XB, 6ZSC|1|XB, 6ZSD|1|XB, 6ZSG|1|XB, 7A5H|1|B, 7A5I|1|B3, 7A5J|1|B, 7A5K|1|B3, 7L08|1|B, 7L20|1|B, 7O9K|1|B, 7O9M|1|B, 7ODR|1|B, 7ODS|1|B, 7ODT|1|B, 7OF0|1|B, 7OF2|1|B, 7OF3|1|B, 7OF4|1|B, 7OF5|1|B, 7OF6|1|B, 7OF7|1|B, 7OG4|1|XB, 7OI7|1|B, 7OI8|1|B, 7OI9|1|B, 7OIA|1|B, 7OIB|1|B, 7OIC|1|B, 7OID|1|B, 7OIE|1|B | (0) | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_73428.14 | NR_4.0_73428.15 | 3.220 | (41) 3J7Y|1|B, 3J9M|1|B, 5OOL|1|B, 5OOM|1|B, 6I9R|1|B, 6VLZ|1|B, 6VMI|1|B, 6ZM5|1|B, 6ZM6|1|B, 6ZS9|1|XB, 6ZSA|1|XB, 6ZSC|1|XB, 6ZSD|1|XB, 6ZSG|1|XB, 7A5H|1|B, 7A5I|1|B3, 7A5J|1|B, 7A5K|1|B3, 7L08|1|B, 7L20|1|B, 7O9K|1|B, 7O9M|1|B, 7ODR|1|B, 7ODS|1|B, 7ODT|1|B, 7OF0|1|B, 7OF2|1|B, 7OF3|1|B, 7OF4|1|B, 7OF5|1|B, 7OF6|1|B, 7OF7|1|B, 7OG4|1|XB, 7OI7|1|B, 7OI8|1|B, 7OI9|1|B, 7OIA|1|B, 7OIB|1|B, 7OIC|1|B, 7OID|1|B, 7OIE|1|B | (0) | (1) 7QH6|1|B |
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.
| #S | View | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|---|
| 1 | 7O9K|1|B | Human mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1, the MALSU module, GTPBP5 and mtEF-Tu | ELECTRON MICROSCOPY | 3.1 | 60 | |
| 2 | 7O9M|1|B | Human mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1 and the MALSU module | ELECTRON MICROSCOPY | 2.5 | 60 | |
| 3 | 7A5I|1|B3 | Structure of the human mitoribosome with A- P-and E-site mt-tRNAs | ELECTRON MICROSCOPY | 3.7 | 56 | |
| 4 | 7A5K|1|B3 | Structure of the human mitoribosome in the post translocation state bound to mtEF-G1 | ELECTRON MICROSCOPY | 3.7 | 56 | |
| 5 | 3J7Y|1|B | Structure of the large ribosomal subunit from human mitochondria | ELECTRON MICROSCOPY | 3.4 | 57 | |
| 6 | 3J9M|1|B | Structure of the human mitochondrial ribosome (class 1) | ELECTRON MICROSCOPY | 3.5 | 56 | |
| 7 | 7OIC|1|B | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 4 | ELECTRON MICROSCOPY | 3.1 | 56 | |
| 8 | 7A5H|1|B | Structure of the split human mitoribosomal large subunit with rescue factors mtRF-R and MTRES1 | ELECTRON MICROSCOPY | 3.3 | 56 | |
| 9 | 7A5J|1|B | Structure of the split human mitoribosomal large subunit with P-and E-site mt-tRNAs | ELECTRON MICROSCOPY | 3.1 | 56 | |
| 10 | 5OOL|1|B | Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA | ELECTRON MICROSCOPY | 3.06 | 56 | |
| 11 | 7OF7|1|B | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset1). | ELECTRON MICROSCOPY | 2.5 | 56 | |
| 12 | 7OF0|1|B | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset1). | ELECTRON MICROSCOPY | 2.2 | 56 | |
| 13 | 7OF3|1|B | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset2). | ELECTRON MICROSCOPY | 2.7 | 56 | |
| 14 | 7OF5|1|B | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset2). | ELECTRON MICROSCOPY | 2.9 | 56 | |
| 15 | 7OF2|1|B | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with GTPBP6. | ELECTRON MICROSCOPY | 2.7 | 56 | |
| 16 | 7OF6|1|B | Structure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 2). | ELECTRON MICROSCOPY | 2.6 | 56 | |
| 17 | 7OF4|1|B | Structure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 1). | ELECTRON MICROSCOPY | 2.7 | 56 | |
| 18 | 5OOM|1|B | Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA | ELECTRON MICROSCOPY | 3.03 | 56 | |
| 19 | 7OIA|1|B | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3C | ELECTRON MICROSCOPY | 3.2 | 56 | |
| 20 | 7OI7|1|B | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 2 | ELECTRON MICROSCOPY | 3.5 | 56 | |
| 21 | 7OI9|1|B | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3B | ELECTRON MICROSCOPY | 3.3 | 56 | |
| 22 | 7OIB|1|B | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3D | ELECTRON MICROSCOPY | 3.3 | 56 | |
| 23 | 7OIE|1|B | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5B | ELECTRON MICROSCOPY | 3.5 | 56 | |
| 24 | 7OID|1|B | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5A | ELECTRON MICROSCOPY | 3.7 | 56 | |
| 25 | 7OI8|1|B | Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3A | ELECTRON MICROSCOPY | 3.5 | 56 | |
| 26 | 7L08|1|B | Cryo-EM structure of the human 55S mitoribosome-RRFmt complex. | ELECTRON MICROSCOPY | 3.49 | 56 | |
| 27 | 7L20|1|B | Cryo-EM structure of the human 39S mitoribosomal subunit in complex with RRFmt and EF-G2mt. | ELECTRON MICROSCOPY | 3.15 | 56 | |
| 28 | 6VLZ|1|B | Structure of the human mitochondrial ribosome-EF-G1 complex (ClassI) | ELECTRON MICROSCOPY | 2.97 | 56 | |
| 29 | 6VMI|1|B | Structure of the human mitochondrial ribosome-EF-G1 complex (ClassIII) | ELECTRON MICROSCOPY | 2.96 | 56 | |
| 30 | 6ZS9|1|XB | Human mitochondrial ribosome in complex with ribosome recycling factor | ELECTRON MICROSCOPY | 4 | 59 | |
| 31 | 6ZSG|1|XB | Human mitochondrial ribosome in complex with mRNA, A-site tRNA, P-site tRNA and E-site tRNA | ELECTRON MICROSCOPY | 4 | 59 | |
| 32 | 6ZSA|1|XB | Human mitochondrial ribosome bound to mRNA, A-site tRNA and P-site tRNA | ELECTRON MICROSCOPY | 4 | 59 | |
| 33 | 6ZSD|1|XB | Human mitochondrial ribosome in complex with mRNA, P-site tRNA and E-site tRNA | ELECTRON MICROSCOPY | 3.7 | 59 | |
| 34 | 6ZSC|1|XB | Human mitochondrial ribosome in complex with E-site tRNA | ELECTRON MICROSCOPY | 3.5 | 59 | |
| 35 | 7OG4|1|XB | Human mitochondrial ribosome in complex with P/E-tRNA | ELECTRON MICROSCOPY | 3.8 | 59 | |
| 36 | 6I9R|1|B | Large subunit of the human mitochondrial ribosome in complex with Virginiamycin M and Quinupristin | ELECTRON MICROSCOPY | 3.9 | 60 | |
| 37 | 6ZM5|1|B | Human mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide | ELECTRON MICROSCOPY | 2.89 | 72 | |
| 38 | 6ZM6|1|B | Human mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNA | ELECTRON MICROSCOPY | 2.59 | 72 | |
| 39 | 7ODS|1|B | State B of the human mitoribosomal large subunit assembly intermediate | ELECTRON MICROSCOPY | 3.1 | 72 | |
| 40 | 7ODT|1|B | State C of the human mitoribosomal large subunit assembly intermediate | ELECTRON MICROSCOPY | 3.1 | 72 | |
| 41 | 7ODR|1|B | State A of the human mitoribosomal large subunit assembly intermediate | ELECTRON MICROSCOPY | 2.9 | 72 |
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.
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