Equivalence class NR_all_73428.11 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 6ZM6|1|B (rep) | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNA | Electron microscopy | 2.59 | 72 | 2021-01-13 |
| 2 | 6ZM5|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide | Electron microscopy | 2.89 | 72 | 2021-01-13 |
| 3 | 7ODR|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | State A of the human mitoribosomal large subunit assembly intermediate | Electron microscopy | 2.9 | 72 | 2021-06-23 |
| 4 | 7OF0|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset1). | Electron microscopy | 2.2 | 56 | 2021-06-09 |
| 5 | 7ODT|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | State C of the human mitoribosomal large subunit assembly intermediate | Electron microscopy | 3.1 | 72 | 2021-06-23 |
| 6 | 7ODS|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | State B of the human mitoribosomal large subunit assembly intermediate | Electron microscopy | 3.1 | 72 | 2021-06-23 |
| 7 | 7OF7|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset1). | Electron microscopy | 2.5 | 56 | 2021-06-23 |
| 8 | 7OF6|1|B | Transfer RNA | Mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 2). | Electron microscopy | 2.6 | 56 | 2021-06-09 |
| 9 | 7OF4|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of mature human mitochondrial ribosome large subunit in complex with GTPBP6 (PTC conformation 1). | Electron microscopy | 2.7 | 56 | 2021-06-09 |
| 10 | 7OF3|1|B | Transfer RNA | Mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset2). | Electron microscopy | 2.7 | 56 | 2021-05-19 |
| 11 | 7OF2|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with GTPBP6. | Electron microscopy | 2.7 | 56 | 2021-06-02 |
| 12 | 7OF5|1|B | Transfer RNA | Mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset2). | Electron microscopy | 2.9 | 56 | 2021-06-09 |
| 13 | 6VMI|1|B | Transfer RNA | tRNAval | Homo sapiens | Mitochondria | RF00005 | Structure of the human mitochondrial ribosome-EF-G1 complex (ClassIII) | Electron microscopy | 2.96 | 56 | 2020-08-05 |
| 14 | 6VLZ|1|B | Transfer RNA | tRNAval | Homo sapiens | Mitochondria | RF00005 | Structure of the human mitochondrial ribosome-EF-G1 complex (ClassI) | Electron microscopy | 2.97 | 56 | 2020-08-05 |
| 15 | 7A5J|1|B | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of the split human mitoribosomal large subunit with P-and E-site mt-tRNAs | Electron microscopy | 3.1 | 56 | 2020-12-23 |
| 16 | 5OOL|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA | Electron microscopy | 3.06 | 56 | 2017-09-13 |
| 17 | 5OOM|1|B | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA | Electron microscopy | 3.03 | 56 | 2017-09-13 |
| 18 | 7L20|1|B | Transfer RNA | tRNAval | Homo sapiens | Mitochondria | RF00005 | Cryo-EM structure of the human 39S mitoribosomal subunit in complex with RRFmt and EF-G2mt. | Electron microscopy | 3.15 | 56 | 2021-05-12 |
| 19 | 7A5H|1|B | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of the split human mitoribosomal large subunit with rescue factors mtRF-R and MTRES1 | Electron microscopy | 3.3 | 56 | 2020-12-23 |
| 20 | 6ZSC|1|XB | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome in complex with E-site tRNA | Electron microscopy | 3.5 | 59 | 2020-09-16 |
| 21 | 7L08|1|B | Transfer RNA | tRNAVAL | Homo sapiens | Mitochondria | RF00005 | Cryo-EM structure of the human 55S mitoribosome-RRFmt complex. | Electron microscopy | 3.49 | 56 | 2021-05-12 |
| 22 | 6ZSD|1|XB | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome in complex with mRNA, P-site tRNA and E-site tRNA | Electron microscopy | 3.7 | 59 | 2020-09-16 |
| 23 | 6I9R|1|B | Transfer RNA | tRNA Val | Homo sapiens | Mitochondria | RF00005 | Large subunit of the human mitochondrial ribosome in complex with Virginiamycin M and Quinupristin | Electron microscopy | 3.9 | 60 | 2020-07-08 |
| 24 | 7A5I|1|B3 | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of the human mitoribosome with A- P-and E-site mt-tRNAs | Electron microscopy | 3.7 | 56 | 2020-12-23 |
| 25 | 7A5K|1|B3 | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of the human mitoribosome in the post translocation state bound to mtEF-G1 | Electron microscopy | 3.7 | 56 | 2020-12-23 |
| 26 | 7OG4|1|XB | Transfer RNA | mitochondrial tRNAVal | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome in complex with P/E-tRNA | Electron microscopy | 3.8 | 59 | 2021-06-23 |
| 27 | 3J7Y|1|B | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of the large ribosomal subunit from human mitochondria | Electron microscopy | 3.4 | 57 | 2014-10-15 |
| 28 | 6ZS9|1|XB | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome in complex with ribosome recycling factor | Electron microscopy | 4 | 59 | 2020-10-14 |
| 29 | 6ZSA|1|XB | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome bound to mRNA, A-site tRNA and P-site tRNA | Electron microscopy | 4 | 59 | 2020-10-21 |
| 30 | 6ZSG|1|XB | Transfer RNA | mt-tRNA Val | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome in complex with mRNA, A-site tRNA, P-site tRNA and E-site tRNA | Electron microscopy | 4 | 59 | 2020-10-14 |
| 31 | 3J9M|1|B | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of the human mitochondrial ribosome (class 1) | Electron microscopy | 3.5 | 56 | 2015-04-15 |
| 32 | 7A5G|1|B3 | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Structure of the elongating human mitoribosome bound to mtEF-Tu.GMPPCP and A/T mt-tRNA | Electron microscopy | 4.33 | 56 | 2020-12-23 |
| 33 | 7A5F|1|B3 | Transfer RNA | mt-tRNA Val | Homo sapiens | Mitochondria | RF00005 | Structure of the stalled human mitoribosome with P- and E-site mt-tRNAs | Electron microscopy | 4.4 | 56 | 2020-12-23 |
| 34 | 6ZSB|1|XB | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome in complex with mRNA and P-site tRNA | Electron microscopy | 4.5 | 59 | 2020-09-16 |
| 35 | 6ZSE|1|XB | Transfer RNA | mt-tRNAVal | Homo sapiens | Mitochondria | RF00005 | Human mitochondrial ribosome in complex with mRNA, A/P-tRNA and P/E-tRNA | Electron microscopy | 5 | 59 | 2020-09-16 |
Release history
| Release | 3.184 |
|---|---|
| Date | 2021-06-23 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_all_73428.11 | NR_all_73428.10 | 3.184 | (30) 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, 6ZSB|1|XB, 6ZSC|1|XB, 6ZSD|1|XB, 6ZSE|1|XB, 6ZSG|1|XB, 7A5F|1|B3, 7A5G|1|B3, 7A5H|1|B, 7A5I|1|B3, 7A5J|1|B, 7A5K|1|B3, 7L08|1|B, 7L20|1|B, 7OF0|1|B, 7OF2|1|B, 7OF3|1|B, 7OF4|1|B, 7OF5|1|B, 7OF6|1|B | (5) 7ODR|1|B, 7ODS|1|B, 7ODT|1|B, 7OF7|1|B, 7OG4|1|XB | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_all_73428.11 | NR_all_73428.12 | 3.185 | (35) 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, 6ZSB|1|XB, 6ZSC|1|XB, 6ZSD|1|XB, 6ZSE|1|XB, 6ZSG|1|XB, 7A5F|1|B3, 7A5G|1|B3, 7A5H|1|B, 7A5I|1|B3, 7A5J|1|B, 7A5K|1|B3, 7L08|1|B, 7L20|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 | (0) | (2) 7O9K|1|B, 7O9M|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 | #NTs |
|---|---|---|---|---|---|---|
| 1 | 7A5I|1|B3 | Structure of the human mitoribosome with A- P-and E-site mt-tRNAs | ELECTRON MICROSCOPY | 3.7 | 56 | |
| 2 | 7A5G|1|B3 | Structure of the elongating human mitoribosome bound to mtEF-Tu.GMPPCP and A/T mt-tRNA | ELECTRON MICROSCOPY | 4.33 | 56 | |
| 3 | 7A5F|1|B3 | Structure of the stalled human mitoribosome with P- and E-site mt-tRNAs | ELECTRON MICROSCOPY | 4.4 | 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 | 7A5H|1|B | Structure of the split human mitoribosomal large subunit with rescue factors mtRF-R and MTRES1 | ELECTRON MICROSCOPY | 3.3 | 56 | |
| 8 | 7A5J|1|B | Structure of the split human mitoribosomal large subunit with P-and E-site mt-tRNAs | ELECTRON MICROSCOPY | 3.1 | 56 | |
| 9 | 5OOM|1|B | Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA | ELECTRON MICROSCOPY | 3.03 | 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 | 7L08|1|B | Cryo-EM structure of the human 55S mitoribosome-RRFmt complex. | ELECTRON MICROSCOPY | 3.49 | 56 | |
| 19 | 7L20|1|B | Cryo-EM structure of the human 39S mitoribosomal subunit in complex with RRFmt and EF-G2mt. | ELECTRON MICROSCOPY | 3.15 | 56 | |
| 20 | 6VLZ|1|B | Structure of the human mitochondrial ribosome-EF-G1 complex (ClassI) | ELECTRON MICROSCOPY | 2.97 | 56 | |
| 21 | 6VMI|1|B | Structure of the human mitochondrial ribosome-EF-G1 complex (ClassIII) | ELECTRON MICROSCOPY | 2.96 | 56 | |
| 22 | 6I9R|1|B | Large subunit of the human mitochondrial ribosome in complex with Virginiamycin M and Quinupristin | ELECTRON MICROSCOPY | 3.9 | 60 | |
| 23 | 7OG4|1|XB | Human mitochondrial ribosome in complex with P/E-tRNA | ELECTRON MICROSCOPY | 3.8 | 59 | |
| 24 | 6ZSC|1|XB | Human mitochondrial ribosome in complex with E-site tRNA | ELECTRON MICROSCOPY | 3.5 | 59 | |
| 25 | 6ZSB|1|XB | Human mitochondrial ribosome in complex with mRNA and P-site tRNA | ELECTRON MICROSCOPY | 4.5 | 59 | |
| 26 | 6ZSA|1|XB | Human mitochondrial ribosome bound to mRNA, A-site tRNA and P-site tRNA | ELECTRON MICROSCOPY | 4 | 59 | |
| 27 | 6ZSD|1|XB | Human mitochondrial ribosome in complex with mRNA, P-site tRNA and E-site tRNA | ELECTRON MICROSCOPY | 3.7 | 59 | |
| 28 | 6ZSG|1|XB | Human mitochondrial ribosome in complex with mRNA, A-site tRNA, P-site tRNA and E-site tRNA | ELECTRON MICROSCOPY | 4 | 59 | |
| 29 | 6ZS9|1|XB | Human mitochondrial ribosome in complex with ribosome recycling factor | ELECTRON MICROSCOPY | 4 | 59 | |
| 30 | 6ZSE|1|XB | Human mitochondrial ribosome in complex with mRNA, A/P-tRNA and P/E-tRNA | ELECTRON MICROSCOPY | 5 | 59 | |
| 31 | 7ODT|1|B | State C of the human mitoribosomal large subunit assembly intermediate | ELECTRON MICROSCOPY | 3.1 | 72 | |
| 32 | 6ZM6|1|B | Human mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNA | ELECTRON MICROSCOPY | 2.59 | 72 | |
| 33 | 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 | |
| 34 | 7ODS|1|B | State B of the human mitoribosomal large subunit assembly intermediate | ELECTRON MICROSCOPY | 3.1 | 72 | |
| 35 | 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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