Equivalence class NR_4.0_67580.2 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 5GAK|1|1+ 5GAK|1|4 (rep) | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Yeast 60S ribosomal subunit with A-site tRNA, P-site tRNA and eIF-5A | Electron microscopy | 3.88 | 2016-02-24 |
| 2 | 4U4O|1|1+ 4U4O|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Geneticin bound to the yeast 80S ribosome | X-ray diffraction | 3.6 | 2014-10-22 |
| 3 | 4U4O|1|5+ 4U4O|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Geneticin bound to the yeast 80S ribosome | X-ray diffraction | 3.6 | 2014-10-22 |
| 4 | 5APN|1|5+ 5APN|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Structure of the yeast 60S ribosomal subunit in complex with Arx1, Alb1 and N-terminally tagged Rei1 | Electron microscopy | 3.91 | 2015-12-16 |
| 5 | 5JUO|1|B+ 5JUO|1|C | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure I (fully rotated 40S subunit) | Electron microscopy | 4 | 2016-10-05 |
| 6 | 5JUT|1|B+ 5JUT|1|C | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure IV (almost non-rotated 40S subunit) | Electron microscopy | 4 | 2016-10-05 |
| 7 | 5JUU|1|B+ 5JUU|1|C | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure V (least rotated 40S subunit) | Electron microscopy | 4 | 2016-10-05 |
| 8 | 5MC6|1|BQ+ 5MC6|1|BS | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Cryo-EM structure of a native ribosome-Ski2-Ski3-Ski8 complex from S. cerevisiae | Electron microscopy | 3.8 | 2017-01-18 |
| 9 | 4U56|1|5+ 4U56|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Blasticidin S bound to the yeast 80S ribosome | X-ray diffraction | 3.45 | 2014-10-22 |
| 10 | 4U56|1|1+ 4U56|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Blasticidin S bound to the yeast 80S ribosome | X-ray diffraction | 3.45 | 2014-10-22 |
| 11 | 5APO|1|5+ 5APO|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Structure of the yeast 60S ribosomal subunit in complex with Arx1, Alb1 and C-terminally tagged Rei1 | Electron microscopy | 3.41 | 2015-12-16 |
| 12 | 4U53|1|5+ 4U53|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Deoxynivalenol bound to the yeast 80S ribosome | X-ray diffraction | 3.3 | 2014-10-22 |
| 13 | 4U53|1|1+ 4U53|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Deoxynivalenol bound to the yeast 80S ribosome | X-ray diffraction | 3.3 | 2014-10-22 |
| 14 | 5JUP|1|B+ 5JUP|1|C | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure II (mid-rotated 40S subunit) | Electron microscopy | 3.5 | 2016-10-05 |
| 15 | 5H4P|1|1+ 5H4P|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Structural snapshot of cytoplasmic pre-60S ribosomal particles bound with Nmd3, Lsg1, Tif6 and Reh1 | Electron microscopy | 3.07 | 2017-01-25 |
| 16 | 4U50|1|1+ 4U50|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Verrucarin bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 17 | 4U50|1|5+ 4U50|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Verrucarin bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 18 | 4U55|1|1+ 4U55|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Cryptopleurine bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 19 | 4U51|1|1+ 4U51|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Narciclasine bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 20 | 4U51|1|5+ 4U51|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Narciclasine bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 21 | 3JCT|1|1+ 3JCT|1|2 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | RDN25-1 rRNA, RDN58-1 rRNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Cryo-em structure of eukaryotic pre-60S ribosomal subunits | Electron microscopy | 3.08 | 2016-06-01 |
| 22 | 4U4Y|1|1+ 4U4Y|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Pactamycin bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 23 | 4U55|1|5+ 4U55|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Cryptopleurine bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 24 | 4U3N|1|1+ 4U3N|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of CCA trinucleotide bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 25 | 4U4Y|1|5+ 4U4Y|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Pactamycin bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 26 | 4U3N|1|5+ 4U3N|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of CCA trinucleotide bound to the yeast 80S ribosome | X-ray diffraction | 3.2 | 2014-10-22 |
| 27 | 4U4Z|1|1+ 4U4Z|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Phyllanthoside bound to the yeast 80S ribosome | X-ray diffraction | 3.1 | 2014-10-22 |
| 28 | 4U4N|1|1+ 4U4N|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Edeine bound to the yeast 80S ribosome | X-ray diffraction | 3.1 | 2014-10-22 |
| 29 | 4U4Z|1|5+ 4U4Z|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Phyllanthoside bound to the yeast 80S ribosome | X-ray diffraction | 3.1 | 2014-10-22 |
| 30 | 4U4N|1|5+ 4U4N|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Edeine bound to the yeast 80S ribosome | X-ray diffraction | 3.1 | 2014-10-22 |
| 31 | 4U6F|1|5+ 4U6F|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of T-2 toxin bound to the yeast 80S ribosome | X-ray diffraction | 3.1 | 2014-10-22 |
| 32 | 4U6F|1|1+ 4U6F|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of T-2 toxin bound to the yeast 80S ribosome | X-ray diffraction | 3.1 | 2014-10-22 |
| 33 | 5M1J|1|14+ 5M1J|1|44 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Nonstop ribosomal complex bound with Dom34 and Hbs1 | Electron microscopy | 3.3 | 2017-01-18 |
| 34 | 4U52|1|1+ 4U52|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Nagilactone C bound to the yeast 80S ribosome | X-ray diffraction | 3 | 2014-10-22 |
| 35 | 4U52|1|5+ 4U52|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Nagilactone C bound to the yeast 80S ribosome | X-ray diffraction | 3 | 2014-10-22 |
| 36 | 4U4U|1|5+ 4U4U|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Lycorine bound to the yeast 80S ribosome | X-ray diffraction | 3 | 2014-10-22 |
| 37 | 4U4Q|1|1+ 4U4Q|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Homoharringtonine bound to the yeast 80S ribosome | X-ray diffraction | 3 | 2014-10-22 |
| 38 | 4U4U|1|1+ 4U4U|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Lycorine bound to the yeast 80S ribosome | X-ray diffraction | 3 | 2014-10-22 |
| 39 | 4U3M|1|5+ 4U3M|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25s rRNA, 5.8s rRNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Anisomycin bound to the yeast 80S ribosome | X-ray diffraction | 3 | 2014-10-22 |
| 40 | 4U4Q|1|5+ 4U4Q|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Homoharringtonine bound to the yeast 80S ribosome | X-ray diffraction | 3 | 2014-10-22 |
| 41 | 4U3M|1|1+ 4U3M|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25s rRNA, 5.8s rRNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Anisomycin bound to the yeast 80S ribosome | X-ray diffraction | 3 | 2014-10-22 |
| 42 | 5T62|1|A+ 5T62|1|C | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S Ribosomal RNA, 5.8S Ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Nmd3 is a structural mimic of eIF5A, and activates the cpGTPase Lsg1 during 60S ribosome biogenesis: 60S-Nmd3-Tif6-Lsg1 Complex | Electron microscopy | 3.3 | 2017-02-08 |
| 43 | 4U3U|1|1+ 4U3U|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Cycloheximide bound to the yeast 80S ribosome | X-ray diffraction | 2.9 | 2014-10-22 |
| 44 | 4U3U|1|5+ 4U3U|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Cycloheximide bound to the yeast 80S ribosome | X-ray diffraction | 2.9 | 2014-10-22 |
| 45 | 4U4R|1|5+ 4U4R|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Lactimidomycin bound to the yeast 80S ribosome | X-ray diffraction | 2.8 | 2014-10-22 |
| 46 | 4U4R|1|1+ 4U4R|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Lactimidomycin bound to the yeast 80S ribosome | X-ray diffraction | 2.8 | 2014-10-22 |
| 47 | 5DC3|1|1+ 5DC3|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Complex of yeast 80S ribosome with non-modified eIF5A | X-ray diffraction | 3.25 | 2016-06-01 |
| 48 | 5DC3|1|5+ 5DC3|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Complex of yeast 80S ribosome with non-modified eIF5A | X-ray diffraction | 3.25 | 2016-06-01 |
| 49 | 5DGF|1|1+ 5DGF|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog | X-ray diffraction | 3.3 | 2016-12-14 |
| 50 | 5TGA|1|1+ 5TGA|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCA-Pro | X-ray diffraction | 3.3 | 2016-11-23 |
| 51 | 5DGE|1|1+ 5DGE|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA, DNA (5'-R(*CP*CP*(NA))-3') | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Coping with proline stalling: structural basis of hypusine-induced protein synthesis by the eukaryotic ribosome | X-ray diffraction | 3.45 | 2017-01-25 |
| 52 | 5DGF|1|5+ 5DGF|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog | X-ray diffraction | 3.3 | 2016-12-14 |
| 53 | 5TGA|1|5+ 5TGA|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCA-Pro | X-ray diffraction | 3.3 | 2016-11-23 |
| 54 | 5DGE|1|5+ 5DGE|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA, DNA (5'-R(*CP*CP*(NA))-3') | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Coping with proline stalling: structural basis of hypusine-induced protein synthesis by the eukaryotic ribosome | X-ray diffraction | 3.45 | 2017-01-25 |
| 55 | 5DGV|1|1+ 5DGV|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA, DNA (5'-R(*CP*CP*(8AN)*(Pro)*(Pro))-3') | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog | X-ray diffraction | 3.1 | 2016-12-14 |
| 56 | 5DAT|1|1+ 5DAT|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Complex of yeast 80S ribosome with hypusine-containing eIF5A | X-ray diffraction | 3.15 | 2016-08-31 |
| 57 | 5DGV|1|5+ 5DGV|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA, DNA (5'-R(*CP*CP*(8AN)*(Pro)*(Pro))-3') | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog | X-ray diffraction | 3.1 | 2016-12-14 |
| 58 | 5DAT|1|5+ 5DAT|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Complex of yeast 80S ribosome with hypusine-containing eIF5A | X-ray diffraction | 3.15 | 2016-08-31 |
| 59 | 4V7R|1|D1+ 4V7R|1|D3 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Yeast 80S ribosome. | X-ray diffraction | 4 | 2014-07-09 |
| 60 | 4V7R|1|B1+ 4V7R|1|B3 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Yeast 80S ribosome. | X-ray diffraction | 4 | 2014-07-09 |
| 61 | 5TGM|1|5+ 5TGM|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA, Peptidyl-tRNA analog ACCA-Leu-Phe | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCA-Pro | X-ray diffraction | 3.5 | 2017-01-18 |
| 62 | 5TGM|1|1+ 5TGM|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA, Peptidyl-tRNA analog ACCA-Leu-Phe | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCA-Pro | X-ray diffraction | 3.5 | 2017-01-18 |
| 63 | 5FCI|1|1+ 5FCI|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Structure of the vacant uL3 W255C mutant 80S yeast ribosome | X-ray diffraction | 3.4 | 2016-05-11 |
| 64 | 5FCI|1|5+ 5FCI|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Structure of the vacant uL3 W255C mutant 80S yeast ribosome | X-ray diffraction | 3.4 | 2016-05-11 |
| 65 | 5FCJ|1|1+ 5FCJ|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Structure of the anisomycin-containing uL3 W255C mutant 80S yeast ribosome | X-ray diffraction | 3.1 | 2016-05-11 |
| 66 | 5FCJ|1|5+ 5FCJ|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Structure of the anisomycin-containing uL3 W255C mutant 80S yeast ribosome | X-ray diffraction | 3.1 | 2016-05-11 |
| 67 | 5LYB|1|1+ 5LYB|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S rRNA, 5.8S rRNA, aminoacyl-tRNA fragment ACCPmn | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCPmn | X-ray diffraction | 3.25 | 2016-11-23 |
| 68 | 5LYB|1|5+ 5LYB|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S rRNA, 5.8S rRNA, aminoacyl-tRNA fragment ACCPmn | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCPmn | X-ray diffraction | 3.25 | 2016-11-23 |
| 69 | 5I4L|1|1+ 5I4L|1|4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Amicoumacin A bound to the yeast 80S ribosome | X-ray diffraction | 3.1 | 2016-06-22 |
| 70 | 5I4L|1|5+ 5I4L|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | Crystal structure of Amicoumacin A bound to the yeast 80S ribosome | X-ray diffraction | 3.1 | 2016-06-22 |
| 71 | 4V88|1|A1+ 4V88|1|A4 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | The structure of the eukaryotic ribosome at 3.0 A resolution. | X-ray diffraction | 3 | 2014-07-09 |
| 72 | 4V88|1|A5+ 4V88|1|A8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | Eukarya | RF02543 + RF00002 | The structure of the eukaryotic ribosome at 3.0 A resolution. | X-ray diffraction | 3 | 2014-07-09 |
Parents
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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 | NAKB_NA_annotation | NAKB_protein_annotation |
|---|---|---|---|---|---|---|---|
| 1 | 3JCT|1|1+3JCT|1|2 | Title: Cryo-em structure of eukaryotic pre-60S ribosomal subunits | ELECTRON MICROSCOPY | 3.08 | 3058 | ||
| 2 | 5T62|1|A+5T62|1|C | Title: Nmd3 is a structural mimic of eIF5A, and activates the cpGTPase Lsg1 during 60S ribosome biogenesis: 60S-Nmd3-Tif6-Lsg1 Complex | ELECTRON MICROSCOPY | 3.3 | 3200 | ||
| 3 | 5H4P|1|1+5H4P|1|4 | Title: Structural snapshot of cytoplasmic pre-60S ribosomal particles bound with Nmd3, Lsg1, Tif6 and Reh1 | ELECTRON MICROSCOPY | 3.07 | 3091 | ||
| 4 | 5GAK|1|1+5GAK|1|4 | Title: Yeast 60S ribosomal subunit with A-site tRNA, P-site tRNA and eIF-5A | ELECTRON MICROSCOPY | 3.88 | 3165 | ||
| 5 | 5MC6|1|BQ+5MC6|1|BS | Title: Cryo-EM structure of a native ribosome-Ski2-Ski3-Ski8 complex from S. cerevisiae | ELECTRON MICROSCOPY | 3.8 | 3165 | ||
| 6 | 4U4O|1|1+4U4O|1|4 | Title: Crystal structure of Geneticin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.6 | 3149 | ||
| 7 | 5FCI|1|1+5FCI|1|4 | Title: Structure of the vacant uL3 W255C mutant 80S yeast ribosome | X-RAY DIFFRACTION | 3.4 | 3149 | ||
| 8 | 5DGE|1|1+5DGE|1|4 | Title: Coping with proline stalling: structural basis of hypusine-induced protein synthesis by the eukaryotic ribosome | X-RAY DIFFRACTION | 3.45 | 3149 | ||
| 9 | 5DGV|1|1+5DGV|1|4 | Title: Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog | X-RAY DIFFRACTION | 3.1 | 3148 | ||
| 10 | 5DC3|1|1+5DC3|1|4 | Title: Complex of yeast 80S ribosome with non-modified eIF5A | X-RAY DIFFRACTION | 3.25 | 3149 | ||
| 11 | 4U4Y|1|1+4U4Y|1|4 | Title: Crystal structure of Pactamycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3149 | ||
| 12 | 4V88|1|A1+4V88|1|A4 | Title: The structure of the eukaryotic ribosome at 3.0 A resolution. | X-RAY DIFFRACTION | 3 | 3149 | ||
| 13 | 4U4R|1|1+4U4R|1|4 | Title: Crystal structure of Lactimidomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.8 | 3149 | ||
| 14 | 4U3U|1|1+4U3U|1|4 | Title: Crystal structure of Cycloheximide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.9 | 3149 | ||
| 15 | 4U3M|1|1+4U3M|1|4 | Title: Crystal structure of Anisomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 | ||
| 16 | 4U6F|1|1+4U6F|1|4 | Title: Crystal structure of T-2 toxin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.1 | 3149 | ||
| 17 | 4U52|1|1+4U52|1|4 | Title: Crystal structure of Nagilactone C bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 | ||
| 18 | 4U50|1|1+4U50|1|4 | Title: Crystal structure of Verrucarin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3149 | ||
| 19 | 4U53|1|1+4U53|1|4 | Title: Crystal structure of Deoxynivalenol bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.3 | 3149 | ||
| 20 | 4U4U|1|1+4U4U|1|4 | Title: Crystal structure of Lycorine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 | ||
| 21 | 4U4Q|1|1+4U4Q|1|4 | Title: Crystal structure of Homoharringtonine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 | ||
| 22 | 4U51|1|1+4U51|1|4 | Title: Crystal structure of Narciclasine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3149 | ||
| 23 | 4U3N|1|1+4U3N|1|4 | Title: Crystal structure of CCA trinucleotide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3150 | ||
| 24 | 4U4N|1|1+4U4N|1|4 | Title: Crystal structure of Edeine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.1 | 3149 | ||
| 25 | 4U4Z|1|1+4U4Z|1|4 | Title: Crystal structure of Phyllanthoside bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.1 | 3149 | ||
| 26 | 4U55|1|1+4U55|1|4 | Title: Crystal structure of Cryptopleurine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3149 | ||
| 27 | 4U56|1|1+4U56|1|4 | Title: Crystal structure of Blasticidin S bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.45 | 3149 | ||
| 28 | 5FCJ|1|1+5FCJ|1|4 | Title: Structure of the anisomycin-containing uL3 W255C mutant 80S yeast ribosome | X-RAY DIFFRACTION | 3.1 | 3149 | ||
| 29 | 5TGA|1|1+5TGA|1|4 | Title: Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCA-Pro | X-RAY DIFFRACTION | 3.3 | 3151 | ||
| 30 | 5I4L|1|1+5I4L|1|4 | Title: Crystal structure of Amicoumacin A bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.1 | 3149 | ||
| 31 | 5LYB|1|1+5LYB|1|4 | Title: Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCPmn | X-RAY DIFFRACTION | 3.25 | 3149 | ||
| 32 | 5TGM|1|1+5TGM|1|4 | Title: Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCA-Pro | X-RAY DIFFRACTION | 3.5 | 3149 | ||
| 33 | 5DAT|1|1+5DAT|1|4 | Title: Complex of yeast 80S ribosome with hypusine-containing eIF5A | X-RAY DIFFRACTION | 3.15 | 3149 | ||
| 34 | 5DGF|1|1+5DGF|1|4 | Title: Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog | X-RAY DIFFRACTION | 3.3 | 3149 | ||
| 35 | 5M1J|1|14+5M1J|1|44 | Title: Nonstop ribosomal complex bound with Dom34 and Hbs1 | ELECTRON MICROSCOPY | 3.3 | 3295 | ||
| 36 | 5APO|1|5+5APO|1|8 | Title: Structure of the yeast 60S ribosomal subunit in complex with Arx1, Alb1 and C-terminally tagged Rei1 | ELECTRON MICROSCOPY | 3.41 | 3092 | ||
| 37 | 5JUO|1|B+5JUO|1|C | Title: Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure I (fully rotated 40S subunit) | ELECTRON MICROSCOPY | 4 | 3309 | ||
| 38 | 5JUP|1|B+5JUP|1|C | Title: Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure II (mid-rotated 40S subunit) | ELECTRON MICROSCOPY | 3.5 | 3309 | ||
| 39 | 5JUU|1|B+5JUU|1|C | Title: Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure V (least rotated 40S subunit) | ELECTRON MICROSCOPY | 4 | 3307 | ||
| 40 | 5JUT|1|B+5JUT|1|C | Title: Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure IV (almost non-rotated 40S subunit) | ELECTRON MICROSCOPY | 4 | 3309 | ||
| 41 | 5APN|1|5+5APN|1|8 | Title: Structure of the yeast 60S ribosomal subunit in complex with Arx1, Alb1 and N-terminally tagged Rei1 | ELECTRON MICROSCOPY | 3.91 | 3092 | ||
| 42 | 4U4O|1|5+4U4O|1|8 | Title: Crystal structure of Geneticin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.6 | 3150 | ||
| 43 | 5TGM|1|5+5TGM|1|8 | Title: Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCA-Pro | X-RAY DIFFRACTION | 3.5 | 3150 | ||
| 44 | 5DGV|1|5+5DGV|1|8 | Title: Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog | X-RAY DIFFRACTION | 3.1 | 3149 | ||
| 45 | 5DGE|1|5+5DGE|1|8 | Title: Coping with proline stalling: structural basis of hypusine-induced protein synthesis by the eukaryotic ribosome | X-RAY DIFFRACTION | 3.45 | 3150 | ||
| 46 | 5FCJ|1|5+5FCJ|1|8 | Title: Structure of the anisomycin-containing uL3 W255C mutant 80S yeast ribosome | X-RAY DIFFRACTION | 3.1 | 3150 | ||
| 47 | 4U56|1|5+4U56|1|8 | Title: Crystal structure of Blasticidin S bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.45 | 3150 | ||
| 48 | 4U55|1|5+4U55|1|8 | Title: Crystal structure of Cryptopleurine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3150 | ||
| 49 | 4U4Z|1|5+4U4Z|1|8 | Title: Crystal structure of Phyllanthoside bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.1 | 3150 | ||
| 50 | 4U4N|1|5+4U4N|1|8 | Title: Crystal structure of Edeine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.1 | 3150 | ||
| 51 | 4V88|1|A5+4V88|1|A8 | Title: The structure of the eukaryotic ribosome at 3.0 A resolution. | X-RAY DIFFRACTION | 3 | 3150 | ||
| 52 | 4U4R|1|5+4U4R|1|8 | Title: Crystal structure of Lactimidomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.8 | 3150 | ||
| 53 | 4U3U|1|5+4U3U|1|8 | Title: Crystal structure of Cycloheximide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.9 | 3150 | ||
| 54 | 4U4Y|1|5+4U4Y|1|8 | Title: Crystal structure of Pactamycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3150 | ||
| 55 | 4U3N|1|5+4U3N|1|8 | Title: Crystal structure of CCA trinucleotide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3151 | ||
| 56 | 5I4L|1|5+5I4L|1|8 | Title: Crystal structure of Amicoumacin A bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.1 | 3150 | ||
| 57 | 5TGA|1|5+5TGA|1|8 | Title: Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCA-Pro | X-RAY DIFFRACTION | 3.3 | 3152 | ||
| 58 | 5LYB|1|5+5LYB|1|8 | Title: Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCPmn | X-RAY DIFFRACTION | 3.25 | 3150 | ||
| 59 | 4U4Q|1|5+4U4Q|1|8 | Title: Crystal structure of Homoharringtonine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3150 | ||
| 60 | 4U4U|1|5+4U4U|1|8 | Title: Crystal structure of Lycorine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3150 | ||
| 61 | 4U3M|1|5+4U3M|1|8 | Title: Crystal structure of Anisomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3150 | ||
| 62 | 4U6F|1|5+4U6F|1|8 | Title: Crystal structure of T-2 toxin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.1 | 3150 | ||
| 63 | 4U52|1|5+4U52|1|8 | Title: Crystal structure of Nagilactone C bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3150 | ||
| 64 | 4U50|1|5+4U50|1|8 | Title: Crystal structure of Verrucarin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3150 | ||
| 65 | 4U53|1|5+4U53|1|8 | Title: Crystal structure of Deoxynivalenol bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.3 | 3150 | ||
| 66 | 4U51|1|5+4U51|1|8 | Title: Crystal structure of Narciclasine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3.2 | 3150 | ||
| 67 | 5FCI|1|5+5FCI|1|8 | Title: Structure of the vacant uL3 W255C mutant 80S yeast ribosome | X-RAY DIFFRACTION | 3.4 | 3150 | ||
| 68 | 5DC3|1|5+5DC3|1|8 | Title: Complex of yeast 80S ribosome with non-modified eIF5A | X-RAY DIFFRACTION | 3.25 | 3169 | ||
| 69 | 5DAT|1|5+5DAT|1|8 | Title: Complex of yeast 80S ribosome with hypusine-containing eIF5A | X-RAY DIFFRACTION | 3.15 | 3169 | ||
| 70 | 5DGF|1|5+5DGF|1|8 | Title: Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog | X-RAY DIFFRACTION | 3.3 | 3169 | ||
| 71 | 4V7R|1|D1+4V7R|1|D3 | Title: Yeast 80S ribosome. | X-RAY DIFFRACTION | 4 | 3206 | ||
| 72 | 4V7R|1|B1+4V7R|1|B3 | Title: Yeast 80S ribosome. | X-RAY DIFFRACTION | 4 | 3206 |
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