Equivalence class NR_all_81815.1 Obsolete
Showing 1 to 41 of 41 entries
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8T2Y|1|tA (rep) | Transfer RNA | A site tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, and A-site tRNA, messenger RNA, PRE | Electron microscopy | 2.2 | 76 | 2024-12-11 |
| 2 | 8T2Y|1|tP | Transfer RNA | P site tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, and A-site tRNA, messenger RNA, PRE | Electron microscopy | 2.2 | 75 | 2024-12-11 |
| 3 | 8T2Z|1|tA | Transfer RNA | A site tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, and A-site tRNA, messenger RNA, POST | Electron microscopy | 2.4 | 76 | 2024-12-11 |
| 4 | 8T2Z|1|tP | Transfer RNA | P site tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, and A-site tRNA, messenger RNA, POST | Electron microscopy | 2.4 | 75 | 2024-12-11 |
| 5 | 8T2X|1|tA | Transfer RNA | A site tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, A-site tRNA, messenger RNA and eIF5A, PRE | Electron microscopy | 2.46 | 76 | 2024-12-11 |
| 6 | 8T2X|1|tP | Transfer RNA | P site tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, A-site tRNA, messenger RNA and eIF5A, PRE | Electron microscopy | 2.46 | 75 | 2024-12-11 |
| 7 | 6TB3|1|n | Transfer RNA | mRNA, tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | yeast 80S ribosome in complex with the Not5 subunit of the CCR4-NOT complex | Electron microscopy | 2.8 | 75 | 2020-04-22 |
| 8 | 8UTI|1|n | Transfer RNA | P site initiator tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Eukaryotic 80S ribosome with Reh1 and A/P site tRNA | Electron microscopy | 3.13 | 75 | 2024-11-06 |
| 9 | 8Z70|1|t | Transfer RNA | tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | State 1 (S1) of yeast 80S ribosome bound to 2 tRNAs during mRNA decoding | Electron microscopy | 3.2 | 75 | 2024-12-11 |
| 10 | 8UT0|1|n | Transfer RNA | P site initiator tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Eukaryotic 80S ribosome with Reh1, eIF5A and A/P site tRNA | Electron microscopy | 3.22 | 75 | 2024-11-06 |
| 11 | 8K82|1|C5 | Transfer RNA | tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Cryo-EM structure of the yeast 80S ribosome with tigecycline, Not5 and P-site tRNA | Electron microscopy | 3 | 75 | 2024-07-10 |
| 12 | 7B7D|1|Sm | Transfer RNA | mRNA, tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Yeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAs | Electron microscopy | 3.3 | 75 | 2021-03-10 |
| 13 | 7B7D|1|Sn | Transfer RNA | mRNA, tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Yeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAs | Electron microscopy | 3.3 | 75 | 2021-03-10 |
| 14 | 6TNU|1|n | Transfer RNA | mRNA, P-site tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Yeast 80S ribosome in complex with eIF5A and decoding A-site and P-site tRNAs. | Electron microscopy | 3.1 | 75 | 2020-04-22 |
| 15 | 6FYY|1|1 | Transfer RNA | mRNA (31-MER), tRNAi | Saccharomyces cerevisiae | Eukarya | RF00005 | Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C2) | Electron microscopy | 3.02 | 75 | 2018-12-05 |
| 16 | 8XU8|1|s | Transfer RNA | tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | State 2c(S2c) of yeast 80S ribosome bound to compact eEF2 and 2 tRNAs during peptidyl transferation | Electron microscopy | 3.4 | 75 | 2024-12-11 |
| 17 | 8XU8|1|t | Transfer RNA | tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | State 2c(S2c) of yeast 80S ribosome bound to compact eEF2 and 2 tRNAs during peptidyl transferation | Electron microscopy | 3.4 | 75 | 2024-12-11 |
| 18 | 8Z71|1|t | Transfer RNA | tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | State 1a (S1a) of yeast 80S ribosome bound to open eEF3 and 2 tRNAs and eEF1A during mRNA decoding | Electron microscopy | 3.6 | 75 | 2024-12-11 |
| 19 | 8CAS|1|1 | Transfer RNA | mRNA, tRNA | Saccharomyces cerevisiae W303 | Eukarya | RF00005 | Cryo-EM structure of native Otu2-bound ubiquitinated 48S initiation complex (partial) | Electron microscopy | 3.3 | 75 | 2023-05-24 |
| 20 | 8RW1|1|1 | Transfer RNA | Met-tRNAi | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation | Electron microscopy | 3.35 | 75 | 2024-09-11 |
| 21 | 8S8D|1|1 | Transfer RNA | Met-tRNAi | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2) | Electron microscopy | 3.45 | 75 | 2024-09-11 |
| 22 | 6FYX|1|1 | Transfer RNA | mRNA (31-MER), tRNAi | Saccharomyces cerevisiae | Eukarya | RF00005 | Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1) | Electron microscopy | 3.5 | 75 | 2018-12-05 |
| 23 | 7NRC|1|Sn | Transfer RNA | RNA (5'-R(P*AP*UP*GP*AP*AP*A)-3'), tRNA (75-MER) | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of the yeast Gcn1 bound to a leading stalled 80S ribosome with Rbg2, Gir2, A- and P-tRNA and eIF5A | Electron microscopy | 3.9 | 75 | 2021-05-05 |
| 24 | 8YLD|1|s | Transfer RNA | tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | State 4a (S4a) of yeast 80S ribosome bound to 2 tRNAs and open eEF3 and eEF2 during translocation | Electron microscopy | 3.9 | 75 | 2024-12-11 |
| 25 | 8YLD|1|t | Transfer RNA | tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | State 4a (S4a) of yeast 80S ribosome bound to 2 tRNAs and open eEF3 and eEF2 during translocation | Electron microscopy | 3.9 | 75 | 2024-12-11 |
| 26 | 8YLR|1|t | Transfer RNA | tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | State 6 (S6) of yeast 80S ribosome bound to 2 tRNAs and eEF2 and eEF3 during tranlocation | Electron microscopy | 3.9 | 75 | 2024-12-11 |
| 27 | 8YLR|1|u | Transfer RNA | tRNA | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | State 6 (S6) of yeast 80S ribosome bound to 2 tRNAs and eEF2 and eEF3 during tranlocation | Electron microscopy | 3.9 | 74 | 2024-12-11 |
| 28 | 1YFG|1|A | Transfer RNA | YEAST INITIATOR TRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | YEAST INITIATOR TRNA | X-ray diffraction | 3 | 75 | 1997-09-03 |
| 29 | 8S8E|1|1 | Transfer RNA | Met-tRNAi | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.1) | Electron microscopy | 3.85 | 75 | 2024-09-11 |
| 30 | 8S8F|1|1 | Transfer RNA | Met-tRNAi | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.2) | Electron microscopy | 3.95 | 75 | 2024-09-11 |
| 31 | 8S8K|1|1 | Transfer RNA | Met-tRNAi | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of a yeast 48S-AUC preinitiation complex in swivelled conformation (model py48S-AUC-swiv-eIF1) | Electron microscopy | 4 | 75 | 2024-11-06 |
| 32 | 8S8H|1|1 | Transfer RNA | Met-tRNAi | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.2) | Electron microscopy | 4 | 75 | 2024-09-11 |
| 33 | 8S8G|1|1 | Transfer RNA | Met-tRNAi | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.1) | Electron microscopy | 4 | 75 | 2024-09-11 |
| 34 | 7NRD|1|Sn | Transfer RNA | tRNA (75-MER) | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of the yeast Gcn1 bound to a colliding stalled 80S ribosome with MBF1, A/P-tRNA and P/E-tRNA | Electron microscopy | 4.36 | 75 | 2021-04-14 |
| 35 | 5OA3|1|1 | Transfer RNA | initiator Met-tRNA-i | Saccharomyces cerevisiae | Eukarya | RF00005 | Human 40S-eIF2D-re-initiation complex | Electron microscopy | 4.2 | 75 | 2017-08-09 |
| 36 | 8S8I|1|1 | Transfer RNA | Met-tRNAi | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-eIF1) | Electron microscopy | 4.3 | 75 | 2024-09-11 |
| 37 | 3J81|1|1 | Met-tRNAi, mRNA | CryoEM structure of a partial yeast 48S preinitiation complex | Electron microscopy | 4 | 74 | 2014-11-05 | ||||
| 38 | 8S8J|1|1 | Transfer RNA | Met-tRNAi | Saccharomyces cerevisiae S288C | Eukarya | RF00005 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-eIF5) | Electron microscopy | 4.7 | 75 | 2024-09-11 |
| 39 | 6GSM|1|1 | Transfer RNA | Met-tRNAi, mRNA (5'-R(P*AP*AP*U)-3') | Saccharomyces cerevisiae | Eukarya | RF00005 | Structure of a partial yeast 48S preinitiation complex in open conformation | Electron microscopy | 5.15 | 75 | 2019-07-31 |
| 40 | 6GSN|1|1 | Transfer RNA | mRNA, tRNAi (75-MER) | Saccharomyces cerevisiae | Eukarya | RF00005 | Structure of a partial yeast 48S preinitiation complex in closed conformation | Electron microscopy | 5.75 | 75 | 2019-06-26 |
| 41 | 6ZU9|1|1 | Transfer RNA | mRNA, tRNA | Saccharomyces cerevisiae | Eukarya | RF00005 | Structure of a yeast ABCE1-bound 48S initiation complex | Electron microscopy | 6.2 | 75 | 2020-10-28 |
Release history
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|
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.
Showing 1 to 41 of 41 entries
| #S | View | PDB | Title | Method | Resolution | #NTs |
|---|---|---|---|---|---|---|
| 1 | 3J81|1|1 | CryoEM structure of a partial yeast 48S preinitiation complex | ELECTRON MICROSCOPY | 4 | 74 | |
| 2 | 6GSN|1|1 | Structure of a partial yeast 48S preinitiation complex in closed conformation | ELECTRON MICROSCOPY | 5.75 | 75 | |
| 3 | 6FYY|1|1 | Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C2) | ELECTRON MICROSCOPY | 3.02 | 75 | |
| 4 | 6ZU9|1|1 | Structure of a yeast ABCE1-bound 48S initiation complex | ELECTRON MICROSCOPY | 6.2 | 75 | |
| 5 | 6FYX|1|1 | Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1) | ELECTRON MICROSCOPY | 3.5 | 75 | |
| 6 | 8CAS|1|1 | Cryo-EM structure of native Otu2-bound ubiquitinated 48S initiation complex (partial) | ELECTRON MICROSCOPY | 3.3 | 75 | |
| 7 | 8S8F|1|1 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.2) | ELECTRON MICROSCOPY | 3.95 | 75 | |
| 8 | 8S8J|1|1 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-eIF5) | ELECTRON MICROSCOPY | 4.7 | 75 | |
| 9 | 8S8G|1|1 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.1) | ELECTRON MICROSCOPY | 4 | 75 | |
| 10 | 8S8I|1|1 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-eIF1) | ELECTRON MICROSCOPY | 4.3 | 75 | |
| 11 | 8S8E|1|1 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.1) | ELECTRON MICROSCOPY | 3.85 | 75 | |
| 12 | 8S8D|1|1 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2) | ELECTRON MICROSCOPY | 3.45 | 75 | |
| 13 | 8RW1|1|1 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation | ELECTRON MICROSCOPY | 3.35 | 75 | |
| 14 | 8S8K|1|1 | Structure of a yeast 48S-AUC preinitiation complex in swivelled conformation (model py48S-AUC-swiv-eIF1) | ELECTRON MICROSCOPY | 4 | 75 | |
| 15 | 8S8H|1|1 | Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.2) | ELECTRON MICROSCOPY | 4 | 75 | |
| 16 | 6GSM|1|1 | Structure of a partial yeast 48S preinitiation complex in open conformation | ELECTRON MICROSCOPY | 5.15 | 75 | |
| 17 | 1YFG|1|A | YEAST INITIATOR TRNA | X-RAY DIFFRACTION | 3 | 75 | |
| 18 | 5OA3|1|1 | Human 40S-eIF2D-re-initiation complex | ELECTRON MICROSCOPY | 4.2 | 75 | |
| 19 | 8YLD|1|t | State 4a (S4a) of yeast 80S ribosome bound to 2 tRNAs and open eEF3 and eEF2 during translocation | ELECTRON MICROSCOPY | 3.9 | 75 | |
| 20 | 8YLR|1|u | State 6 (S6) of yeast 80S ribosome bound to 2 tRNAs and eEF2 and eEF3 during tranlocation | ELECTRON MICROSCOPY | 3.9 | 74 | |
| 21 | 8YLR|1|t | State 6 (S6) of yeast 80S ribosome bound to 2 tRNAs and eEF2 and eEF3 during tranlocation | ELECTRON MICROSCOPY | 3.9 | 75 | |
| 22 | 8YLD|1|s | State 4a (S4a) of yeast 80S ribosome bound to 2 tRNAs and open eEF3 and eEF2 during translocation | ELECTRON MICROSCOPY | 3.9 | 75 | |
| 23 | 7B7D|1|Sm | Yeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAs | ELECTRON MICROSCOPY | 3.3 | 75 | |
| 24 | 8XU8|1|s | State 2c(S2c) of yeast 80S ribosome bound to compact eEF2 and 2 tRNAs during peptidyl transferation | ELECTRON MICROSCOPY | 3.4 | 75 | |
| 25 | 7NRD|1|Sn | Structure of the yeast Gcn1 bound to a colliding stalled 80S ribosome with MBF1, A/P-tRNA and P/E-tRNA | ELECTRON MICROSCOPY | 4.36 | 75 | |
| 26 | 8UTI|1|n | Eukaryotic 80S ribosome with Reh1 and A/P site tRNA | ELECTRON MICROSCOPY | 3.13 | 75 | |
| 27 | 6TNU|1|n | Yeast 80S ribosome in complex with eIF5A and decoding A-site and P-site tRNAs. | ELECTRON MICROSCOPY | 3.1 | 75 | |
| 28 | 7NRC|1|Sn | Structure of the yeast Gcn1 bound to a leading stalled 80S ribosome with Rbg2, Gir2, A- and P-tRNA and eIF5A | ELECTRON MICROSCOPY | 3.9 | 75 | |
| 29 | 8UT0|1|n | Eukaryotic 80S ribosome with Reh1, eIF5A and A/P site tRNA | ELECTRON MICROSCOPY | 3.22 | 75 | |
| 30 | 8T2X|1|tP | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, A-site tRNA, messenger RNA and eIF5A, PRE | ELECTRON MICROSCOPY | 2.46 | 75 | |
| 31 | 8T2Y|1|tP | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, and A-site tRNA, messenger RNA, PRE | ELECTRON MICROSCOPY | 2.2 | 75 | |
| 32 | 8T2Z|1|tP | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, and A-site tRNA, messenger RNA, POST | ELECTRON MICROSCOPY | 2.4 | 75 | |
| 33 | 8Z70|1|t | State 1 (S1) of yeast 80S ribosome bound to 2 tRNAs during mRNA decoding | ELECTRON MICROSCOPY | 3.2 | 75 | |
| 34 | 8Z71|1|t | State 1a (S1a) of yeast 80S ribosome bound to open eEF3 and 2 tRNAs and eEF1A during mRNA decoding | ELECTRON MICROSCOPY | 3.6 | 75 | |
| 35 | 7B7D|1|Sn | Yeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAs | ELECTRON MICROSCOPY | 3.3 | 75 | |
| 36 | 8XU8|1|t | State 2c(S2c) of yeast 80S ribosome bound to compact eEF2 and 2 tRNAs during peptidyl transferation | ELECTRON MICROSCOPY | 3.4 | 75 | |
| 37 | 6TB3|1|n | yeast 80S ribosome in complex with the Not5 subunit of the CCR4-NOT complex | ELECTRON MICROSCOPY | 2.8 | 75 | |
| 38 | 8K82|1|C5 | Cryo-EM structure of the yeast 80S ribosome with tigecycline, Not5 and P-site tRNA | ELECTRON MICROSCOPY | 3 | 75 | |
| 39 | 8T2X|1|tA | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, A-site tRNA, messenger RNA and eIF5A, PRE | ELECTRON MICROSCOPY | 2.46 | 76 | |
| 40 | 8T2Y|1|tA | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, and A-site tRNA, messenger RNA, PRE | ELECTRON MICROSCOPY | 2.2 | 76 | |
| 41 | 8T2Z|1|tA | Hypomethylated yeast 80S bound with cycloheximide, P-site tRNA, and A-site tRNA, messenger RNA, POST | ELECTRON MICROSCOPY | 2.4 | 76 |
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.
Coloring options: