9YPS Summary
- Structure title
- GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIb
- Authors
- Susorov, D., Korostelev, A.A.
- Release date
- 2025-12-17
- Experimental technique
- ELECTRON MICROSCOPY
- Resolution
- 3.0 Å
- Chains
- 8 RNA chains from Oryctolagus cuniculus, Homo sapiens, Saccharomyces cerevisiae
- 76 other chains
- Nucleic acid compounds
- Other compounds
- MF mRNA, Met-tRNA, Phe-tRNA, Met-tRNA, 28S ribosomal RNA, 5S ribosomal RNA, 5.8S ribosomal RNA, 18S ribosomal RNA
- Ribosomal protein L8, uS2 (SA), Ribosomal protein L3, 40S ribosomal protein S3a, 60S ribosomal protein L4, Small ribosomal subunit protein uS5, Large ribosomal subunit protein uL18, Ribosomal protein S3, 60S ribosomal protein L6, eS4 (S4 X isoform), Ribosomal protein S5, 60S ribosomal protein L7a, 40S ribosomal protein S6, 60S ribosomal protein L9, 40S ribosomal protein S7, 60S ribosomal protein L10, 40S ribosomal protein S8, Ribosomal protein L11, Ribosomal protein S9 (Predicted), 60S ribosomal protein L7, Small ribosomal subunit protein eS10, 60S ribosomal protein L13, Ribosomal protein S11, 60S ribosomal protein L14, 40S ribosomal protein S12, Ribosomal protein L15, Ribosomal protein S13, Large ribosomal subunit protein uL13, Small ribosomal subunit protein uS11, Large ribosomal subunit protein uL22, uS19, Ribosomal protein L18, uS9, Ribosomal protein L19, eS17, 60S ribosomal protein L18a, uS13, eL21, eS19, eL22, uS10, Ribosomal protein L23, eS21, eL24, Ribosomal protein S15a, eL23, uS12, uL24, 40S ribosomal protein S24, 60S ribosomal protein L27, eS25, 60S ribosomal protein L27a, 40S ribosomal protein S26, Large ribosomal subunit protein eL29, 40S ribosomal protein S27, eL30, Ribosomal protein S28, eL31, eS29, Ribosomal protein L32, 40S ribosomal protein S30, eL33, Ribosomal protein S27a, Large ribosomal subunit protein eL34, RACK1, eL35, 60S ribosomal protein L36, Ribosomal protein L37, GTP-binding protein 1, eL38, eL39, Ubiquitin-ribosomal protein eL40 fusion protein, eL41, Large ribosomal subunit protein eL42, eL43, eL28
Pairwise Interactions
Interactions annotated by FR3D:- 2,222 base-pairs
- 5,986 base-stacking
- 526 base-phosphate
- 628 base-ribose
- 250 oxygen stacking
- 208 sugar-ribose
RNA 3D Motifs
In the current release of the RNA 3D Motif Atlas, 9YPS contains:- 116 hairpin loops from 0 motif groups
- 269 internal loops from 0 motif groups
- 70 junction loops from 0 motif groups
3D Redundancy
9YPS has chains which belong to the following equivalence classes in the current representative set:- NR_all_83593.11 (1)
- NR_all_06650.49 (1)
- NR_all_10255.49 (1)
- NR_all_21280.50 (1)
- NR_all_83098.13 (2)
- NR_4.0_83593.11 (1)
- NR_4.0_06650.49 (1)
- NR_4.0_10255.49 (1)
- NR_4.0_21280.50 (1)
- NR_4.0_83098.13 (2)
- NR_3.5_83593.11 (1)
- NR_3.5_06650.49 (1)
- NR_3.5_10255.49 (1)
- NR_3.5_21280.50 (1)
- NR_3.5_83098.13 (2)
- NR_3.0_83593.11 (1)
- NR_3.0_06650.49 (1)
- NR_3.0_10255.49 (1)
- NR_3.0_21280.50 (1)
- NR_3.0_83098.13 (2)
- NR_20.0_83593.11 (1)
- NR_20.0_06650.49 (1)
- NR_20.0_10255.49 (1)
- NR_20.0_21280.50 (1)
- NR_20.0_83098.13 (2)
Similar structures
8XSX 6ZP4 8PPL 9YPZ 9YQ1 9YQ0 9YPY 9SPF 8K2C 9SPI 7QVP 8PJ5 9YPW 9I14 9KRP 7A09 8PJ6 9YPO 6Y57 8XSZ 9KN6 9YPG 9YPT 8PJ4 9RU9 9YPV 9RUA 8PJ1 9M0P 4UG0 9YPZ 8PJ2 9YQ1 9YQ0 9RU8 7TQL 9YPY 8PJ3 9YPV 5T2C 9YPW 9YPO 9YPT 8XSZ 9YPG 8XSY 6FEC 4V6X 4KZZ 6QZPStructures from NR_all_83098.13