9YWB Summary
- Structure title
- Hypomethylated nucleoplasmic pre-60S intermediate containing Nog2 at Rsa4-arrested 5S post-rotation state
- Authors
- Zhao, Y., Li, H.
- Release date
- 2026-11-04
- Experimental technique
- ELECTRON MICROSCOPY
- Resolution
- 2.9 Å
- Chains
- 3 RNA chains from Saccharomyces cerevisiae BY4741
- 53 other chains
- Nucleic acid compounds
- Other compounds
- 25S ribosomal RNA, 5S rRNA, 5.8S rRNA
- Probable metalloprotease ARX1, rRNA-processing protein CGR1, 60S ribosomal protein L2-A, 60S ribosomal protein L3, 60S ribosomal protein L4-A, 60S ribosomal protein L5, 60S ribosomal protein L6-A, 60S ribosomal protein L7-A, Large ribosomal subunit protein eL8A, Large ribosomal subunit protein uL6A, Bud site selection protein 20, 60S ribosomal protein L11-A, 60S ribosomal protein L12, 60S ribosomal protein L13-A, Small ribosomal subunit protein eS32A, 60S ribosomal protein L14-A, Large ribosomal subunit protein eL15A, Large ribosomal subunit protein uL13A, 60S ribosomal protein L17-A, 60S ribosomal protein L18-A, 60S ribosomal protein L19-A, Large ribosomal subunit protein eL20A, 60S ribosomal protein L21-A, 60S ribosomal protein L22-A, 60S ribosomal protein L23-A, Ribosome assembly factor MRT4, 60S ribosomal protein L25, 60S ribosomal protein L26-A, 60S ribosomal protein L27-A, 60S ribosomal protein L28, Nucleolar GTP-binding protein 1, 60S ribosomal protein L30, 60S ribosomal protein L31-A, 60S ribosomal protein L32, 60S ribosomal protein L33-A, 60S ribosomal protein L34-A, 60S ribosomal protein L35-A, 60S ribosomal protein L36-A, 60S ribosomal protein L37-A, 60S ribosomal protein L38, 60S ribosomal protein L39, Nucleolar GTP-binding protein 2, Pre-rRNA-processing protein IPI1, Ribosome biogenesis protein ALB1, 60S ribosomal protein L43-A, Nuclear GTP-binding protein NUG1, Ribosome biogenesis protein NSA2, Large ribosomal subunit protein uL1A, Protein SDA1, Ribosome biogenesis protein RLP24, Ribosome assembly protein 4, Eukaryotic translation initiation factor 6, UPF0642 protein YBL028C
Pairwise Interactions
Interactions annotated by FR3D:- 1,180 base-pairs
- 3,353 base-stacking
- 300 base-phosphate
- 326 base-ribose
- 145 oxygen stacking
- 224 sugar-ribose
RNA 3D Motifs
In the current release of the RNA 3D Motif Atlas, 9YWB contains:- 72 hairpin loops from 0 motif groups
- 125 internal loops from 0 motif groups
- 37 junction loops from 0 motif groups
3D Redundancy
9YWB has chains which belong to the following equivalence classes in the current representative set:- NR_all_90506.87 (1)
- NR_all_18586.80 (1)
- NR_4.0_90506.87 (1)
- NR_4.0_18586.80 (1)
- NR_3.5_90506.87 (1)
- NR_3.5_18586.80 (1)
- NR_3.0_90506.87 (1)
- NR_3.0_18586.80 (1)
- NR_20.0_90506.87 (1)
- NR_20.0_18586.80 (1)
Similar structures
9PN5 8CEH 8CDR 8T2Y 8PFR 7ZW0 8P8N 8EVT 8P8U 8BN3 8T2Z 8AGX 8EVP 8T2X 8EWC 8AAF 8AGT 8CGN 8AGZ 8AGV 6T4Q 8EVS 8AGW 7UQB 8AGU 23EA 8ZHC 8EVQ 8HFR 9F9S 7V08 7MPJ 8EWB 7UOO 7TOO 7ZUX 7TOP 9F9S 7N8B 6TB3 9DOV 8EVR 8P9A 8CG8 8P8M 8P9A 9DP7 7MPI 23AR 6SNT 8ZH3 7UQZ 8CF5 8T30 9YDB 8ZGY 7ZPQ 5TBW 8ZHB 5TBW 8T3A 8K82 9R9O 8PNN 4V88 4V88 22YN 8PNN 8T3D 8EUB 6YLG 8P4V 8P4V 6Q8Y 8ZGR 22YP 7AZY 8K2D 6XIR 8P85 6T7I 8P85 9R9P 6TNU 6T7T 9YDC 8BIP 7OSA 5I4L 6RZZ 8UTI 8T3E 5I4L 9OFV 6Z6K 5MEI 6QIK 5MEI 7U0H 8T3F 6HHQ 5OBM 6HHQ 8T3B 5OBM 8UT0 6N8O 6WOO 7BT6 7RR5 6YLH 5LYB 5NDV 6R87 5ON6 7B7D 5LYB 6M62 6N8M 5ON6 6R86 7ZS5 5NDV 7R7A 6S47 7BTB 7OHQ 6N8J 5NDW 5NDW 7NAC 6QT0 6N8L 7OSM 6Z6J 7ZUW 8Z70 6N8K 6R84 7ZRS 5M1J 3JCT 6RI5 7UG6 6SV4 6T83 7OF1 5FCJ 8Y0U 7OH3 5FCJ 5APO 7NRC 6N8N 23EZ 8XU8 8V87 5NDG 8BJQ 8V83 6SV4 5NDG 6GQV 6FT6 5JUP 6GQB 6HD7 6T83 7Z34 10ZZ 5APN 10ZY 6OIG 11AA 8BQX 6YLY 5MC6 8T3C 8YLR 8BQD 8V84 6SV4 6ELZ 6XIQ 6GQ1 7NRD 7OHX 8YLD 6YLX 5TGM 5TGM 7OHU 7OHV 6EM1 5T6R 5JUT 5H4P 7OHW 7OHY 8Z71 7OHP 7OHR 6C0F 6EM3 5JUO 6EM5 4V8Y 6I7O 6I7O 7OHS 5JUS 9YDD 9YDE 6EM4 3J6Y 3J6X 7OHT 9QJC 3J77 3J78 5Z3G 8E5T 6CB1 4V8Z 4V8T 4V7F 5GAK 5JCS 4V6I 4V7R 4V7R 5DGV 5DAT 5DGV 5DAT 5DGE 5DGF 5DGF 5DGE 5DC3 5TGA 5TGA 5DC3 5FCI 5FCI 8CCS 8CIV 5JUU 6S05 4U4R 4U4R 4U3U 4U3U 4U3M 4U4Q 4U3M 4U4U 4U4Q 4U4U 4U52 4U52 4U6F 4U6F 4U4N 4U4N 4U4Z 4U4Z 4U3N 4U4Y 4U3N 4U55 4U4Y 4U51 4U51 4U55 4U50 4U50 4U53 4U53 4U56 4U56 4U4O 4U4O 8CDL 8CKU 9F58 5T62 8CMJ 6QTZStructures from NR_all_90506.87