J3_5NDV_062
3D structure
- PDB id
- 5NDV (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of Paromomycin bound to the yeast 80S ribosome
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 3.3 Å
Loop
- Sequence
- AGAUGG*CGUUUCAAAGGCC*GCCACCAU
- Length
- 27 nucleotides
- Bulged bases
- 5NDV|1|1|C|1556, 5NDV|1|1|A|1558, 5NDV|1|1|C|1581
- QA status
- Valid loop
Sequence variability
-
If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.
- R3DSVS
Structural variability across Equivalence Class
-
The link below will give the loop's structural variability across the equivalence class for this chain.
- R3DMCS EC
Structural variability across Rfam
-
If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.
- R3DMCS Rfam
- J3_5NDV_062 not in the Motif Atlas
- Homologous match to J3_8P9A_056
- Geometric discrepancy: 0.1831
- The information below is about J3_8P9A_056
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_38098.1
- Basepair signature
- cWW-tSH-tWH-tWW-F-tHS-F-cWW-F-F-F-F-F-F-cWW-F-F-F
- Number of instances in this motif group
- 1
Unit IDs
5NDV|1|1|A|1537
5NDV|1|1|G|1538
5NDV|1|1|A|1539
5NDV|1|1|U|1540
5NDV|1|1|G|1541
5NDV|1|1|G|1542
*
5NDV|1|1|C|1551
5NDV|1|1|G|1552
5NDV|1|1|U|1553
5NDV|1|1|U|1554
5NDV|1|1|U|1555
5NDV|1|1|C|1556
5NDV|1|1|A|1557
5NDV|1|1|A|1558
5NDV|1|1|A|1559
5NDV|1|1|G|1560
5NDV|1|1|G|1561
5NDV|1|1|C|1562
5NDV|1|1|C|1563
*
5NDV|1|1|G|1577
5NDV|1|1|C|1578
5NDV|1|1|C|1579
5NDV|1|1|A|1580
5NDV|1|1|C|1581
5NDV|1|1|C|1582
5NDV|1|1|A|1583
5NDV|1|1|U|1584
Current chains
- Chain 1
- 25S ribosomal RNA
Nearby chains
- Chain 4
- 5.8S ribosomal RNA; 5.8S rRNA
- Chain L2
- 60S ribosomal protein L2-A
- Chain L8
- 60S ribosomal protein L8-A
- Chain M5
- 60S ribosomal protein L15-A
- Chain N5
- 60S ribosomal protein L25
- Chain O7
- 60S ribosomal protein L37-A
Coloring options: