J5_5NDV_004
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
- GCAAAAUAG*UG*UG*CGGACAAGG*CAC
- Length
- 25 nucleotides
- Bulged bases
- 5NDV|1|1|G|2116, 5NDV|1|1|G|2121
- 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
- J5_5NDV_004 not in the Motif Atlas
- Homologous match to J5_8P9A_013
- Geometric discrepancy: 0.0536
- The information below is about J5_8P9A_013
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_99177.1
- Basepair signature
- cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW
- Number of instances in this motif group
- 10
Unit IDs
5NDV|1|1|G|1906
5NDV|1|1|C|1907
5NDV|1|1|A|1908
5NDV|1|1|A|1909
5NDV|1|1|A|1910
5NDV|1|1|A|1911
5NDV|1|1|U|1912
5NDV|1|1|A|1913
5NDV|1|1|G|1914
*
5NDV|1|1|U|1938
5NDV|1|1|G|1939
*
5NDV|1|1|U|2109
5NDV|1|1|G|2110
*
5NDV|1|1|C|2114
5NDV|1|1|G|2115
5NDV|1|1|G|2116
5NDV|1|1|A|2117
5NDV|1|1|C|2118
5NDV|1|1|A|2119
5NDV|1|1|A|2120
5NDV|1|1|G|2121
5NDV|1|1|G|2122
*
5NDV|1|1|C|2331
5NDV|1|1|A|2332
5NDV|1|1|C|2333
Current chains
- Chain 1
- 25S ribosomal RNA
Nearby chains
- Chain 2
- Small subunit ribosomal RNA; SSU rRNA
- Chain L3
- 60S ribosomal protein L3
- Chain M9
- 60S ribosomal protein L19-A
- Chain N3
- 60S ribosomal protein L23-A
- Chain N4
- 60S ribosomal protein L24-A
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