J3_5NDW_082
3D structure
- PDB id
- 5NDW (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of aminoglycoside TC007 bound to the yeast 80S ribosome
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 3.7 Å
Loop
- Sequence
- UAGAUG*CAUAGCAGG*CGAAUUGCAAUGUCA
- Length
- 30 nucleotides
- Bulged bases
- 5NDW|1|5|A|3172, 5NDW|1|5|G|3173, 5NDW|1|5|A|3215, 5NDW|1|5|G|3216, 5NDW|1|5|G|3219, 5NDW|1|5|A|3268, 5NDW|1|5|U|3270, 5NDW|1|5|C|3272
- 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_5NDW_082 not in the Motif Atlas
- Homologous match to J3_8P9A_064
- Geometric discrepancy: 0.1655
- The information below is about J3_8P9A_064
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_03190.1
- Basepair signature
- cWW-F-F-F-F-F-F-F-cWW-F-F-F-cWW-F
- Number of instances in this motif group
- 1
Unit IDs
5NDW|1|5|U|3171
5NDW|1|5|A|3172
5NDW|1|5|G|3173
5NDW|1|5|A|3174
5NDW|1|5|U|3175
5NDW|1|5|G|3176
*
5NDW|1|5|C|3212
5NDW|1|5|A|3213
5NDW|1|5|U|3214
5NDW|1|5|A|3215
5NDW|1|5|G|3216
5NDW|1|5|C|3217
5NDW|1|5|A|3218
5NDW|1|5|G|3219
5NDW|1|5|G|3220
*
5NDW|1|5|C|3265
5NDW|1|5|G|3266
5NDW|1|5|A|3267
5NDW|1|5|A|3268
5NDW|1|5|U|3269
5NDW|1|5|U|3270
5NDW|1|5|G|3271
5NDW|1|5|C|3272
5NDW|1|5|A|3273
5NDW|1|5|A|3274
5NDW|1|5|U|3275
5NDW|1|5|G|3276
5NDW|1|5|U|3277
5NDW|1|5|C|3278
5NDW|1|5|A|3279
Current chains
- Chain 5
- 25S ribosomal RNA
Nearby chains
- Chain l6
- 60S ribosomal protein L6-A
- Chain m4
- 60S ribosomal protein L14-A
- Chain m6
- 60S ribosomal protein L16-A
- Chain m7
- 60S ribosomal protein L17-A
- Chain o3
- 60S ribosomal protein L33-A
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