J4_5NDK_003
3D structure
- PDB id
- 5NDK (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.95 Å
Loop
- Sequence
- GGG*CGAAAG*CCCUAAACGAUG*CC
- Length
- 23 nucleotides
- Bulged bases
- 5NDK|1|13|A|1444
- 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
- J4_5NDK_003 not in the Motif Atlas
- Homologous match to J4_4LFB_003
- Geometric discrepancy: 0.0551
- The information below is about J4_4LFB_003
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_14595.1
- Basepair signature
- cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F
- Number of instances in this motif group
- 5
Unit IDs
5NDK|1|13|G|1204
5NDK|1|13|G|1205
5NDK|1|13|G|1206
*
5NDK|1|13|C|1393
5NDK|1|13|G|1394
5NDK|1|13|A|1395
5NDK|1|13|A|1396
5NDK|1|13|A|1397
5NDK|1|13|G|1398
*
5NDK|1|13|C|1439
5NDK|1|13|C|1440
5NDK|1|13|C|1441
5NDK|1|13|U|1442
5NDK|1|13|A|1443
5NDK|1|13|A|1444
5NDK|1|13|A|1445
5NDK|1|13|C|1446
5NDK|1|13|G|1447
5NDK|1|13|A|1448
5NDK|1|13|U|1449
5NDK|1|13|G|1450
*
5NDK|1|13|C|1502
5NDK|1|13|C|1503
Current chains
- Chain 13
- 16S ribosomal RNA
Nearby chains
- Chain 1H
- Large subunit ribosomal RNA; LSU rRNA
- Chain 3I
- 30S ribosomal protein S12
- Chain 6I
- 30S ribosomal protein S15
- Chain 7E
- 30S ribosomal protein S8
- Chain 8I
- 30S ribosomal protein S17
Coloring options: