3D structure

PDB id
5NDJ (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking)
Experimental method
X-RAY DIFFRACTION
Resolution
3.15 Å

Loop

Sequence
CUAAAC*GGGUCGUG*CGAGUAC*GGAAUCUG*UAAG
Length
33 nucleotides
Bulged bases
5NDJ|1|1H|U|289, 5NDJ|1|1H|U|433
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
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
Not in a motif group
Basepair signature
Not available
Number of instances in this motif group
0

Unit IDs

5NDJ|1|1H|C|258
5NDJ|1|1H|U|259
5NDJ|1|1H|A|260
5NDJ|1|1H|A|261
5NDJ|1|1H|A|262
5NDJ|1|1H|C|263
*
5NDJ|1|1H|G|283
5NDJ|1|1H|G|284
5NDJ|1|1H|G|285
5NDJ|1|1H|U|286
5NDJ|1|1H|C|287
5NDJ|1|1H|G|288
5NDJ|1|1H|U|289
5NDJ|1|1H|G|290
*
5NDJ|1|1H|C|397
5NDJ|1|1H|G|398
5NDJ|1|1H|A|399
5NDJ|1|1H|G|400
5NDJ|1|1H|U|401
5NDJ|1|1H|A|402
5NDJ|1|1H|C|403
*
5NDJ|1|1H|G|427
5NDJ|1|1H|G|428
5NDJ|1|1H|A|429
5NDJ|1|1H|A|430
5NDJ|1|1H|U|431
5NDJ|1|1H|C|432
5NDJ|1|1H|U|433
5NDJ|1|1H|G|434
*
5NDJ|1|1H|U|450
5NDJ|1|1H|A|451
5NDJ|1|1H|A|452
5NDJ|1|1H|G|453

Current chains

Chain 1H
23S ribosomal RNA

Nearby chains

Chain 61
50S ribosomal protein L9
Chain J8
50S ribosomal protein L28

Coloring options:

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