IL_5NDJ_322

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

CUC*GCGAG

Length

8 nucleotides

Bulged bases

5NDJ|1|1H|G|2591, 5NDJ|1|1H|A|2592

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

IL_5NDJ_322 not in the Motif Atlas

Geometric match to IL_7RQB_097

Geometric discrepancy: 0.0538

The information below is about IL_7RQB_097

Detailed Annotation

Isolated non-canonical cWW with bulges

Broad Annotation

Isolated non-canonical cWW with bulges

Motif group

IL_90933.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

11

Unit IDs

5NDJ|1|1H|C|2525
5NDJ|1|1H|U|2526
5NDJ|1|1H|C|2527
*
5NDJ|1|1H|G|2589
5NDJ|1|1H|C|2590
5NDJ|1|1H|G|2591
5NDJ|1|1H|A|2592
5NDJ|1|1H|G|2593

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L3

Chain N8

50S ribosomal protein L32