IL_5NDJ_029

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

GAGAG*UGGU

Length

9 nucleotides

Bulged bases

5NDJ|1|13|A|1294

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_029 not in the Motif Atlas

Homologous match to IL_4LFB_029

Geometric discrepancy: 0.1004

The information below is about IL_4LFB_029

Detailed Annotation

Tandem non-canonical cWW pairs

Broad Annotation

No text annotation

Motif group

IL_85033.2

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

35

Unit IDs

5NDJ|1|13|G|1291
5NDJ|1|13|A|1292
5NDJ|1|13|G|1293
5NDJ|1|13|A|1294
5NDJ|1|13|G|1295
*
5NDJ|1|13|U|1369
5NDJ|1|13|G|1370
5NDJ|1|13|G|1371
5NDJ|1|13|U|1372

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain 5E

30S ribosomal protein S6

Chain 6I

30S ribosomal protein S15

Chain 9I

30S ribosomal protein S18