IL_5NDV_383

3D structure

PDB id

5NDV (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of Paromomycin bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

AU*AAU

Length

5 nucleotides

Bulged bases

5NDV|1|6|A|506

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_5NDV_383 not in the Motif Atlas

Geometric match to IL_9E6Q_024

Geometric discrepancy: 0.3257

The information below is about IL_9E6Q_024

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_14190.5

Basepair signature

cWW-L-cWW

Number of instances in this motif group

188

Unit IDs

5NDV|1|6|A|481
5NDV|1|6|U|482
*
5NDV|1|6|A|505
5NDV|1|6|A|506
5NDV|1|6|U|507

Current chains

Chain 6

18S ribosomal RNA

Nearby chains

Chain e0

40S ribosomal protein S30-A