IL_9VXN_014

3D structure

PDB id

9VXN (explore in PDB, NAKB, or RNA 3D Hub)

Description

Human cytosolic ribosome in a rotated state, with multiple neomycin molecules bound, featuring A/P-site and P/E-site tRNAs

Experimental method

ELECTRON MICROSCOPY

Resolution

2.51 Å

Loop

Sequence

CCGG*CG

Length

6 nucleotides

Bulged bases

9VXN|1|L5|C|340

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_9VXN_014 not in the Motif Atlas

Homologous match to IL_8GLP_017

Geometric discrepancy: 0.0815

The information below is about IL_8GLP_017

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_26092.1

Basepair signature

cWW-tHS-cWW

Number of instances in this motif group

29

Unit IDs

9VXN|1|L5|C|339
9VXN|1|L5|C|340
9VXN|1|L5|G|341
9VXN|1|L5|G|342
*
9VXN|1|L8|C|32
9VXN|1|L8|G|33

Current chains

Chain L5

28S rRNA

Chain L8

5.8S rRNA

Nearby chains

Chain LC

Large ribosomal subunit protein uL4

Chain LL

Large ribosomal subunit protein eL13

Chain LN

Large ribosomal subunit protein eL15

Chain Lj

Large ribosomal subunit protein eL37