IL_9VXN_068

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

GUCU*AAC

Length

7 nucleotides

Bulged bases

None detected

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_068 not in the Motif Atlas

Geometric match to IL_3PDR_004

Geometric discrepancy: 0.3262

The information below is about IL_3PDR_004

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_36931.5

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

29

Unit IDs

9VXN|1|L5|G|1753
9VXN|1|L5|U|1754
9VXN|1|L5|C|1755
9VXN|1|L5|U|1756
*
9VXN|1|L5|A|1775
9VXN|1|L5|A|1776
9VXN|1|L5|C|1777

Current chains

Chain L5

28S rRNA

Nearby chains

Chain LD

Large ribosomal subunit protein uL18

Chain u

Transfer RNA; tRNA