IL_8RJB_069

3D structure

PDB id

8RJB (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in complex with Sec61-RAMP4

Experimental method

ELECTRON MICROSCOPY

Resolution

2.69243 Å

Loop

Sequence

GUCUU*AAC

Length

8 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_8RJB_069 not in the Motif Atlas

Geometric match to IL_3PDR_004

Geometric discrepancy: 0.3872

The information below is about IL_3PDR_004

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_36931.1

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

23

Unit IDs

8RJB|1|K|G|1753
8RJB|1|K|U|1754
8RJB|1|K|C|1755
8RJB|1|K|U|1756
8RJB|1|K|U|1757
*
8RJB|1|K|A|1775
8RJB|1|K|A|1776
8RJB|1|K|C|1777

Current chains

Chain K

28S rRNA

Nearby chains

Chain D

Ribosomal_L18_c domain-containing protein

Chain I

60S ribosomal protein L10