IL_8RJD_093

3D structure

PDB id

8RJD (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-TRAP, open conformation 2

Experimental method

ELECTRON MICROSCOPY

Resolution

2.78574 Å

Loop

Sequence

GAGUGG*CGC

Length

9 nucleotides

Bulged bases

8RJD|1|K|U|2545

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_8RJD_093 not in the Motif Atlas

Geometric match to IL_6DME_003

Geometric discrepancy: 0.2789

The information below is about IL_6DME_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_75527.1

Basepair signature

cWW-cWW-cSH-cWW

Number of instances in this motif group

10

Unit IDs

8RJD|1|K|G|2542
8RJD|1|K|A|2543
8RJD|1|K|G|2544
8RJD|1|K|U|2545
8RJD|1|K|G|2546
8RJD|1|K|G|2547
*
8RJD|1|K|C|2772
8RJD|1|K|G|2773
8RJD|1|K|C|2774

Current chains

Chain K

28S rRNA

Nearby chains

Chain 7

Translocon-associated protein subunit gamma

Chain k

Large ribosomal subunit protein eL38

Chain v

5.8S ribosomal RNA; 5.8S rRNA