HL_8RJD_082

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

GUUCCUC

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

HL_8RJD_082 not in the Motif Atlas

Geometric match to HL_8C3A_022

Geometric discrepancy: 0.3314

The information below is about HL_8C3A_022

Detailed Annotation

Externally structured

Broad Annotation

Externally structured

Motif group

HL_96426.1

Basepair signature

cWW-F

Number of instances in this motif group

4

Unit IDs

8RJD|1|v|G|122
8RJD|1|v|U|123
8RJD|1|v|U|124
8RJD|1|v|C|125
8RJD|1|v|C|126
8RJD|1|v|U|127
8RJD|1|v|C|128

Current chains

Chain v

5.8S rRNA

Nearby chains

Chain K

Large subunit ribosomal RNA; LSU rRNA

Chain X

Large ribosomal subunit protein uL23 N-terminal domain-containing protein