HL_8RJD_005

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

UCUGAUCG

Length

8 nucleotides

Bulged bases

8RJD|1|K|C|210

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_005 not in the Motif Atlas

Homologous match to HL_8C3A_005

Geometric discrepancy: 0.3828

The information below is about HL_8C3A_005

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_58705.1

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

8RJD|1|K|U|204
8RJD|1|K|C|205
8RJD|1|K|U|206
8RJD|1|K|G|207
8RJD|1|K|A|208
8RJD|1|K|U|209
8RJD|1|K|C|210
8RJD|1|K|G|211

Current chains

Chain K

28S rRNA

Nearby chains

Chain Y

Ribosomal protein L26

Chain e

Ribosomal protein L32