J4_8RJD_008

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

CUG*CG*CUUAAGGUAG*UGAAUG

Length

21 nucleotides

Bulged bases

8RJD|1|K|U|3818

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

J4_8RJD_008 not in the Motif Atlas

Homologous match to J4_8C3A_007

Geometric discrepancy: 0.1034

The information below is about J4_8C3A_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

8RJD|1|K|C|3696
8RJD|1|K|U|3697
8RJD|1|K|G|3698
*
8RJD|1|K|C|3752
8RJD|1|K|G|3753
*
8RJD|1|K|C|3771
8RJD|1|K|U|3772
8RJD|1|K|U|3773
8RJD|1|K|A|3774
8RJD|1|K|A|3775
8RJD|1|K|G|3776
8RJD|1|K|G|3777
8RJD|1|K|U|3778
8RJD|1|K|A|3779
8RJD|1|K|G|3780
*
8RJD|1|K|U|3814
8RJD|1|K|G|3815
8RJD|1|K|A|3816
8RJD|1|K|A|3817
8RJD|1|K|U|3818
8RJD|1|K|G|3819

Current chains

Chain K

28S rRNA

Nearby chains

Chain A

Ribosomal protein L8

Chain n

60S ribosomal protein L41

Chain q

Transfer RNA; tRNA