J4_8RJC_005

3D structure

PDB id

8RJC (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 1

Experimental method

ELECTRON MICROSCOPY

Resolution

2.90061 Å

Loop

Sequence

GGUUC*GGUCAG*UC*GGCCGUAC

Length

21 nucleotides

Bulged bases

8RJC|1|K|C|2437

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_8RJC_005 not in the Motif Atlas

Homologous match to J4_8C3A_004

Geometric discrepancy: 0.0849

The information below is about J4_8C3A_004

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

8RJC|1|K|G|2406
8RJC|1|K|G|2407
8RJC|1|K|U|2408
8RJC|1|K|U|2409
8RJC|1|K|C|2410
*
8RJC|1|K|G|2434
8RJC|1|K|G|2435
8RJC|1|K|U|2436
8RJC|1|K|C|2437
8RJC|1|K|A|2438
8RJC|1|K|G|2439
*
8RJC|1|K|U|2538
8RJC|1|K|C|2539
*
8RJC|1|K|G|2777
8RJC|1|K|G|2778
8RJC|1|K|C|2779
8RJC|1|K|C|2780
8RJC|1|K|G|2781
8RJC|1|K|U|2782
8RJC|1|K|A|2783
8RJC|1|K|C|2784

Current chains

Chain K

28S rRNA

Nearby chains

Chain 1

Protein transport protein Sec61 subunit alpha isoform 1

Chain R

Ribosomal protein L19

Chain X

Ribosomal_L23eN domain-containing protein

Chain g

60S ribosomal protein L34

Chain h

60S ribosomal protein L35

Chain j

Ribosomal protein L37

Chain k

60S ribosomal protein L38

Chain l

60S ribosomal protein L39-like

Chain v

5.8S ribosomal RNA; 5.8S rRNA