J4_8RJD_003

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

CC*GAGGGAG*UGCGCCGCGCU*GCGCACGGGG

Length

30 nucleotides

Bulged bases

8RJD|1|K|G|959, 8RJD|1|K|C|972, 8RJD|1|K|C|1280

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

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|712
8RJD|1|K|C|713
*
8RJD|1|K|G|955
8RJD|1|K|A|956
8RJD|1|K|G|957
8RJD|1|K|G|958
8RJD|1|K|G|959
8RJD|1|K|A|960
8RJD|1|K|G|961
*
8RJD|1|K|U|971
8RJD|1|K|G|971|||A
8RJD|1|K|C|972
8RJD|1|K|G|973
8RJD|1|K|C|974
8RJD|1|K|C|975
8RJD|1|K|G|976
8RJD|1|K|C|977
8RJD|1|K|G|978
8RJD|1|K|C|979
8RJD|1|K|U|980
*
8RJD|1|K|G|1275
8RJD|1|K|C|1276
8RJD|1|K|G|1277
8RJD|1|K|C|1278
8RJD|1|K|A|1279
8RJD|1|K|C|1280
8RJD|1|K|G|1281
8RJD|1|K|G|1282
8RJD|1|K|G|1283
8RJD|1|K|G|1284

Current chains

Chain K

28S rRNA

Nearby chains

Chain C

Large ribosomal subunit protein uL4

Chain E

60S ribosomal protein L6

Chain F

Ribosomal Protein uL30

Chain e

Ribosomal protein L32