J3_8RJC_017

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

UUGAAAAGAAC*GAGUUCAAGAGGGCG*CA

Length

28 nucleotides

Bulged bases

8RJC|1|K|G|409, 8RJC|1|K|G|413

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

J3_8RJC_017 not in the Motif Atlas

Homologous match to J3_8C3A_049

Geometric discrepancy: 0.3059

The information below is about J3_8C3A_049

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_91149.1

Basepair signature

cWW-cWS-tSH-F-tWH-cSS-cWW-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-F-cWW-cWW

Number of instances in this motif group

6

Unit IDs

8RJC|1|K|U|380
8RJC|1|K|U|381
8RJC|1|K|G|382
8RJC|1|K|A|383
8RJC|1|K|A|384
8RJC|1|K|A|385
8RJC|1|K|A|386
8RJC|1|K|G|387
8RJC|1|K|A|388
8RJC|1|K|A|389
8RJC|1|K|C|390
*
8RJC|1|K|G|401
8RJC|1|K|A|402
8RJC|1|K|G|403
8RJC|1|K|U|404
8RJC|1|K|U|405
8RJC|1|K|C|406
8RJC|1|K|A|407
8RJC|1|K|A|408
8RJC|1|K|G|409
8RJC|1|K|A|410
8RJC|1|K|G|411
8RJC|1|K|G|412
8RJC|1|K|G|413
8RJC|1|K|C|414
8RJC|1|K|G|415
*
8RJC|1|v|C|19
8RJC|1|v|A|20

Current chains

Chain K

28S rRNA

Chain v

5.8S rRNA

Nearby chains

Chain 1

Protein transport protein Sec61 subunit alpha isoform 1

Chain B

Nascent chain

Chain C

Large ribosomal subunit protein uL4

Chain P

uL22

Chain Y

Ribosomal protein L26

Chain l

60S ribosomal protein L39-like