J3_8RJB_017

3D structure

PDB id

8RJB (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-RAMP4

Experimental method

ELECTRON MICROSCOPY

Resolution

2.69243 Å

Loop

Sequence

UUGAAAAGAAC*GAGUUCAAGAGGGCG*CA

Length

28 nucleotides

Bulged bases

8RJB|1|K|G|409, 8RJB|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_8RJB_017 not in the Motif Atlas

Homologous match to J3_8C3A_049

Geometric discrepancy: 0.307

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

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