J4_8RJD_007

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

GACUG*CAAAG*UGAUU*AUGAAC

Length

21 nucleotides

Bulged bases

None detected

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_007 not in the Motif Atlas

Homologous match to J4_8P9A_017

Geometric discrepancy: 0.0928

The information below is about J4_8P9A_017

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_78485.1

Basepair signature

cWW-tSW-F-F-tHS-F-cWW-F-cWW-F-F-tHS-F-cWW

Number of instances in this motif group

6

Unit IDs

8RJD|1|K|G|3634
8RJD|1|K|A|3635
8RJD|1|K|C|3636
8RJD|1|K|U|3637
8RJD|1|K|G|3638
*
8RJD|1|K|C|3650
8RJD|1|K|A|3651
8RJD|1|K|A|3652
8RJD|1|K|A|3653
8RJD|1|K|G|3654
*
8RJD|1|K|U|3690
8RJD|1|K|G|3691
8RJD|1|K|A|3692
8RJD|1|K|U|3693
8RJD|1|K|U|3694
*
8RJD|1|K|A|3821
8RJD|1|K|U|3822
8RJD|1|K|G|3823
8RJD|1|K|A|3824
8RJD|1|K|A|3825
8RJD|1|K|C|3826

Current chains

Chain K

28S rRNA

Nearby chains

Chain A

Ribosomal protein L8

Chain n

60S ribosomal protein L41

Chain p

60S ribosomal protein L37a