IL_8RJC_025

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

GG*CGACC

Length

7 nucleotides

Bulged bases

8RJC|1|K|G|666, 8RJC|1|K|A|667, 8RJC|1|K|C|668

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

IL_8RJC_025 not in the Motif Atlas

Geometric match to IL_1NBS_009

Geometric discrepancy: 0.1648

The information below is about IL_1NBS_009

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_82107.5

Basepair signature

cWW-cWW

Number of instances in this motif group

31

Unit IDs

8RJC|1|K|G|487
8RJC|1|K|G|488
*
8RJC|1|K|C|665
8RJC|1|K|G|666
8RJC|1|K|A|667
8RJC|1|K|C|668
8RJC|1|K|C|669

Current chains

Chain K

28S rRNA

Nearby chains

Chain C

Large ribosomal subunit protein uL4

Chain Q

Ribosomal protein L18

Chain r

60S ribosomal protein L28