IL_8RJB_025

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

GG*CGACC

Length

7 nucleotides

Bulged bases

8RJB|1|K|G|666, 8RJB|1|K|A|667, 8RJB|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_8RJB_025 not in the Motif Atlas

Geometric match to IL_1NBS_009

Geometric discrepancy: 0.1923

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

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

Current chains

Chain K

28S rRNA

Nearby chains

Chain C

Large ribosomal subunit protein uL4

Chain Q

Ribosomal protein L26

Chain r

60S ribosomal protein L28