IL_8RJD_155

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

GUCCC*GGUC

Length

9 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

IL_8RJD_155 not in the Motif Atlas

Geometric match to IL_7A0S_102

Geometric discrepancy: 0.3558

The information below is about IL_7A0S_102

Detailed Annotation

Major groove platform with intercalation

Broad Annotation

Major groove platform with intercalation

Motif group

IL_58502.1

Basepair signature

cWW-cWW-L-R-L-cWW

Number of instances in this motif group

5

Unit IDs

8RJD|1|K|G|4769
8RJD|1|K|U|4770
8RJD|1|K|C|4771
8RJD|1|K|C|4772
8RJD|1|K|C|4773
*
8RJD|1|K|G|4862
8RJD|1|K|G|4863
8RJD|1|K|U|4864
8RJD|1|K|C|4865

Current chains

Chain K

28S rRNA

Nearby chains

Chain H

60S ribosomal protein L9

Chain O

60S ribosomal protein L13a