J3_8CF5_040

3D structure

PDB id

8CF5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Translocation intermediate 1 (TI-1) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin

Experimental method

ELECTRON MICROSCOPY

Resolution

2.71 Å

Loop

Sequence

AGAUUAAG*CGCGC(A2M)AAU*AGU

Length

20 nucleotides

Bulged bases

8CF5|1|c|A|47

QA status

Modified nucleotides: A2M

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_8CF5_040 not in the Motif Atlas

Homologous match to J3_8P9A_069

Geometric discrepancy: 0.0652

The information below is about J3_8P9A_069

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46317.4

Basepair signature

cWW-cWW-cSW-F-cWW-F-F-F-F-cWW-F-F-F-F

Number of instances in this motif group

4

Unit IDs

8CF5|1|c|A|41
8CF5|1|c|G|42
8CF5|1|c|A|43
8CF5|1|c|U|44
8CF5|1|c|U|45
8CF5|1|c|A|46
8CF5|1|c|A|47
8CF5|1|c|G|48
*
8CF5|1|c|C|431
8CF5|1|c|G|432
8CF5|1|c|C|433
8CF5|1|c|G|434
8CF5|1|c|C|435
8CF5|1|c|A2M|436
8CF5|1|c|A|437
8CF5|1|c|A|438
8CF5|1|c|U|439
*
8CF5|1|c|A|464
8CF5|1|c|G|465
8CF5|1|c|U|466

Current chains

Chain c

18S ribosomal RNA

Nearby chains

Chain Aa

Elongation factor 2

Chain m

40S ribosomal protein S9-A

Chain z

40S ribosomal protein S23-A