J3_8CDR_039

3D structure

PDB id

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

Description

Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin

Experimental method

ELECTRON MICROSCOPY

Resolution

2.04 Å

Loop

Sequence

AG*CGC(A2M)AAU*AGU

Length

12 nucleotides

Bulged bases

None detected

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_8CDR_039 not in the Motif Atlas

Geometric match to J3_8C3A_082

Geometric discrepancy: 0.0617

The information below is about J3_8C3A_082

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_67856.2

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

8CDR|1|c|A|41
8CDR|1|c|G|42
*
8CDR|1|c|C|433
8CDR|1|c|G|434
8CDR|1|c|C|435
8CDR|1|c|A2M|436
8CDR|1|c|A|437
8CDR|1|c|A|438
8CDR|1|c|U|439
*
8CDR|1|c|A|464
8CDR|1|c|G|465
8CDR|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