J3_8CDL_040

3D structure

PDB id

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

Description

80S S. cerevisiae ribosome with ligands in hybrid-2 pre-translocation (PRE-H2) complex

Experimental method

ELECTRON MICROSCOPY

Resolution

2.72 Å

Loop

Sequence

AGAUUAAG*CGCGC(A2M)AAU*AGU

Length

20 nucleotides

Bulged bases

8CDL|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_8CDL_040 not in the Motif Atlas

Homologous match to J3_8P9A_069

Geometric discrepancy: 0.0587

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

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

Current chains

Chain c

18S ribosomal RNA

Nearby chains

Chain m

40S ribosomal protein S9-A

Chain z

40S ribosomal protein S23-A