HL_4D61_006

3D structure

PDB id

4D61 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated state

Experimental method

ELECTRON MICROSCOPY

Resolution

9 Å

Loop

Sequence

CCCCCGUG

Length

8 nucleotides

Bulged bases

4D61|1|1|U|328

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

HL_4D61_006 not in the Motif Atlas

Geometric match to HL_5TBW_005

Geometric discrepancy: 0.2056

The information below is about HL_5TBW_005

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_58705.1

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

4D61|1|1|C|322
4D61|1|1|C|323
4D61|1|1|C|324
4D61|1|1|C|325
4D61|1|1|C|326
4D61|1|1|G|327
4D61|1|1|U|328
4D61|1|1|G|329

Current chains

Chain 1

18S RRNA

Nearby chains

Chain G

40S RIBOSOMAL PROTEIN S6