IL_4D5L_005

3D structure

PDB id

4D5L (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

CAU*AG

Length

5 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_4D5L_005 not in the Motif Atlas

Homologous match to IL_4V88_388

Geometric discrepancy: 0.1876

The information below is about IL_4V88_388

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_18604.1

Basepair signature

cWW-tSH-L-R-tHH-tHS-cWW

Number of instances in this motif group

46

Unit IDs

4D5L|1|1|C|49
4D5L|1|1|A|50
4D5L|1|1|U|51
*
4D5L|1|1|A|476
4D5L|1|1|G|477

Current chains

Chain 1

18S RRNA 2

Nearby chains

Chain J

40S RIBOSOMAL PROTEIN US4

Chain Y

40S RIBOSOMAL PROTEIN ES24