IL_4D5Y_116

3D structure

PDB id

4D5Y (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

GCU*GAU

Length

6 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_4D5Y_116 not in the Motif Atlas

Geometric match to IL_5TBW_021

Geometric discrepancy: 0.2472

The information below is about IL_5TBW_021

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_44258.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

301

Unit IDs

4D5Y|1|2|G|4361
4D5Y|1|2|C|4362
4D5Y|1|2|U|4363
*
4D5Y|1|2|G|4400
4D5Y|1|2|A|4401
4D5Y|1|2|U|4402

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain I

60S RIBOSOMAL PROTEIN UL16

Chain b

60S RIBOSOMAL PROTEIN EL29