HL_4D67_009

3D structure

PDB id

4D67 (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

GGUAAACUCC

Length

10 nucleotides

Bulged bases

4D67|1|2|G|306

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_4D67_009 not in the Motif Atlas

Homologous match to HL_5TBW_009

Geometric discrepancy: 0.263

The information below is about HL_5TBW_009

Detailed Annotation

Pseudoknot geometry

Broad Annotation

No text annotation

Motif group

HL_15076.1

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

10

Unit IDs

4D67|1|2|G|305
4D67|1|2|G|306
4D67|1|2|U|307
4D67|1|2|A|308
4D67|1|2|A|309
4D67|1|2|A|310
4D67|1|2|C|311
4D67|1|2|U|312
4D67|1|2|C|313
4D67|1|2|C|314

Current chains

Chain 2

28S RRNA

Nearby chains

Chain L

60S RIBOSOMAL PROTEIN L13

Chain N

60S RIBOSOMAL PROTEIN L15

Chain a

60S RIBOSOMAL PROTEIN L27A

Chain i

60S RIBOSOMAL PROTEIN L36

Chain o

60S RIBOSOMAL PROTEIN L36A