J3_6ZVK_003

3D structure

PDB id

6ZVK (explore in PDB, NAKB, or RNA 3D Hub)

Description

The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism

Experimental method

ELECTRON MICROSCOPY

Resolution

3.49 Å

Loop

Sequence

AGAG*CAG*CUGGAU

Length

13 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

J3_6ZVK_003 not in the Motif Atlas

Homologous match to J3_4V88_032

Geometric discrepancy: 0.2635

The information below is about J3_4V88_032

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_54972.1

Basepair signature

cWW-tWW-F-cWW-F-tHS-F-cWW

Number of instances in this motif group

2

Unit IDs

6ZVK|1|K3|A|816
6ZVK|1|K3|G|817
6ZVK|1|K3|A|818
6ZVK|1|K3|G|819
*
6ZVK|1|K3|C|829
6ZVK|1|K3|A|830
6ZVK|1|K3|G|831
*
6ZVK|1|K3|C|843
6ZVK|1|K3|U|844
6ZVK|1|K3|G|845
6ZVK|1|K3|G|846
6ZVK|1|K3|A|847
6ZVK|1|K3|U|848

Current chains

Chain K3

18S RIBOSOMAL RNA

Nearby chains

Chain I5

40S ribosomal protein S24

Chain d3

Ribosomal protein S9 (Predicted)

Chain j3

40S ribosomal protein S4