J3_6ZVK_033

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

AGAUUAAG*CGCGCAAAU*AGU

Length

20 nucleotides

Bulged bases

6ZVK|1|K3|A|46

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_033 not in the Motif Atlas

Homologous match to J3_8C3A_083

Geometric discrepancy: 0.1434

The information below is about J3_8C3A_083

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46317.2

Basepair signature

cWW-F-tWH-cSW-cWW-cWW-F-F-cSW-cWW

Number of instances in this motif group

5

Unit IDs

6ZVK|1|K3|A|40
6ZVK|1|K3|G|41
6ZVK|1|K3|A|42
6ZVK|1|K3|U|43
6ZVK|1|K3|U|44
6ZVK|1|K3|A|45
6ZVK|1|K3|A|46
6ZVK|1|K3|G|47
*
6ZVK|1|K3|C|479
6ZVK|1|K3|G|480
6ZVK|1|K3|C|481
6ZVK|1|K3|G|482
6ZVK|1|K3|C|483
6ZVK|1|K3|A|484
6ZVK|1|K3|A|485
6ZVK|1|K3|A|486
6ZVK|1|K3|U|487
*
6ZVK|1|K3|A|512
6ZVK|1|K3|G|513
6ZVK|1|K3|U|514

Current chains

Chain K3

18S RIBOSOMAL RNA

Nearby chains

Chain T3

Ribosomal protein S23

Chain d3

Ribosomal protein S9 (Predicted)