IL_6ZVK_002

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

CAAA*UGACG

Length

9 nucleotides

Bulged bases

6ZVK|1|K3|A|516

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_6ZVK_002 not in the Motif Atlas

Geometric match to IL_4WF9_016

Geometric discrepancy: 0.3475

The information below is about IL_4WF9_016

Detailed Annotation

Double sheared

Broad Annotation

Double sheared

Motif group

IL_09705.15

Basepair signature

cWW-tSH-tHS-cWW

Number of instances in this motif group

34

Unit IDs

6ZVK|1|K3|C|37
6ZVK|1|K3|A|38
6ZVK|1|K3|A|39
6ZVK|1|K3|A|40
*
6ZVK|1|K3|U|514
6ZVK|1|K3|G|515
6ZVK|1|K3|A|516
6ZVK|1|K3|C|517
6ZVK|1|K3|G|518

Current chains

Chain K3

18S RIBOSOMAL RNA

Nearby chains

Chain d3

Ribosomal protein S9 (Predicted)

Chain j3

40S ribosomal protein S4