IL_6ZVK_086

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

AUCUC*GAUCU

Length

10 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_6ZVK_086 not in the Motif Atlas

Geometric match to IL_7RQB_114

Geometric discrepancy: 0.1555

The information below is about IL_7RQB_114

Detailed Annotation

Symmetric double minor groove platform

Broad Annotation

No text annotation

Motif group

IL_58103.6

Basepair signature

cWW-cWS-L-tSW-L-cWW

Number of instances in this motif group

8

Unit IDs

6ZVK|1|d2|A|32
6ZVK|1|d2|U|33
6ZVK|1|d2|C|34
6ZVK|1|d2|U|35
6ZVK|1|d2|C|36
*
6ZVK|1|d2|G|41
6ZVK|1|d2|A|42
6ZVK|1|d2|U|43
6ZVK|1|d2|C|44
6ZVK|1|d2|U|45

Current chains

Chain d2

5S RIBOSOMAL RNA

Nearby chains

Chain G2

60S ribosomal protein L5

Chain Y2

Ribosomal protein L11

Chain e2

Large subunit ribosomal RNA; LSU rRNA