HL_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

CAGCAAUGGUUUUAAAG

Length

17 nucleotides

Bulged bases

6ZVK|1|E1|G|6372, 6ZVK|1|E1|C|6373, 6ZVK|1|E1|A|6385

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_6ZVK_002 not in the Motif Atlas

Geometric match to HL_4V88_198

Geometric discrepancy: 0.3416

The information below is about HL_4V88_198

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_71121.1

Basepair signature

cWW-F

Number of instances in this motif group

24

Unit IDs

6ZVK|1|E1|C|6370
6ZVK|1|E1|A|6371
6ZVK|1|E1|G|6372
6ZVK|1|E1|C|6373
6ZVK|1|E1|A|6374
6ZVK|1|E1|A|6375
6ZVK|1|E1|U|6376
6ZVK|1|E1|G|6377
6ZVK|1|E1|G|6378
6ZVK|1|E1|U|6379
6ZVK|1|E1|U|6380
6ZVK|1|E1|U|6381
6ZVK|1|E1|U|6382
6ZVK|1|E1|A|6383
6ZVK|1|E1|A|6384
6ZVK|1|E1|A|6385
6ZVK|1|E1|G|6386

Current chains

Chain E1

INTERNAL RIBOSOME ENTRY SITE

Nearby chains

Chain B3

40S RIBOSOMAL PROTEIN US9

Chain K3

Small subunit ribosomal RNA; SSU rRNA

Chain e2

Large subunit ribosomal RNA; LSU rRNA