HL_6ZVK_079

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

AGCAGUU

Length

7 nucleotides

Bulged bases

6ZVK|1|e2|G|2421, 6ZVK|1|e2|U|2425

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_079 not in the Motif Atlas

Homologous match to HL_8C3A_032

Geometric discrepancy: 0.2123

The information below is about HL_8C3A_032

Detailed Annotation

Pseudoknot geometry with 3' bulge

Broad Annotation

No text annotation

Motif group

HL_40756.1

Basepair signature

cWW-F-F-F

Number of instances in this motif group

14

Unit IDs

6ZVK|1|e2|A|2420
6ZVK|1|e2|G|2421
6ZVK|1|e2|C|2422
6ZVK|1|e2|A|2423
6ZVK|1|e2|G|2424
6ZVK|1|e2|U|2425
6ZVK|1|e2|U|2426

Current chains

Chain e2

28S RIBOSOMAL RNA

Nearby chains

Chain 32

60S RIBOSOMAL PROTEIN EL19

Chain D2

ribosomal protein eL39

Chain H2

uL22