HL_6ZVK_046

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

UCUGAUCG

Length

8 nucleotides

Bulged bases

6ZVK|1|e2|C|210

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_046 not in the Motif Atlas

Homologous match to HL_5TBW_005

Geometric discrepancy: 0.2558

The information below is about HL_5TBW_005

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_58705.1

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

6ZVK|1|e2|U|204
6ZVK|1|e2|C|205
6ZVK|1|e2|U|206
6ZVK|1|e2|G|207
6ZVK|1|e2|A|208
6ZVK|1|e2|U|209
6ZVK|1|e2|C|210
6ZVK|1|e2|G|211

Current chains

Chain e2

28S RIBOSOMAL RNA

Nearby chains

Chain o2

Ribosomal protein L26