IL_6ZVK_196

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

CGAAGG*UGUUGACG

Length

14 nucleotides

Bulged bases

6ZVK|1|e2|A|3663, 6ZVK|1|e2|U|3679, 6ZVK|1|e2|C|3683

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_196 not in the Motif Atlas

Homologous match to IL_5TBW_083

Geometric discrepancy: 0.1294

The information below is about IL_5TBW_083

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_64509.1

Basepair signature

cWW-tWW-tWW-tSS-L-cWW

Number of instances in this motif group

2

Unit IDs

6ZVK|1|e2|C|3660
6ZVK|1|e2|G|3661
6ZVK|1|e2|A|3662
6ZVK|1|e2|A|3663
6ZVK|1|e2|G|3664
6ZVK|1|e2|G|3665
*
6ZVK|1|e2|U|3677
6ZVK|1|e2|G|3678
6ZVK|1|e2|U|3679
6ZVK|1|e2|U|3680
6ZVK|1|e2|G|3681
6ZVK|1|e2|A|3682
6ZVK|1|e2|C|3683
6ZVK|1|e2|G|3684

Current chains

Chain e2

28S RIBOSOMAL RNA

Nearby chains

Chain 92

60S RIBOSOMAL PROTEIN UL2

Chain I2

ribosomal protein eL43

Chain K3

Small subunit ribosomal RNA; SSU rRNA