J3_6ZVK_028

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

CGG*CUGAC*GGACAG

Length

14 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

J3_6ZVK_028 not in the Motif Atlas

Geometric match to J3_5J7L_044

Geometric discrepancy: 0.3885

The information below is about J3_5J7L_044

Detailed Annotation

Kink-turn 3-way junction

Broad Annotation

No text annotation

Motif group

J3_89368.5

Basepair signature

cWW-tSH-tHW-F-cWW-tHH-cWW

Number of instances in this motif group

3

Unit IDs

6ZVK|1|e2|C|3937
6ZVK|1|e2|G|3938
6ZVK|1|e2|G|3939
*
6ZVK|1|e2|C|4074
6ZVK|1|e2|U|4075
6ZVK|1|e2|G|4076
6ZVK|1|e2|A|4077
6ZVK|1|e2|C|4078
*
6ZVK|1|e2|G|4168
6ZVK|1|e2|G|4169
6ZVK|1|e2|A|4170
6ZVK|1|e2|C|4171
6ZVK|1|e2|A|4172
6ZVK|1|e2|G|4173

Current chains

Chain e2

28S RIBOSOMAL RNA

Nearby chains

Chain 12

Ribosomal protein L15

Chain 92

60S RIBOSOMAL PROTEIN UL2

Chain V2

60S RIBOSOMAL PROTEIN EL8