HL_6ZVK_116

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

CUGAACGCCUCUAAG

Length

15 nucleotides

Bulged bases

6ZVK|1|e2|G|4694, 6ZVK|1|e2|C|4698

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_116 not in the Motif Atlas

Homologous match to HL_8C3A_068

Geometric discrepancy: 0.1203

The information below is about HL_8C3A_068

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_56677.9

Basepair signature

cWW-tWH-cWH-tSH-tHW-tHW-tSW

Number of instances in this motif group

7

Unit IDs

6ZVK|1|e2|C|4688
6ZVK|1|e2|U|4689
6ZVK|1|e2|G|4690
6ZVK|1|e2|A|4691
6ZVK|1|e2|A|4692
6ZVK|1|e2|C|4693
6ZVK|1|e2|G|4694
6ZVK|1|e2|C|4695
6ZVK|1|e2|C|4696
6ZVK|1|e2|U|4697
6ZVK|1|e2|C|4698
6ZVK|1|e2|U|4699
6ZVK|1|e2|A|4700
6ZVK|1|e2|A|4701
6ZVK|1|e2|G|4702

Current chains

Chain e2

28S RIBOSOMAL RNA

Nearby chains

Chain E2

60S RIBOSOMAL PROTEIN EL40

Chain W2

60S RIBOSOMAL PROTEIN UL6

Chain w2

60S RIBOSOMAL PROTEIN UL13