J3_7SYK_017

3D structure

PDB id

7SYK (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the HCV IRES binding to the 40S ribosomal subunit, closed conformation. Structure 5(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.2 Å

Loop

Sequence

AG*CGCAAAU*AGU

Length

12 nucleotides

Bulged bases

7SYK|1|2|C|483, 7SYK|1|2|A|484

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_7SYK_017 not in the Motif Atlas

Homologous match to J3_8P9A_068

Geometric discrepancy: 0.164

The information below is about J3_8P9A_068

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_58657.1

Basepair signature

cWW-cWW-cSW-cWW-F-F-F-F

Number of instances in this motif group

5

Unit IDs

7SYK|1|2|A|40
7SYK|1|2|G|41
*
7SYK|1|2|C|481
7SYK|1|2|G|482
7SYK|1|2|C|483
7SYK|1|2|A|484
7SYK|1|2|A|485
7SYK|1|2|A|486
7SYK|1|2|U|487
*
7SYK|1|2|A|512
7SYK|1|2|G|513
7SYK|1|2|U|514

Current chains

Chain 2

18S rRNA

Nearby chains

Chain K

uS4

Chain Y

uS12