J3_7SYK_002

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

AGAG*CAG*CUGGAU

Length

13 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_7SYK_002 not in the Motif Atlas

Homologous match to J3_8C3A_035

Geometric discrepancy: 0.3779

The information below is about J3_8C3A_035

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_00811.1

Basepair signature

cWW-tWW-F-cWW-F-tHS-F-cWW

Number of instances in this motif group

2

Unit IDs

7SYK|1|2|A|816
7SYK|1|2|G|817
7SYK|1|2|A|818
7SYK|1|2|G|819
*
7SYK|1|2|C|829
7SYK|1|2|A|830
7SYK|1|2|G|831
*
7SYK|1|2|C|843
7SYK|1|2|U|844
7SYK|1|2|G|845
7SYK|1|2|G|846
7SYK|1|2|A|847
7SYK|1|2|U|848

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

40S ribosomal protein S4

Chain K

uS4

Chain Z

40S ribosomal protein S24