J3_7SYO_002

3D structure

PDB id

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

Description

Structure of the HCV IRES bound to the 40S ribosomal subunit, head open. Structure 9(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.6 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_7SYO_002 not in the Motif Atlas

Homologous match to J3_8C3A_035

Geometric discrepancy: 0.3735

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

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

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

eS4 (S4 X isoform)

Chain K

uS4

Chain Z

eS24