J3_7SYN_004

3D structure

PDB id

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

Description

Structure of the HCV IRES bound to the 40S ribosomal subunit, head opening. Structure 8(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4 Å

Loop

Sequence

AUUC*GGACCAGAG*CAUUU

Length

18 nucleotides

Bulged bases

7SYN|1|2|G|991

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_7SYN_004 not in the Motif Atlas

Homologous match to J3_8P9A_074

Geometric discrepancy: 0.1284

The information below is about J3_8P9A_074

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_23895.1

Basepair signature

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

Number of instances in this motif group

2

Unit IDs

7SYN|1|2|A|938
7SYN|1|2|U|939
7SYN|1|2|U|940
7SYN|1|2|C|941
*
7SYN|1|2|G|985
7SYN|1|2|G|986
7SYN|1|2|A|987
7SYN|1|2|C|988
7SYN|1|2|C|989
7SYN|1|2|A|990
7SYN|1|2|G|991
7SYN|1|2|A|992
7SYN|1|2|G|993
*
7SYN|1|2|C|1000
7SYN|1|2|A|1001
7SYN|1|2|U|1002
7SYN|1|2|U|1003
7SYN|1|2|U|1004

Current chains

Chain 2

18S rRNA

Nearby chains

Chain C

eS1

Chain O

uS15

Chain P

uS11

Chain b

eS26