J3_7SYJ_004

3D structure

PDB id

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

Description

Structure of the HCV IRES binding to the 40S ribosomal subunit, closed conformation. Structure 4(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.8 Å

Loop

Sequence

AUUC*GGACCAGAG*CAUUU

Length

18 nucleotides

Bulged bases

7SYJ|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_7SYJ_004 not in the Motif Atlas

Homologous match to J3_8P9A_074

Geometric discrepancy: 0.1466

The information below is about J3_8P9A_074

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_76375.1

Basepair signature

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

Number of instances in this motif group

1

Unit IDs

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

Current chains

Chain 2

18S rRNA

Nearby chains

Chain C

eS1

Chain P

uS11

Chain b

eS26 (S26)