J3_7SYN_003

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

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_7SYN_003 not in the Motif Atlas

Homologous match to J3_8C3A_035

Geometric discrepancy: 0.3005

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

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

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

eS4 (S4 X isoform)

Chain K

uS4

Chain Z

eS24