J3_7SYI_015

3D structure

PDB id

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

Description

Structure of the HCV IRES binding to the 40S ribosomal subunit, closed conformation. Structure 3(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.5 Å

Loop

Sequence

CCAG*CCAGUAA*UGAUUAAG

Length

19 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_7SYI_015 not in the Motif Atlas

Homologous match to J3_8P9A_076

Geometric discrepancy: 0.2911

The information below is about J3_8P9A_076

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.4

Basepair signature

cWW-F-F-cSS-F-cWW-tWW-F-tWH-F-tHS-cSH-cWW

Number of instances in this motif group

4

Unit IDs

7SYI|1|2|C|1218
7SYI|1|2|C|1219
7SYI|1|2|A|1220
7SYI|1|2|G|1221
*
7SYI|1|2|C|1645
7SYI|1|2|C|1646
7SYI|1|2|A|1647
7SYI|1|2|G|1648
7SYI|1|2|U|1649
7SYI|1|2|A|1650
7SYI|1|2|A|1651
*
7SYI|1|2|U|1673
7SYI|1|2|G|1674
7SYI|1|2|A|1675
7SYI|1|2|U|1676
7SYI|1|2|U|1677
7SYI|1|2|A|1678
7SYI|1|2|A|1679
7SYI|1|2|G|1680

Current chains

Chain 2

18S rRNA

Nearby chains

Chain G

uS7

Chain R

uS9

Chain d

eS28