J4_7SYI_001

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

CAUUAAAUC*GCC*GUGAC*GG

Length

19 nucleotides

Bulged bases

7SYI|1|2|G|407

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

J4_7SYI_001 not in the Motif Atlas

Homologous match to J4_8C3A_021

Geometric discrepancy: 0.2065

The information below is about J4_8C3A_021

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_78231.1

Basepair signature

cWW-cSH-tHS-cWW-F-F-tHW-F-cWW-F-F-F-cWW

Number of instances in this motif group

2

Unit IDs

7SYI|1|2|C|98
7SYI|1|2|A|99
7SYI|1|2|U|100
7SYI|1|2|U|101
7SYI|1|2|A|102
7SYI|1|2|A|103
7SYI|1|2|A|104
7SYI|1|2|U|105
7SYI|1|2|C|106
*
7SYI|1|2|G|355
7SYI|1|2|C|356
7SYI|1|2|C|357
*
7SYI|1|2|G|405
7SYI|1|2|U|406
7SYI|1|2|G|407
7SYI|1|2|A|408
7SYI|1|2|C|409
*
7SYI|1|2|G|431
7SYI|1|2|G|432

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

40S ribosomal protein S4

Chain J

eS8

Chain M

uS17

Chain Y

uS12