J4_7SYO_006

3D structure

PDB id

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

Description

Structure of the HCV IRES bound to the 40S ribosomal subunit, head open. Structure 9(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.6 Å

Loop

Sequence

CAUUAAAUC*GCC*GUGAC*GG

Length

19 nucleotides

Bulged bases

7SYO|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_7SYO_006 not in the Motif Atlas

Homologous match to J4_8CRE_021

Geometric discrepancy: 0.2011

The information below is about J4_8CRE_021

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_15241.1

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

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

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

eS4 (S4 X isoform)

Chain J

eS8

Chain M

uS17

Chain Y

uS12