J4_7SYL_001

3D structure

PDB id

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

Description

Structure of the HCV IRES bound to the 40S ribosomal subunit, closed conformation. Structure 6(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.5 Å

Loop

Sequence

CAUUAAAUC*GCC*GUGAC*GG

Length

19 nucleotides

Bulged bases

7SYL|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_7SYL_001 not in the Motif Atlas

Homologous match to J4_8C3A_021

Geometric discrepancy: 0.1939

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

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