J4_7SYK_001

3D structure

PDB id

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

Description

Structure of the HCV IRES binding to the 40S ribosomal subunit, closed conformation. Structure 5(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.2 Å

Loop

Sequence

CAUUAAAUC*GCC*GUGAC*GG

Length

19 nucleotides

Bulged bases

7SYK|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_7SYK_001 not in the Motif Atlas

Homologous match to J4_8C3A_021

Geometric discrepancy: 0.1631

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

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