J3_7SYK_012

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

CACUG*CGUGAUGG*CGAG

Length

17 nucleotides

Bulged bases

7SYK|1|2|U|1535, 7SYK|1|2|G|1603

QA status

Unknown status

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_7SYK_012 not in the Motif Atlas

Homologous match to J3_8C3A_044

Geometric discrepancy: 0.2931

The information below is about J3_8C3A_044

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_37047.4

Basepair signature

cWW-cSS-cSH-F-tWH-F-cWW-cSH-F-cWW-F

Number of instances in this motif group

5

Unit IDs

7SYK|1|2|C|1532
7SYK|1|2|A|1533
7SYK|1|2|C|1534
7SYK|1|2|U|1535
7SYK|1|2|G|1536
*
7SYK|1|2|C|1597
7SYK|1|2|G|1598
7SYK|1|2|U|1599
7SYK|1|2|G|1600
7SYK|1|2|A|1601
7SYK|1|2|U|1602
7SYK|1|2|G|1603
7SYK|1|2|G|1604
*
7SYK|1|2|C|1635
7SYK|1|2|G|1636
7SYK|1|2|A|1637
7SYK|1|2|G|1638

Current chains

Chain 2

18S rRNA

Nearby chains

Chain G

uS7

Chain T

uS13

Chain U

eS19

Chain a

eS25 (S25)