J3_7SYJ_012

3D structure

PDB id

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

Description

Structure of the HCV IRES binding to the 40S ribosomal subunit, closed conformation. Structure 4(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.8 Å

Loop

Sequence

CACUG*CGUGAUGG*CGAG

Length

17 nucleotides

Bulged bases

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

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

J3_7SYJ_012 not in the Motif Atlas

Homologous match to J3_8C3A_044

Geometric discrepancy: 0.3127

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

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