J3_7SYK_008

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

CGGAC*GGGUG*UUAGAUG

Length

17 nucleotides

Bulged bases

7SYK|1|2|G|1507, 7SYK|1|2|U|1509

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_7SYK_008 not in the Motif Atlas

Homologous match to J3_8C3A_041

Geometric discrepancy: 0.5568

The information below is about J3_8C3A_041

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_23728.1

Basepair signature

cWW-tWH-F-F-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

2

Unit IDs

7SYK|1|2|C|1273
7SYK|1|2|G|1274
7SYK|1|2|G|1275
7SYK|1|2|A|1276
7SYK|1|2|C|1277
*
7SYK|1|2|G|1320
7SYK|1|2|G|1321
7SYK|1|2|G|1322
7SYK|1|2|U|1323
7SYK|1|2|G|1324
*
7SYK|1|2|U|1504
7SYK|1|2|U|1505
7SYK|1|2|A|1506
7SYK|1|2|G|1507
7SYK|1|2|A|1508
7SYK|1|2|U|1509
7SYK|1|2|G|1510

Current chains

Chain 2

18S rRNA

Nearby chains

Chain L

eS10

Chain e

eS29

Chain g

40S ribosomal protein S27a