J3_7SYO_008

3D structure

PDB id

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

Description

Structure of the HCV IRES bound to the 40S ribosomal subunit, head open. Structure 9(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.6 Å

Loop

Sequence

CGGAC*GGGUG*UUAGAUG

Length

17 nucleotides

Bulged bases

7SYO|1|2|G|1274, 7SYO|1|2|G|1507

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_7SYO_008 not in the Motif Atlas

Homologous match to J3_8C3A_041

Geometric discrepancy: 0.5746

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

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

Current chains

Chain 2

18S rRNA

Nearby chains

Chain L

eS10

Chain e

uS14

Chain g

eS31