J3_7SYJ_011

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

UG*UGUC*GAUAA

Length

11 nucleotides

Bulged bases

7SYJ|1|2|A|1378

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_011 not in the Motif Atlas

Homologous match to J3_8C3A_085

Geometric discrepancy: 0.1782

The information below is about J3_8C3A_085

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_76043.2

Basepair signature

cWW-F-F-F-F-tSS-cWW-cWW

Number of instances in this motif group

3

Unit IDs

7SYJ|1|2|U|1350
7SYJ|1|2|G|1351
*
7SYJ|1|2|U|1360
7SYJ|1|2|G|1361
7SYJ|1|2|U|1362
7SYJ|1|2|C|1363
*
7SYJ|1|2|G|1375
7SYJ|1|2|A|1376
7SYJ|1|2|U|1377
7SYJ|1|2|A|1378
7SYJ|1|2|A|1379

Current chains

Chain 2

18S rRNA

Nearby chains

Chain B

40S ribosomal protein SA

Chain D

uS5 (S2)

Chain S

eS17