J5_7SYN_007

3D structure

PDB id

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

Description

Structure of the HCV IRES bound to the 40S ribosomal subunit, head opening. Structure 8(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4 Å

Loop

Sequence

GUCGCUC*GGG*UGCAUU*ACCUCGGGCCG*CGACC

Length

32 nucleotides

Bulged bases

7SYN|1|2|G|126, 7SYN|1|2|C|127, 7SYN|1|2|U|305, 7SYN|1|2|G|307

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

7SYN|1|2|G|123
7SYN|1|2|U|124
7SYN|1|2|C|125
7SYN|1|2|G|126
7SYN|1|2|C|127
7SYN|1|2|U|128
7SYN|1|2|C|129
*
7SYN|1|2|G|183
7SYN|1|2|G|184
7SYN|1|2|G|185
*
7SYN|1|2|U|214
7SYN|1|2|G|215
7SYN|1|2|C|216
7SYN|1|2|A|217
7SYN|1|2|U|218
7SYN|1|2|U|219
*
7SYN|1|2|A|302
7SYN|1|2|C|303
7SYN|1|2|C|304
7SYN|1|2|U|305
7SYN|1|2|C|306
7SYN|1|2|G|307
7SYN|1|2|G|308
7SYN|1|2|G|309
7SYN|1|2|C|310
7SYN|1|2|C|311
7SYN|1|2|G|312
*
7SYN|1|2|C|337
7SYN|1|2|G|338
7SYN|1|2|A|339
7SYN|1|2|C|340
7SYN|1|2|C|341

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

eS4 (S4 X isoform)

Chain H

eS6

Chain J

eS8