J5_7SYJ_003

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

GUCGCUC*GGG*UGCAUUU*AACCUCGGGCCG*CGACC

Length

34 nucleotides

Bulged bases

7SYJ|1|2|G|126, 7SYJ|1|2|C|127, 7SYJ|1|2|U|305, 7SYJ|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

7SYJ|1|2|G|123
7SYJ|1|2|U|124
7SYJ|1|2|C|125
7SYJ|1|2|G|126
7SYJ|1|2|C|127
7SYJ|1|2|U|128
7SYJ|1|2|C|129
*
7SYJ|1|2|G|183
7SYJ|1|2|G|184
7SYJ|1|2|G|185
*
7SYJ|1|2|U|214
7SYJ|1|2|G|215
7SYJ|1|2|C|216
7SYJ|1|2|A|217
7SYJ|1|2|U|218
7SYJ|1|2|U|219
7SYJ|1|2|U|220
*
7SYJ|1|2|A|301
7SYJ|1|2|A|302
7SYJ|1|2|C|303
7SYJ|1|2|C|304
7SYJ|1|2|U|305
7SYJ|1|2|C|306
7SYJ|1|2|G|307
7SYJ|1|2|G|308
7SYJ|1|2|G|309
7SYJ|1|2|C|310
7SYJ|1|2|C|311
7SYJ|1|2|G|312
*
7SYJ|1|2|C|337
7SYJ|1|2|G|338
7SYJ|1|2|A|339
7SYJ|1|2|C|340
7SYJ|1|2|C|341

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

40S ribosomal protein S4

Chain H

eS6

Chain J

eS8