J5_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

GUCGCUC*GGG*UGCAUU*ACCUCGGGCCG*CGACC

Length

32 nucleotides

Bulged bases

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

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

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

40S ribosomal protein S4

Chain H

eS6

Chain J

eS8