J3_7SYH_017

3D structure

PDB id

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

Description

Structure of the HCV IRES binding to the 40S ribosomal subunit, closed conformation. Structure 2(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.6 Å

Loop

Sequence

CUUAAUUU*GGGAAACCUCAC*GGCUG

Length

25 nucleotides

Bulged bases

7SYH|1|2|G|1256, 7SYH|1|2|A|1258

QA status

Unknown status

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_7SYH_017 not in the Motif Atlas

Homologous match to J3_8CRE_080

Geometric discrepancy: 0.2902

The information below is about J3_8CRE_080

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_88451.1

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

7SYH|1|2|C|1237
7SYH|1|2|U|1238
7SYH|1|2|U|1239
7SYH|1|2|A|1240
7SYH|1|2|A|1241
7SYH|1|2|U|1242
7SYH|1|2|U|1243
7SYH|1|2|U|1244
*
7SYH|1|2|G|1255
7SYH|1|2|G|1256
7SYH|1|2|G|1257
7SYH|1|2|A|1258
7SYH|1|2|A|1259
7SYH|1|2|A|1260
7SYH|1|2|C|1261
7SYH|1|2|C|1262
7SYH|1|2|U|1263
7SYH|1|2|C|1264
7SYH|1|2|A|1265
7SYH|1|2|C|1266
*
7SYH|1|2|G|1516
7SYH|1|2|G|1517
7SYH|1|2|C|1518
7SYH|1|2|U|1519
7SYH|1|2|G|1520

Current chains

Chain 2

18S rRNA

Nearby chains

Chain Q

uS19

Chain T

uS13

Chain V

uS10

Chain e

eS29