J3_5A2Q_006

3D structure

PDB id

5A2Q (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the HCV IRES bound to the human ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

CUUAAUUU*GGGAAACCUCAC*GGCUG

Length

25 nucleotides

Bulged bases

5A2Q|1|2|G|1256, 5A2Q|1|2|A|1258, 5A2Q|1|2|A|1260

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_5A2Q_006 not in the Motif Atlas

Homologous match to J3_8C3A_040

Geometric discrepancy: 0.1319

The information below is about J3_8C3A_040

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_83516.3

Basepair signature

cWW-F-F-F-tWW-F-tSH-tSS-cSS-F-F-F-F-F-cWW-cWW-F-F-F

Number of instances in this motif group

4

Unit IDs

5A2Q|1|2|C|1237
5A2Q|1|2|U|1238
5A2Q|1|2|U|1239
5A2Q|1|2|A|1240
5A2Q|1|2|A|1241
5A2Q|1|2|U|1242
5A2Q|1|2|U|1243
5A2Q|1|2|U|1244
*
5A2Q|1|2|G|1255
5A2Q|1|2|G|1256
5A2Q|1|2|G|1257
5A2Q|1|2|A|1258
5A2Q|1|2|A|1259
5A2Q|1|2|A|1260
5A2Q|1|2|C|1261
5A2Q|1|2|C|1262
5A2Q|1|2|U|1263
5A2Q|1|2|C|1264
5A2Q|1|2|A|1265
5A2Q|1|2|C|1266
*
5A2Q|1|2|G|1516
5A2Q|1|2|G|1517
5A2Q|1|2|C|1518
5A2Q|1|2|U|1519
5A2Q|1|2|G|1520

Current chains

Chain 2

18S RRNA

Nearby chains

Chain P

RIBOSOMAL PROTEIN US19

Chain S

RIBOSOMAL PROTEIN US13

Chain U

RIBOSOMAL PROTEIN US10

Chain d

RIBOSOMAL PROTEIN US14

Chain f

RIBOSOMAL PROTEIN ES31