J3_5A2Q_004

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

CCAG*CCAGUAA*UGAUUAAG

Length

19 nucleotides

Bulged bases

None detected

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_004 not in the Motif Atlas

Homologous match to J3_4V88_035

Geometric discrepancy: 0.1274

The information below is about J3_4V88_035

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.1

Basepair signature

cWW-tSH-tHW-cSH-cSS-tHH-cSS-tWW-F-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

5A2Q|1|2|C|1218
5A2Q|1|2|C|1219
5A2Q|1|2|A|1220
5A2Q|1|2|G|1221
*
5A2Q|1|2|C|1645
5A2Q|1|2|C|1646
5A2Q|1|2|A|1647
5A2Q|1|2|G|1648
5A2Q|1|2|U|1649
5A2Q|1|2|A|1650
5A2Q|1|2|A|1651
*
5A2Q|1|2|U|1673
5A2Q|1|2|G|1674
5A2Q|1|2|A|1675
5A2Q|1|2|U|1676
5A2Q|1|2|U|1677
5A2Q|1|2|A|1678
5A2Q|1|2|A|1679
5A2Q|1|2|G|1680

Current chains

Chain 2

18S RRNA

Nearby chains

Chain F

RIBOSOMAL PROTEIN US7

Chain Q

RIBOSOMAL PROTEIN US9

Chain c

RIBOSOMAL PROTEIN ES28