IL_1P5P_006

3D structure

PDB id

1P5P (explore in PDB, NAKB, or RNA 3D Hub)

Description

Solution Structure of HCV IRES Domain II (minimized average structure)

Experimental method

SOLUTION NMR

Resolution

Loop

Sequence

CAGAAAG*UUAGUAUG

Length

15 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

IL_1P5P_006 not in the Motif Atlas

Geometric match to IL_4V9F_012

Geometric discrepancy: 0.2539

The information below is about IL_4V9F_012

Detailed Annotation

8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_59724.1

Basepair signature

cWW-L-R-L-R-cSH-tWH-tHS-R-L-cWW

Number of instances in this motif group

1

Unit IDs

1P5P|1|A|C|27
1P5P|1|A|A|28
1P5P|1|A|G|29
1P5P|1|A|A|30
1P5P|1|A|A|31
1P5P|1|A|A|32
1P5P|1|A|G|33
*
1P5P|1|A|U|49
1P5P|1|A|U|50
1P5P|1|A|A|51
1P5P|1|A|G|52
1P5P|1|A|U|53
1P5P|1|A|A|54
1P5P|1|A|U|55
1P5P|1|A|G|56

Current chains

Chain A

77-MER

Nearby chains