HL_8YDC_002

3D structure

PDB id

8YDC (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of a hammerhead ribozyme with pseudoknot

Experimental method

X-RAY DIFFRACTION

Resolution

2.89 Å

Loop

Sequence

CUGAUG

Length

6 nucleotides

Bulged bases

None detected

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

HL_8YDC_002 not in the Motif Atlas

Geometric match to HL_2OEU_001

Geometric discrepancy: 0.1266

The information below is about HL_2OEU_001

Detailed Annotation

Mini UNCG

Broad Annotation

No text annotation

Motif group

HL_89199.3

Basepair signature

cWW-F-F-F

Number of instances in this motif group

5

Unit IDs

8YDC|1|A|C|29
8YDC|1|A|U|30
8YDC|1|A|G|31
8YDC|1|A|A|32
8YDC|1|A|U|33
8YDC|1|A|G|34

Current chains

Chain A

ribozyme strand

Nearby chains

Chain B

DNA/RNA (5'-R(*AP*CP*AP*UP*GP*UP*CP*U)-D(P*C)-R(P*UP*GP*GP*GP*A)-3')