J4_8YDC_001

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

AC*GAG*CGAAA*UCU

Length

13 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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_97085.4

Basepair signature

cWW-cWW-F-cWW-tHS-cWW-F-F

Number of instances in this motif group

3

Unit IDs

8YDC|1|A|A|28
8YDC|1|A|C|29
*
8YDC|1|A|G|34
8YDC|1|A|A|35
8YDC|1|A|G|36
*
8YDC|1|A|C|43
8YDC|1|A|G|44
8YDC|1|A|A|45
8YDC|1|A|A|46
8YDC|1|A|A|47
*
8YDC|1|B|U|8
8YDC|1|B|DC|9
8YDC|1|B|U|10

Current chains

Chain A

ribozyme strand

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')

Nearby chains