HL_5DH8_001

3D structure

PDB id

5DH8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Two divalent metal ions and conformational changes play roles in the hammerhead ribozyme cleavage reaction- G12A mutant in Zn2+

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

CUGAUG

Length

6 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

HL_5DH8_001 not in the Motif Atlas

Geometric match to HL_5DH6_001

Geometric discrepancy: 0.0667

The information below is about HL_5DH6_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

5DH8|1|A|C|16
5DH8|1|A|U|17
5DH8|1|A|G|18
5DH8|1|A|A|19
5DH8|1|A|U|20
5DH8|1|A|G|21

Current chains

Chain A

RNA (48-MER)

Nearby chains

Chain B

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