SMTL ID : 2oj3.1

Hepatitis Delta Virus ribozyme precursor structure, with C75U mutation, bound to Tl+ and cobalt hexammine (Co(NH3)63+)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

2 x NCO: COBALT HEXAMMINE(III)(Non-functional Binders)(Non-covalent)

NCO.1: 8 residues within 4Å: Chain A: G.4, U.23, C.25, U.26, C.27, G.28, G.31, U.66 No protein-ligand interaction detected (PLIP) NCO.2: 6 residues within 4Å: Chain A: C.44, A.45, G.61, G.62 Chain B: R.47, R.52 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.47 Water bridges: B:K.20, B:R.47

9 x TL: THALLIUM (I) ION(Non-functional Binders)

TL.3: 1 residues within 4Å: Chain A: C.60 No protein-ligand interaction detected (PLIP) TL.4: 2 residues within 4Å: Chain A: G.71, G.72 No protein-ligand interaction detected (PLIP) TL.5: 4 residues within 4Å: Chain A: U.3, G.4, G.5, U.66 No protein-ligand interaction detected (PLIP) TL.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) TL.7: 2 residues within 4Å: Chain A: G.37, G.38 No protein-ligand interaction detected (PLIP) TL.8: 3 residues within 4Å: Chain A: G.13, G.14 Ligands: TL.10 No protein-ligand interaction detected (PLIP) TL.9: 2 residues within 4Å: Chain A: G.28, G.31 No protein-ligand interaction detected (PLIP) TL.10: 3 residues within 4Å: Chain A: G.14, U.15 Ligands: TL.8 No protein-ligand interaction detected (PLIP) TL.11: 2 residues within 4Å: Chain A: G.8, G.9 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ke, A. et al., Structural roles of monovalent cations in the HDV ribozyme. Structure (2007)

Release Date

2007-03-27

Peptides

U1 small nuclear ribonucleoprotein A: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
A

U1 small nuclear ribonucleoprotein A

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