SMTL ID : 3ivk.2 (1 other biounit)

Crystal Structure of the Catalytic Core of an RNA Polymerase Ribozyme Complexed with an Antigen Binding Antibody Fragment

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-mer

Ligands

1 x CD: CADMIUM ION(Non-covalent)

CD.1: 2 residues within 4Å: Chain A: D.2 Chain B: D.63 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Metal complexes: A:D.2, A:D.2, B:D.63, B:D.63

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: A.33, S.51 Chain B: R.108 Ligand excluded by PLIP

16 x MG: MAGNESIUM ION(Non-functional Binders)

MG.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.5: 1 residues within 4Å: Chain C: G.79 No protein-ligand interaction detected (PLIP) MG.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.8: 3 residues within 4Å: Chain C: A.38, A.39, A.40 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Chain C: G.9 No protein-ligand interaction detected (PLIP) MG.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.11: 3 residues within 4Å: Chain C: A.78, G.79, U.113 No protein-ligand interaction detected (PLIP) MG.12: 3 residues within 4Å: Chain C: G.52, G.53, C.54 No protein-ligand interaction detected (PLIP) MG.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.14: 1 residues within 4Å: Chain C: G.84 No protein-ligand interaction detected (PLIP) MG.15: 1 residues within 4Å: Chain C: G.85 No protein-ligand interaction detected (PLIP) MG.16: 1 residues within 4Å: Chain C: G.48 No protein-ligand interaction detected (PLIP) MG.17: 2 residues within 4Å: Chain C: A.63, C.70 No protein-ligand interaction detected (PLIP) MG.18: 2 residues within 4Å: Chain C: G.81, G.82 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shechner, D.M. et al., Crystal structure of the catalytic core of an RNA-polymerase ribozyme. Science (2009)

Release Date

2010-03-02

Peptides

Fab light chain: A
Fab heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Fab light chain

Fab heavy chain

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