SMTL ID : 2ioc.1

The crystal structure of TREX1 explains the 3' nucleotide specificity and reveals a polyproline II helix for protein partenring

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 6 residues within 4Å: Chain A: D.18, E.20, H.195, D.200 Ligands: MN.2, D5M.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.18, A:E.20, A:D.200, D5M.3 MN.2: 4 residues within 4Å: Chain A: D.18, D.130 Ligands: MN.1, D5M.3 6 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:D.18, H2O.3, H2O.3, H2O.5, H2O.5, D5M.3 MN.4: 5 residues within 4Å: Chain B: D.18, E.20, D.200 Ligands: MN.5, D5M.6 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.18, B:E.20, B:D.200 MN.5: 3 residues within 4Å: Chain B: D.18 Ligands: MN.4, D5M.6 5 PLIP interactions: 1 interactions with chain B, 1 Ligand-Ligand interactions, 3 Ligand-Water interactions Metal complexes: B:D.18, D5M.6, H2O.8, H2O.8, H2O.10

2 x D5M: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE(Non-covalent)

D5M.3: 16 residues within 4Å: Chain A: D.18, L.19, E.20, A.21, G.23, L.24, S.78, G.80, A.81, I.84, T.85, Y.129, H.195, D.200 Ligands: MN.1, MN.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.81 Hydrogen bonds: A:E.20, A:A.21 Water bridges: A:L.19, A:L.24, A:S.78 Salt bridges: A:H.195 D5M.6: 16 residues within 4Å: Chain B: D.18, L.19, E.20, A.21, G.23, L.24, S.78, G.80, A.81, I.84, T.85, Y.129, H.195, D.200 Ligands: MN.4, MN.5 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:A.81 Hydrogen bonds: B:E.20, B:A.21, B:S.78 Water bridges: B:L.19, B:H.195, B:H.195 Salt bridges: B:H.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

de Silva, U. et al., The Crystal Structure of TREX1 Explains the 3' Nucleotide Specificity and Reveals a Polyproline II Helix for Protein Partnering. J.Biol.Chem. (2007)

Release Date

2007-02-20

Peptides

Three prime repair exonuclease 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Three prime repair exonuclease 1

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