SMTL ID : 3b6p.1 (1 other biounit)

Structure of TREX1 in complex with a nucleotide and inhibitor ions (sodium and zinc)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.20, L.21, E.22, D.202 Ligands: NA.2, TMP.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.20, A:E.22, A:D.202 ZN.4: 7 residues within 4Å: Chain B: D.20, L.21, E.22, T.198, D.202 Ligands: NA.5, TMP.6 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.20, B:E.22, B:D.202

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 3 residues within 4Å: Chain A: D.20 Ligands: ZN.1, TMP.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.20 NA.5: 4 residues within 4Å: Chain B: D.20, H.126 Ligands: ZN.4, TMP.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.126

2 x TMP: THYMIDINE-5'-PHOSPHATE(Non-covalent)

TMP.3: 14 residues within 4Å: Chain A: D.20, L.21, E.22, A.23, G.25, L.26, A.83, I.86, T.87, Y.131, H.197, D.202 Ligands: ZN.1, NA.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.83, A:I.86 Hydrogen bonds: A:E.22, A:A.23 Water bridges: A:L.26 Salt bridges: A:H.197 TMP.6: 14 residues within 4Å: Chain B: D.20, L.21, E.22, A.23, G.25, L.26, A.83, I.86, T.87, Y.131, H.197, D.202 Ligands: ZN.4, NA.5 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.86 Hydrogen bonds: B:E.22, B:A.23 Salt bridges: B:H.197

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brucet, M. et al., Structural and biochemical studies of TREX1 inhibition by metals. Identification of a new active histidine conserved in DEDDh exonucleases. Protein Sci. (2008)

Release Date

2008-09-23

Peptides

Three prime repair exonuclease 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Three prime repair exonuclease 1

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