SMTL ID : 7mxw.1

Crystal structure of human exonuclease 1 Exo1 (WT) in complex with 5' flap DNA (uf1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.84 Å

Oligo State

monomer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 7 residues within 4Å: Chain A: E.150, D.152, D.171, D.173 Chain C: A.1 Ligands: MG.2, MG.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.152, A:D.171, A:D.173, H2O.1 MG.2: 6 residues within 4Å: Chain A: D.78, E.150, D.152, D.171 Chain C: A.1 Ligands: MG.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.152, H2O.1, H2O.1, H2O.1, H2O.2 MG.3: 6 residues within 4Å: Chain A: G.2, D.171, D.173, D.225 Chain C: A.1 Ligands: MG.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.173, A:D.225

2 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)

CA.4: 2 residues within 4Å: Chain A: C.80, I.325 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.80 CA.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shi, Y. et al., Structures of reaction intermediates reveal transient Mg2+-binding events that dynamically coordinate Human Exonuclease I activities. To Be Published

Release Date

2023-05-10

Peptides

Exonuclease 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
Z

Exonuclease 1

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