SMTL ID : 6asc.1

Mre11 dimer in complex with Endonuclease inhibitor PFM04

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

MN.1: 3 residues within 4Å: Chain A: D.70, H.192, H.228 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.70, A:H.228 MN.2: 5 residues within 4Å: Chain A: D.26, H.28, D.70, H.228, H.230 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.26, A:H.28 MN.4: 3 residues within 4Å: Chain B: D.70, H.192, H.228 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.70, B:D.70, B:H.228 MN.5: 5 residues within 4Å: Chain B: D.26, H.28, D.70, H.228, H.230 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.26, B:H.28, B:D.70

2 x BU7: (5E)-3-butyl-5-[(4-hydroxyphenyl)methylidene]-2-sulfanylidene-1,3-thiazolidin-4-one(Non-covalent)

BU7.3: 10 residues within 4Å: Chain A: L.71, L.72, N.76, P.78, L.83, L.86, P.103, W.108, L.111, F.127 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.71, A:P.78, A:L.83, A:L.86, A:P.103, A:W.108, A:L.111 BU7.6: 13 residues within 4Å: Chain A: F.114 Chain B: N.76, P.78, L.83, L.86, L.90, P.103, H.106, W.108, L.111, F.114, V.118, F.127 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.83, B:W.108, B:F.114, B:V.118, B:F.127, B:F.127, A:F.114

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.7: 6 residues within 4Å: Chain B: T.119, S.120, S.122, S.123, I.125, T.126 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.126 Water bridges: B:T.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Moiani, D. et al., Targeting Allostery with Avatars to Design Inhibitors Assessed by Cell Activity: Dissecting MRE11 Endo- and Exonuclease Activities. Meth. Enzymol. (2018)

Release Date

2018-03-07

Peptides

Nuclease SbcCD subunit D: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nuclease SbcCD subunit D

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