SMTL ID : 8rau.1

The crystal structure of DNA-bound human MutSbeta (MSH2/MSH3) in the canonical mismatch bound conformation with ADP bound in MSH2 and MSH3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.33 Å

Oligo State

hetero-1-1-mer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 14 residues within 4Å: Chain A: I.648, A.649, F.650, I.651, P.670, N.671, M.672, G.673, G.674, K.675, S.676, T.677, Y.815 Ligands: MG.2 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:I.651, A:I.651, A:N.671, A:M.672, A:G.673, A:G.674, A:K.675, A:S.676, A:T.677, A:T.677 Water bridges: A:K.675, A:S.676, A:S.676, A:S.676, A:S.676, A:S.676, A:D.748, A:E.749 Salt bridges: A:K.675 pi-Stacking: A:F.650, A:Y.815, A:Y.815 ADP.8: 13 residues within 4Å: Chain B: Q.660, Y.661, V.662, P.681, N.682, M.683, G.684, G.685, K.686, S.687, S.688, Y.841 Ligands: MG.9 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:V.662, B:V.662, B:N.682, B:M.683, B:G.684, B:G.685, B:K.686, B:S.687, B:S.688, B:S.688, B:Y.841 Water bridges: B:N.664, B:S.687, B:S.687, B:S.687, B:S.687, B:S.687 Salt bridges: B:K.686 pi-Stacking: B:Y.661, B:Y.841, B:Y.841

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: S.676, E.749 Ligands: ADP.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.676, H2O.1, H2O.1, H2O.2, H2O.3 MG.9: 2 residues within 4Å: Chain B: S.687 Ligands: ADP.8 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:S.687, H2O.7, H2O.8, H2O.8, H2O.10

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

EDO.3: 2 residues within 4Å: Chain A: Y.656 Ligands: EDO.4 No protein-ligand interaction detected (PLIP) EDO.4: 3 residues within 4Å: Chain A: D.654, Y.656 Ligands: EDO.3 No protein-ligand interaction detected (PLIP) EDO.5: 1 residues within 4Å: Chain A: R.39 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.39 EDO.6: 4 residues within 4Å: Chain A: R.99, S.124, N.127, F.276 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.99, A:S.124, A:N.127 Water bridges: A:S.124 EDO.7: 3 residues within 4Å: Chain A: Y.121, Q.130, I.134 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.121 EDO.10: 2 residues within 4Å: Chain B: K.84, Y.86 No protein-ligand interaction detected (PLIP) EDO.11: 2 residues within 4Å: Chain B: W.906, T.907 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.906 EDO.12: 3 residues within 4Å: Chain B: W.346, D.349, H.350 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.349, B:Q.627 EDO.13: 3 residues within 4Å: Chain B: N.665, Y.812, I.843 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thomsen, M. et al., The crystal structure of DNA-bound human MutSbeta (MSH2/MSH3) in the canonical mismatch bound conformation with ADP bound in MSH2 and MSH3. To Be Published

Release Date

2025-06-11

Peptides

DNA mismatch repair protein Msh2: A
DNA mismatch repair protein Msh3: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DNA mismatch repair protein Msh2

DNA mismatch repair protein Msh3

Related Entries With Identical Sequence