SMTL ID : 8rb2.2 (1 other biounit)

The crystal structure of DNA-bound human MutSbeta (MSH2_E749A/MSH3_E976A) in the canonical mismatch bound conformation with ADP bound in MSH2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.53 Å

Oligo State

hetero-1-1-mer

Ligands

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

ADP.1: 14 residues within 4Å: Chain A: I.648, A.649, F.650, I.651, N.653, P.670, N.671, M.672, G.673, G.674, K.675, S.676, T.677, Y.815 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:I.651, A:I.651, A:N.653, A:N.671, A:M.672, A:G.673, A:G.674, A:K.675, A:S.676, A:T.677, A:T.677, A:R.680 Water bridges: A:S.676, A:S.676 Salt bridges: A:K.675 pi-Stacking: A:F.650, A:Y.815, A:Y.815

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

EDO.2: 3 residues within 4Å: Chain A: N.181, R.737, S.738 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.181 EDO.3: 5 residues within 4Å: Chain A: L.191, G.195, P.196, G.220, I.222 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.191 EDO.7: 2 residues within 4Å: Chain A: Y.656 Ligands: EDO.8 No protein-ligand interaction detected (PLIP) EDO.8: 1 residues within 4Å: Ligands: EDO.7 No protein-ligand interaction detected (PLIP) EDO.9: 4 residues within 4Å: Chain A: K.248, E.251, M.253, N.254 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.254, A:N.254 EDO.10: 5 residues within 4Å: Chain A: E.56, V.57, S.87, F.88, D.91 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.87, A:D.91, A:D.91 EDO.11: 1 residues within 4Å: Chain A: Q.339 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.339 EDO.13: 4 residues within 4Å: Chain A: D.446, G.587, Y.588, P.591 No protein-ligand interaction detected (PLIP) EDO.15: 4 residues within 4Å: Chain B: Y.877, S.904, Y.1057 Ligands: EDO.17 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.904 EDO.16: 3 residues within 4Å: Chain B: K.300, G.301, Y.302 No protein-ligand interaction detected (PLIP) EDO.17: 7 residues within 4Å: Chain B: N.898, M.899, G.901, K.902, S.903, S.904 Ligands: EDO.15 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.898, B:K.902, B:S.903, B:S.904, B:S.904 EDO.19: 5 residues within 4Å: Chain C: T.7, C.8 Chain D: A.20, T.21, A.22 No protein-ligand interaction detected (PLIP) EDO.20: 4 residues within 4Å: Chain C: C.4, T.5 Chain D: G.23, G.24 No protein-ligand interaction detected (PLIP)

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: R.355, R.359 Ligand excluded by PLIP CL.6: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.14: 1 residues within 4Å: Chain B: Y.465 Ligand excluded by PLIP

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

NA.12: 4 residues within 4Å: Chain A: A.791, I.794, P.795, V.797 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.791 NA.18: 1 residues within 4Å: Chain B: W.562 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.562

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
E

B
F

DNA mismatch repair protein Msh2

DNA mismatch repair protein Msh3

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