SMTL ID : 6i5f.1

Crystal structure of DNA-free E.coli MutS P839E dimer mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

13 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: A.292, S.293, D.296, K.308 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.296, A:D.296, A:K.308, A:K.308 GOL.2: 4 residues within 4Å: Chain A: Q.325, Q.326, C.569, Y.639 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.325, A:Y.639 GOL.3: 3 residues within 4Å: Chain A: N.744, G.765, A.766 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.744, A:A.766 GOL.4: 4 residues within 4Å: Chain A: P.600, R.607, V.745, V.762 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.762 Water bridges: A:R.607 GOL.5: 4 residues within 4Å: Chain A: V.320, E.323, R.324, E.551 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.323, A:E.323, A:R.324 GOL.6: 4 residues within 4Å: Chain A: P.782, K.783, E.784 Chain B: H.682 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.783, A:E.784 GOL.7: 3 residues within 4Å: Chain A: N.468, Y.474, R.500 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.500, A:R.500 GOL.8: 4 residues within 4Å: Chain A: E.402, L.403, L.534, H.538 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.402, A:E.402, A:L.534 GOL.9: 3 residues within 4Å: Chain A: R.379, E.383, R.394 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.379, A:R.379, A:E.383, A:R.394, A:R.394 GOL.10: 2 residues within 4Å: Chain A: R.316, Y.687 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.316, A:R.316 GOL.17: 5 residues within 4Å: Chain B: V.320, E.323, R.324, E.551, L.555 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.324 Water bridges: B:P.389 GOL.18: 3 residues within 4Å: Chain B: A.388, Q.391, A.392 1 PLIP interactions: 1 interactions with chain B Water bridges: B:A.388 GOL.19: 4 residues within 4Å: Chain B: R.379, E.383, R.394, E.395 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.379, B:E.383, B:E.383, B:R.394, B:R.394

9 x SO4: SULFATE ION(Non-functional Binders)

SO4.11: 11 residues within 4Å: Chain A: G.614, P.615, N.616, H.728, F.730, K.769, S.770, Y.771, G.772 Chain B: T.699, S.700 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:T.699, B:S.700, B:S.700, A:G.614, A:N.616, A:Y.771, A:G.772 Salt bridges: A:H.728 SO4.12: 5 residues within 4Å: Chain A: R.154, R.156, M.306, R.309, W.310 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.156 Water bridges: A:W.310 Salt bridges: A:R.154, A:R.309 SO4.13: 3 residues within 4Å: Chain A: Y.446, R.449, R.453 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.505 Salt bridges: A:R.449, A:R.453 SO4.14: 3 residues within 4Å: Chain A: R.343, Q.344, G.346 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.343, A:G.346 SO4.15: 5 residues within 4Å: Chain A: R.579, I.580, T.581, L.601, N.602 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.601 Water bridges: A:R.579 Salt bridges: A:R.579 SO4.20: 5 residues within 4Å: Chain B: R.154, R.156, M.306, R.309, W.310 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:W.310 Salt bridges: B:R.154, B:R.156, B:R.309 SO4.21: 12 residues within 4Å: Chain A: T.699, S.700, D.703 Chain B: G.614, P.615, N.616, H.728, F.730, K.769, S.770, Y.771, G.772 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:N.616, B:N.616, B:Y.771, B:G.772, A:S.700, A:D.703 Salt bridges: B:H.728 SO4.22: 3 residues within 4Å: Chain B: R.154, R.156, T.259 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.154, B:R.156 SO4.23: 6 residues within 4Å: Chain B: R.579, I.580, T.581, P.600, L.601, N.602 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.581 Water bridges: B:T.581 Salt bridges: B:R.579

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

ADP.16: 15 residues within 4Å: Chain A: L.592, P.595, F.596, I.597, P.615, N.616, M.617, G.618, G.619, K.620, S.621, T.622, H.760 Chain B: R.667, S.668 17 PLIP interactions: 15 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:I.597, A:I.597, A:N.616, A:M.617, A:G.618, A:G.619, A:K.620, A:S.621, A:T.622, A:T.622, A:H.760, B:R.667, B:S.668 Salt bridges: A:K.620 pi-Stacking: A:F.596, A:H.760, A:H.760 ADP.24: 14 residues within 4Å: Chain B: V.588, L.592, F.596, I.597, N.599, P.615, N.616, M.617, G.618, G.619, K.620, S.621, T.622, H.760 16 PLIP interactions: 15 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:I.597, B:I.597, B:N.599, B:M.617, B:G.618, B:G.619, B:K.620, B:S.621, B:T.622, B:T.622, A:S.668 Water bridges: B:Y.623 Salt bridges: B:K.620 pi-Stacking: B:F.596, B:H.760, B:H.760

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bhairosing-Kok, D. et al., Sharp kinking of a coiled-coil in MutS allows DNA binding and release. Nucleic Acids Res. (2019)

Release Date

2019-08-14

Peptides

DNA mismatch repair protein MutS: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DNA mismatch repair protein MutS