SMTL ID : 7tvf.1 (1 other biounit)

Crystal structure of the SHOC2-MRAS-PP1CA (SMP) complex to a resolution of 2.17 Angstrom

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

hetero-1-1-1-mer

Ligands

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: Q.48, P.49, L.52, E.53, E.115 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.53, A:E.53 Water bridges: A:Q.48, A:E.115, A:E.115 GOL.2: 7 residues within 4Å: Chain A: L.54, E.55, P.57, L.58, N.85, E.115, F.118 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.55, A:P.57, A:N.85 GOL.11: 3 residues within 4Å: Chain B: P.13, T.14, Y.15 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.14, B:Y.15 GOL.12: 8 residues within 4Å: Chain A: Q.180, S.181, Q.184 Chain B: S.50, Y.51, L.52, D.65 Chain C: K.109 4 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 2 interactions with chain B Water bridges: A:S.181 Hydrogen bonds: C:K.109, B:S.50, B:Y.51 GOL.16: 7 residues within 4Å: Chain A: M.182, E.183, R.186 Chain C: N.156, H.178, N.179, K.180 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:E.183, A:R.186, A:R.186, C:N.179 Water bridges: C:K.180, C:K.180 GOL.17: 5 residues within 4Å: Chain A: S.47 Chain C: N.271, Y.293, N.294, N.316 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:N.316, A:S.47, A:S.47 GOL.18: 3 residues within 4Å: Chain C: H.364, K.387, T.411 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.387, C:K.387

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

SO4.3: 2 residues within 4Å: Chain A: R.260 Chain C: K.73 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Salt bridges: C:K.73, A:R.260 SO4.4: 7 residues within 4Å: Chain A: C.126, S.128, V.194, P.195, D.196, W.205, V.222 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.128, A:V.194 SO4.13: 4 residues within 4Å: Chain B: D.166, K.167, H.170, R.174 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.170, B:R.174 SO4.19: 3 residues within 4Å: Chain C: K.416, P.418, E.419 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.419 Salt bridges: C:K.416 SO4.20: 7 residues within 4Å: Chain C: F.375, S.376, A.378, K.379, T.400, T.402, S.403 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:S.376, C:A.378, C:T.402, C:T.402, C:S.403 Salt bridges: C:K.379

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

MN.5: 6 residues within 4Å: Chain A: D.63, D.91, N.123, H.172, H.247 Ligands: MN.6 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.91, A:H.172, A:H.247, H2O.2 MN.6: 6 residues within 4Å: Chain A: D.63, H.65, D.91, H.247 Ligands: MN.5, PO4.8 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.63, A:H.65, A:D.91, H2O.2

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

NA.7: 2 residues within 4Å: Chain A: K.40, E.43 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.43 NA.15: 1 residues within 4Å: Chain B: F.35 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Water bridges: A:L.199, A:L.199, B:F.35, B:L.52

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.8: 6 residues within 4Å: Chain A: H.65, R.95, H.124, R.220, Y.271 Ligands: MN.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.220, A:Y.271 Water bridges: A:N.123, A:H.124 Salt bridges: A:R.95, A:H.124

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

CL.9: 2 residues within 4Å: Chain A: H.236, K.237 Ligand excluded by PLIP CL.21: 2 residues within 4Å: Chain A: E.53 Chain C: R.182 Ligand excluded by PLIP

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.10: 27 residues within 4Å: Chain B: D.22, G.23, G.24, V.25, G.26, K.27, S.28, A.29, F.39, V.40, P.41, D.42, Y.43, P.45, T.46, T.69, A.70, G.71, L.72, N.127, K.128, D.130, L.131, S.157, A.158, K.159 Ligands: MG.14 25 PLIP interactions: 25 interactions with chain B Hydrogen bonds: B:G.24, B:V.25, B:G.26, B:K.27, B:K.27, B:K.27, B:S.28, B:S.28, B:A.29, B:V.40, B:T.46, B:T.69, B:G.71, B:L.72, B:N.127, B:K.128, B:K.128, B:A.158, B:K.159 Water bridges: B:S.28, B:D.44 Salt bridges: B:D.130 pi-Stacking: B:F.39, B:F.39 pi-Cation interactions: B:K.128

1 x MG: MAGNESIUM ION(Non-covalent)

MG.14: 4 residues within 4Å: Chain B: S.28, T.46, D.68 Ligands: GNP.10 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.28, B:T.46, H2O.7, H2O.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bonsor, D.A. et al., Structure of the SHOC2-MRAS-PP1C complex provides insights into RAF activation and Noonan syndrome. Nat.Struct.Mol.Biol. (2022)

Release Date

2022-05-04

Peptides

Serine/threonine-protein phosphatase PP1-alpha catalytic subunit: A
Ras-related protein M-Ras: B
Leucine-rich repeat protein SHOC-2: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
E

C
D

Serine/threonine-protein phosphatase PP1-alpha catalytic subunit

Ras-related protein M-Ras

Leucine-rich repeat protein SHOC-2

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