SMTL ID : 8qx1.2 (1 other biounit)

Arabidopsis thaliana Phosphoenolpyruvate carboxylase PPC1 R886G mutant with bound malate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.94 Å

Oligo State

homo-tetramer

Ligands

4 x LMR: (2S)-2-hydroxybutanedioic acid(Non-covalent)

LMR.1: 11 residues within 4Å: Chain A: R.650, G.651, P.654, Q.682, M.834, K.838, L.890, R.897, L.970, Q.971, N.972 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.651, A:G.651, A:Q.682, A:L.970, A:N.972 Salt bridges: A:R.650, A:K.838, A:R.897 LMR.12: 11 residues within 4Å: Chain B: R.650, G.651, P.654, Q.682, M.834, K.838, L.890, R.897, L.970, Q.971, N.972 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:G.651, B:G.651, B:Q.682, B:L.970, B:N.972 Salt bridges: B:R.650, B:K.838, B:R.897 LMR.23: 11 residues within 4Å: Chain C: R.650, G.651, P.654, Q.682, M.834, K.838, L.890, R.897, L.970, Q.971, N.972 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:G.651, C:G.651, C:Q.682, C:L.970, C:N.972 Salt bridges: C:R.650, C:K.838, C:R.897 LMR.34: 11 residues within 4Å: Chain D: R.650, G.651, P.654, Q.682, M.834, K.838, L.890, R.897, L.970, Q.971, N.972 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:G.651, D:G.651, D:Q.682, D:L.970, D:N.972 Salt bridges: D:R.650, D:K.838, D:R.897

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

CL.2: 4 residues within 4Å: Chain A: R.264, R.278 Chain D: E.218, R.222 Ligand excluded by PLIP CL.13: 4 residues within 4Å: Chain B: R.264, R.278 Chain C: E.218, R.222 Ligand excluded by PLIP CL.24: 4 residues within 4Å: Chain B: E.218, R.222 Chain C: R.264, R.278 Ligand excluded by PLIP CL.35: 4 residues within 4Å: Chain A: E.218, R.222 Chain D: R.264, R.278 Ligand excluded by PLIP

36 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 3 residues within 4Å: Chain D: N.324, Q.325 Ligands: PEG.4 Ligand excluded by PLIP PEG.4: 4 residues within 4Å: Chain D: N.324, E.327 Ligands: PEG.3, PEG.37 Ligand excluded by PLIP PEG.5: 5 residues within 4Å: Chain A: Q.241, R.245, D.309 Chain D: K.366 Ligands: PEG.6 Ligand excluded by PLIP PEG.6: 3 residues within 4Å: Chain A: E.305, D.309 Ligands: PEG.5 Ligand excluded by PLIP PEG.7: 5 residues within 4Å: Chain A: R.47, L.203, Y.204, K.213 Ligands: PEG.8 Ligand excluded by PLIP PEG.8: 2 residues within 4Å: Chain A: K.213 Ligands: PEG.7 Ligand excluded by PLIP PEG.9: 3 residues within 4Å: Chain A: E.487, Q.490, R.583 Ligand excluded by PLIP PEG.10: 7 residues within 4Å: Chain A: E.332, M.333, I.434, G.437, S.438 Chain D: E.223 Ligands: PEG.11 Ligand excluded by PLIP PEG.11: 2 residues within 4Å: Chain A: R.264 Ligands: PEG.10 Ligand excluded by PLIP PEG.14: 3 residues within 4Å: Chain C: N.324, Q.325 Ligands: PEG.15 Ligand excluded by PLIP PEG.15: 4 residues within 4Å: Chain C: N.324, E.327 Ligands: PEG.14, PEG.26 Ligand excluded by PLIP PEG.16: 5 residues within 4Å: Chain B: Q.241, R.245, D.309 Chain C: K.366 Ligands: PEG.17 Ligand excluded by PLIP PEG.17: 3 residues within 4Å: Chain B: E.305, D.309 Ligands: PEG.16 Ligand excluded by PLIP PEG.18: 5 residues within 4Å: Chain B: R.47, L.203, Y.204, K.213 Ligands: PEG.19 Ligand excluded by PLIP PEG.19: 2 residues within 4Å: Chain B: K.213 Ligands: PEG.18 Ligand excluded by PLIP PEG.20: 3 residues within 4Å: Chain B: E.487, Q.490, R.583 Ligand excluded by PLIP PEG.21: 7 residues within 4Å: Chain B: E.332, M.333, I.434, G.437, S.438 Chain C: E.223 Ligands: PEG.22 Ligand excluded by PLIP PEG.22: 2 residues within 4Å: Chain B: R.264 Ligands: PEG.21 Ligand excluded by PLIP PEG.25: 3 residues within 4Å: Chain B: N.324, Q.325 Ligands: PEG.26 Ligand excluded by PLIP PEG.26: 4 residues within 4Å: Chain B: N.324, E.327 Ligands: PEG.15, PEG.25 Ligand excluded by PLIP PEG.27: 5 residues within 4Å: Chain B: K.366 Chain C: Q.241, R.245, D.309 Ligands: PEG.28 Ligand excluded by PLIP PEG.28: 3 residues within 4Å: Chain C: E.305, D.309 Ligands: PEG.27 Ligand excluded by PLIP PEG.29: 5 residues within 4Å: Chain C: R.47, L.203, Y.204, K.213 Ligands: PEG.30 Ligand excluded by PLIP PEG.30: 2 residues within 4Å: Chain C: K.213 Ligands: PEG.29 Ligand excluded by PLIP PEG.31: 3 residues within 4Å: Chain C: E.487, Q.490, R.583 Ligand excluded by PLIP PEG.32: 7 residues within 4Å: Chain B: E.223 Chain C: E.332, M.333, I.434, G.437, S.438 Ligands: PEG.33 Ligand excluded by PLIP PEG.33: 2 residues within 4Å: Chain C: R.264 Ligands: PEG.32 Ligand excluded by PLIP PEG.36: 3 residues within 4Å: Chain A: N.324, Q.325 Ligands: PEG.37 Ligand excluded by PLIP PEG.37: 4 residues within 4Å: Chain A: N.324, E.327 Ligands: PEG.4, PEG.36 Ligand excluded by PLIP PEG.38: 5 residues within 4Å: Chain A: K.366 Chain D: Q.241, R.245, D.309 Ligands: PEG.39 Ligand excluded by PLIP PEG.39: 3 residues within 4Å: Chain D: E.305, D.309 Ligands: PEG.38 Ligand excluded by PLIP PEG.40: 5 residues within 4Å: Chain D: R.47, L.203, Y.204, K.213 Ligands: PEG.41 Ligand excluded by PLIP PEG.41: 2 residues within 4Å: Chain D: K.213 Ligands: PEG.40 Ligand excluded by PLIP PEG.42: 3 residues within 4Å: Chain D: E.487, Q.490, R.583 Ligand excluded by PLIP PEG.43: 7 residues within 4Å: Chain A: E.223 Chain D: E.332, M.333, I.434, G.437, S.438 Ligands: PEG.44 Ligand excluded by PLIP PEG.44: 2 residues within 4Å: Chain D: R.264 Ligands: PEG.43 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Meyer, T.J. et al., Amino acid changes that deregulate PHOSPHOENOLPYRUVATE CARBOXYLASE in plants. To Be Published

Release Date

2024-10-30

Peptides

Phosphoenolpyruvate carboxylase 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
C

C
C

D
C

Phosphoenolpyruvate carboxylase 1

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