SMTL ID : 5vyj.1

Crystal structure of the photosynthetic phosphoenolpyruvate carboxylase isoenzyme from maize in complex with Gly

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.30 Å

Oligo State

homo-tetramer

Ligands

5 x GLY: GLYCINE(Non-covalent)

GLY.1: 8 residues within 4Å: Chain A: W.333, R.334 Chain B: S.100, F.225, R.226, T.227, E.229, L.938 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:W.333, B:S.100, B:E.229 Salt bridges: A:R.334 GLY.5: 9 residues within 4Å: Chain B: H.177, R.456, E.566, S.602, D.603, R.759, R.773, A.774, I.775 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:R.456, B:R.456, B:E.566, B:E.566, B:S.602, B:S.602, B:R.647, B:R.773 Salt bridges: B:H.177, B:R.759, B:R.773 GLY.6: 5 residues within 4Å: Chain A: F.225, T.227, E.229 Chain B: W.333, R.334 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.100, A:E.229, B:W.333 Salt bridges: B:R.334 GLY.10: 8 residues within 4Å: Chain C: W.333, R.334 Chain D: F.225, R.226, T.227, D.228, E.229, L.938 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:S.100, D:S.100, D:D.228 Salt bridges: C:R.334 GLY.15: 8 residues within 4Å: Chain C: S.100, F.225, R.226, T.227, E.229, L.938 Chain D: W.333, R.334 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:E.229 Salt bridges: C:R.226, D:R.334

13 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 7 residues within 4Å: Chain A: G.600, Y.601, S.602, D.603, G.640, Q.673 Ligands: ACT.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.601, A:S.602, A:S.602, A:Q.673 ACT.3: 7 residues within 4Å: Chain A: H.177, E.566, D.603, R.759, R.773, A.774 Ligands: ACT.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.456, A:A.774 Salt bridges: A:H.177, A:R.759, A:R.773 ACT.4: 6 residues within 4Å: Chain A: Y.601, A.614, Q.621, R.641, S.658, Q.659 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.601 Hydrogen bonds: A:Y.601, A:Q.621 Salt bridges: A:R.641 ACT.7: 3 residues within 4Å: Chain B: R.183, R.184, S.185 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:R.183 Hydrogen bonds: B:R.184, B:S.185 Salt bridges: B:R.183, A:R.372 ACT.8: 7 residues within 4Å: Chain B: H.177, E.566, G.600, Y.601, S.602, G.640, Q.673 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.601, B:S.602, B:Q.673 Salt bridges: B:H.177 ACT.9: 8 residues within 4Å: Chain B: Y.601, A.614, L.617, Q.621, R.641, S.658, Q.659, F.821 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.601, B:L.617 Hydrogen bonds: B:Y.601, B:Q.621 Salt bridges: B:R.641 ACT.11: 8 residues within 4Å: Chain C: Y.601, A.614, L.617, Q.621, R.641, S.658, Q.659, F.821 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:Y.601, C:L.617 Hydrogen bonds: C:Y.601, C:Q.621 Salt bridges: C:R.641 ACT.12: 4 residues within 4Å: Chain C: R.183, R.184, S.185 Chain D: R.372 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain C Salt bridges: D:R.372, C:R.183 Hydrogen bonds: C:R.184 ACT.13: 8 residues within 4Å: Chain C: R.456, E.566, G.600, Y.601, S.602, G.640, Q.673 Ligands: ACT.14 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Y.601, C:S.602, C:Q.673 ACT.14: 8 residues within 4Å: Chain C: H.177, E.566, D.603, R.759, R.773, A.774, I.775 Ligands: ACT.13 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:I.775 Salt bridges: C:H.177, C:R.759, C:R.773 ACT.16: 4 residues within 4Å: Chain C: E.369, R.372 Chain D: R.183, S.185 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Salt bridges: D:R.183, C:R.372 ACT.17: 7 residues within 4Å: Chain D: E.566, M.598, G.600, Y.601, S.602, G.640, Q.673 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:E.566 Hydrogen bonds: D:Y.601, D:S.602, D:Q.673 ACT.18: 9 residues within 4Å: Chain D: Y.601, A.614, Y.618, Q.621, R.641, S.658, Q.659, P.660, F.821 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:Y.618, D:F.821 Hydrogen bonds: D:Y.601, D:Q.621 Salt bridges: D:R.641

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gonzalez-Segura, L. et al., Identification of the allosteric site for neutral amino acids in the maize C4isozyme of phosphoenolpyruvate carboxylase: The critical role of Ser-100. J. Biol. Chem. (2018)

Release Date

2017-06-28

Peptides

Phosphoenolpyruvate carboxylase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Phosphoenolpyruvate carboxylase

Related Entries With Identical Sequence