SMTL ID : 3pug.1 (1 other biounit)

Haloferax volcanii Malate Synthase Native at 3mM Glyoxylate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-trimer

Ligands

3 x GLV: GLYOXYLIC ACID(Non-covalent)

GLV.1: 9 residues within 4Å: Chain A: R.84, E.158, G.189, E.190, V.191, D.192, P.231, W.257 Ligands: MG.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.84, A:R.84, A:V.191, A:D.192, A:D.192 GLV.11: 9 residues within 4Å: Chain B: R.84, E.158, G.189, E.190, V.191, D.192, P.231, W.257 Ligands: MG.12 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.84, B:R.84, B:V.191, B:D.192, B:D.192 GLV.21: 9 residues within 4Å: Chain C: R.84, E.158, G.189, E.190, V.191, D.192, P.231, W.257 Ligands: MG.22 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.84, C:R.84, C:V.191, C:D.192, C:D.192

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.52, E.158, D.192 Ligands: GLV.1, K.9 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.52, A:E.158, A:D.192, H2O.2 MG.12: 5 residues within 4Å: Chain B: D.52, E.158, D.192 Ligands: GLV.11, K.19 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.52, B:E.158, B:D.192, H2O.5 MG.22: 5 residues within 4Å: Chain C: D.52, E.158, D.192 Ligands: GLV.21, K.29 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.52, C:E.158, C:D.192, H2O.8

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

CL.3: 6 residues within 4Å: Chain A: R.4, V.226, A.227, G.252 Chain B: R.198 Ligands: K.8 Ligand excluded by PLIP CL.4: 5 residues within 4Å: Chain A: R.89, D.90, S.91, P.92, R.95 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: P.207, A.208 Ligand excluded by PLIP CL.6: 5 residues within 4Å: Chain A: R.218 Chain B: R.218 Chain C: R.218 Ligands: CL.16, CL.26 Ligand excluded by PLIP CL.13: 6 residues within 4Å: Chain B: R.4, V.226, A.227, G.252 Chain C: R.198 Ligands: K.18 Ligand excluded by PLIP CL.14: 5 residues within 4Å: Chain B: R.89, D.90, S.91, P.92, R.95 Ligand excluded by PLIP CL.15: 2 residues within 4Å: Chain B: P.207, A.208 Ligand excluded by PLIP CL.16: 5 residues within 4Å: Chain A: R.218 Chain B: R.218 Chain C: R.218 Ligands: CL.6, CL.26 Ligand excluded by PLIP CL.23: 6 residues within 4Å: Chain A: R.198 Chain C: R.4, V.226, A.227, G.252 Ligands: K.28 Ligand excluded by PLIP CL.24: 5 residues within 4Å: Chain C: R.89, D.90, S.91, P.92, R.95 Ligand excluded by PLIP CL.25: 2 residues within 4Å: Chain C: P.207, A.208 Ligand excluded by PLIP CL.26: 5 residues within 4Å: Chain A: R.218 Chain B: R.218 Chain C: R.218 Ligands: CL.6, CL.16 Ligand excluded by PLIP

12 x K: POTASSIUM ION(Non-covalent)

K.7: 5 residues within 4Å: Chain A: M.173, G.174, K.175, N.178, E.181 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:M.173, A:K.175, A:N.178, A:E.181, H2O.1 K.8: 5 residues within 4Å: Chain A: S.217, S.221, G.252 Chain B: M.197 Ligands: CL.3 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Metal complexes: B:M.197, A:S.217, A:S.221 K.9: 5 residues within 4Å: Chain A: E.51, D.52, E.123, D.192 Ligands: MG.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.51, A:D.52, A:D.192, H2O.2 K.10: 3 residues within 4Å: Chain A: P.176, N.178, N.179 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:P.176, A:N.178 K.17: 5 residues within 4Å: Chain B: M.173, G.174, K.175, N.178, E.181 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:M.173, B:K.175, B:N.178, B:E.181, H2O.3 K.18: 5 residues within 4Å: Chain B: S.217, S.221, G.252 Chain C: M.197 Ligands: CL.13 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C Metal complexes: B:S.217, B:S.221, C:M.197 K.19: 5 residues within 4Å: Chain B: E.51, D.52, E.123, D.192 Ligands: MG.12 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.51, B:D.52, B:D.192, H2O.5 K.20: 3 residues within 4Å: Chain B: P.176, N.178, N.179 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:P.176, B:N.178 K.27: 5 residues within 4Å: Chain C: M.173, G.174, K.175, N.178, E.181 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:M.173, C:K.175, C:N.178, C:E.181, H2O.6 K.28: 5 residues within 4Å: Chain A: M.197 Chain C: S.217, S.221, G.252 Ligands: CL.23 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Metal complexes: A:M.197, C:S.217, C:S.221 K.29: 5 residues within 4Å: Chain C: E.51, D.52, E.123, D.192 Ligands: MG.22 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.51, C:D.52, C:D.192, H2O.8 K.30: 3 residues within 4Å: Chain C: P.176, N.178, N.179 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:P.176, C:N.178

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bracken, C.D. et al., Crystal structures of a halophilic archaeal malate synthase from Haloferax volcanii and comparisons with isoforms A and G. Bmc Struct.Biol. (2011)

Release Date

2011-06-01

Peptides

Malate Synthase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Malate Synthase

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