SMTL ID : 6e1j.1

Crystal Structure of Methylthioalkylmalate Synthase (BjuMAM1.1) from Brassica juncea

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

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

MN.1: 4 residues within 4Å: Chain A: D.90, H.288, H.290 Ligands: KMT.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.90, A:H.288, A:H.290, H2O.2 MN.2: 2 residues within 4Å: Chain A: V.145, E.147 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:V.145, A:E.147, H2O.3 MN.5: 5 residues within 4Å: Chain B: D.90, H.288, H.290, N.324 Ligands: KMT.6 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.90, B:H.288, B:H.290, H2O.12

2 x KMT: 4-(METHYLSULFANYL)-2-OXOBUTANOIC ACID(Non-covalent)

KMT.3: 13 residues within 4Å: Chain A: R.89, D.90, V.182, E.223, G.225, E.227, A.253, P.255, T.257, H.288, H.290, E.312 Ligands: MN.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.89, A:R.89 Water bridges: A:Q.93 Salt bridges: A:H.288, A:H.290 KMT.6: 10 residues within 4Å: Chain B: R.89, D.90, I.158, G.225, E.227, P.255, T.257, H.288, H.290 Ligands: MN.5 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.89, B:R.89 Water bridges: B:Q.93 Salt bridges: B:H.288, B:H.290

2 x COA: COENZYME A(Non-covalent)

COA.4: 21 residues within 4Å: Chain A: S.385, G.386, I.387, D.390, K.394, L.422, G.424, R.425, H.426, R.452 Chain B: R.89, Q.93, F.123, S.126, R.160, S.161, K.162, F.184, T.185, K.195, L.196 17 PLIP interactions: 6 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:F.123, B:F.123 Hydrogen bonds: B:R.160, B:S.161, B:S.161, B:K.195, A:G.386, A:I.387, A:R.425, A:H.426, A:R.452 Water bridges: A:D.390, A:D.390, A:K.394, A:K.394 Salt bridges: A:K.394, A:R.425 COA.7: 21 residues within 4Å: Chain A: Q.93, F.123, S.126, I.158, R.160, S.161, K.162, F.184, T.185, K.195, L.196 Chain B: S.385, G.386, I.387, D.390, K.394, L.422, G.424, R.425, H.426, R.452 20 PLIP interactions: 12 interactions with chain B, 8 interactions with chain A Hydrogen bonds: B:G.386, B:I.387, B:R.425, B:H.426, B:R.452, A:R.160, A:S.161, A:F.184 Water bridges: B:D.390, B:G.391, B:K.394, B:K.394, B:A.427, A:R.160, A:R.160, A:L.196 Salt bridges: B:K.394, B:R.425 Hydrophobic interactions: A:F.123, A:F.123

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, R. et al., Molecular Basis of the Evolution of Methylthioalkylmalate Synthase and the Diversity of Methionine-Derived Glucosinolates. Plant Cell (2019)

Release Date

2019-05-08

Peptides

2-isopropylmalate synthase, A genome specific 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

2-isopropylmalate synthase, A genome specific 1