SMTL ID : 5uqr.1

Crystal structure of 2-methylcitrate synthase from Aspergillus fumigatus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x OAA: OXALOACETATE ION(Non-covalent)

OAA.1: 7 residues within 4Å: Chain A: H.245, N.249, H.281, H.327, R.336, R.410 Chain B: R.430 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:N.249 Hydrogen bonds: A:R.410, A:R.410 Salt bridges: A:H.245, A:H.245, A:H.327, A:H.327, A:R.336, A:R.410, B:R.430 OAA.3: 9 residues within 4Å: Chain A: R.430 Chain B: H.245, N.249, H.281, H.327, R.336, F.406, R.410 Ligands: 8JD.6 14 PLIP interactions: 13 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:N.249 Hydrogen bonds: B:H.245, B:N.249, B:R.336, B:R.336 Water bridges: B:H.327, B:R.410 Salt bridges: B:H.245, B:H.245, B:H.281, B:H.327, B:R.336, B:R.410, A:R.430

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

NA.2: 0 residues within 4Å: (No contacts) 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.130, A:D.130 NA.4: 2 residues within 4Å: Chain B: G.374 Ligands: NA.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.374 NA.5: 2 residues within 4Å: Chain B: G.374 Ligands: NA.4 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.374

1 x 8JD: [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl (3R)-4-[(3-{[2-(ethylsulfanyl)ethyl]amino}-3-oxopropyl)amino]-3-hydroxy-2,2-dimethyl-4-oxobutyl dihydrogen diphosphate (non-preferred name)(Non-covalent)

8JD.6: 25 residues within 4Å: Chain A: K.168, P.427, I.428 Chain B: R.50, L.280, H.281, A.284, L.316, V.321, V.322, P.323, G.324, Y.325, G.326, H.327, G.328, L.370, K.375, T.376, K.377, N.382, V.383, D.384, F.406 Ligands: OAA.3 19 PLIP interactions: 17 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:V.383, B:F.406 Hydrogen bonds: B:L.280, B:V.322, B:V.322, B:G.324, B:Y.325, B:Y.325, B:K.377, B:N.382, A:K.168 Water bridges: B:R.50, B:R.50, B:R.50, B:H.327, B:R.331, B:N.378, A:I.428 Salt bridges: B:R.50

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schlachter, C.R. et al., Comparative studies of Aspergillus fumigatus 2-methylcitrate synthase and human citrate synthase. Biol.Chem. (2019)

Release Date

2018-03-14

Peptides

2-methylcitrate synthase, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

2-methylcitrate synthase, mitochondrial

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