SMTL ID : 6i2s.1

Crystal structure of the SucA domain of Mycobacterium smegmatis KGD (R802A) in complex with GarA, following 2-oxoglutarate soak

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-2-2-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.286, N.319, I.321 Ligands: TD6.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.286, A:I.321, H2O.1, H2O.1 MG.5: 4 residues within 4Å: Chain C: D.286, N.319, I.321 Ligands: TD6.8 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.286, C:I.321, H2O.7, H2O.7

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.645, H.696, D.699, I.701 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.645, A:D.645, A:H.696, A:D.699, A:I.701 CA.6: 4 residues within 4Å: Chain C: D.645, H.696, D.699, I.701 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.645, C:D.645, C:H.696, C:D.699, C:I.701

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 4 residues within 4Å: Chain A: I.15, V.62, V.79, E.109 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.109, A:E.109 PO4.7: 4 residues within 4Å: Chain C: I.15, V.62, V.79, E.109 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.109

2 x TD6: (4S)-4-{3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-5-(2-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}ethyl)-4-methyl-1,3lambda~5~-thiazol-2-yl}-4-hydroxybutanoic acid(Non-covalent)

TD6.4: 22 residues within 4Å: Chain A: R.181, S.245, H.246, L.247, G.285, D.286, A.287, A.288, Q.292, N.319, I.321, G.322, F.323, H.388, N.389 Chain C: Q.542, L.591, E.593, Q.617, F.621, H.661 Ligands: MG.1 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:F.323 Hydrogen bonds: A:S.245, A:L.247, A:D.286, A:A.287, A:A.288, A:N.319, A:N.389 Water bridges: A:G.285, A:F.323, A:F.323 Salt bridges: A:R.181, A:H.388, A:H.388 pi-Stacking: C:F.621 TD6.8: 22 residues within 4Å: Chain A: Q.542, L.591, E.593, Q.617, F.621, H.661 Chain C: R.181, S.245, H.246, L.247, G.285, D.286, A.287, A.288, Q.292, N.319, I.321, G.322, F.323, H.388, N.389 Ligands: MG.5 15 PLIP interactions: 14 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:F.323 Hydrogen bonds: C:S.245, C:L.247, C:D.286, C:A.287, C:A.288, C:N.319, C:N.389 Water bridges: C:G.285, C:F.323, C:F.323 Salt bridges: C:R.181, C:H.388, C:H.388 pi-Stacking: A:F.621

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wagner, T. et al., Structural insights into the functional versatility of an FHA domain protein in mycobacterial signaling. Sci.Signal. (2019)

Release Date

2019-05-22

Peptides

Multifunctional 2-oxoglutarate metabolism enzyme: AC
Glycogen accumulation regulator GarA: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Multifunctional 2-oxoglutarate metabolism enzyme

Glycogen accumulation regulator GarA

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