SMTL ID : 6awg.1 (1 other biounit)

Staphylococcus aureus Type II pantothenate kinase in complex with nucleotides and pantothenate analog Deoxy-N190Pan

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 19 residues within 4Å: Chain A: G.8, G.9, T.10, L.11, K.13, E.70, V.97, G.98, T.99, G.100, G.121, G.122, Q.125, Y.137, G.224, S.225, S.226 Chain B: I.159 Ligands: C0G.4 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:G.9, A:T.10, A:T.10, A:L.11, A:L.11, A:E.70, A:T.99, A:G.100, A:G.121, A:Y.137, A:S.225, A:S.225, A:S.226 Water bridges: A:E.70, A:E.70, A:N.96, A:G.98, A:S.225, A:A.255 Salt bridges: A:K.13, A:K.13 pi-Stacking: A:Y.137, A:Y.137

2 x C0G: (2R)-N-(3-{[(2H-1,3-benzodioxol-5-yl)methyl]amino}-3-oxopropyl)-2-hydroxy-3,3-dimethylbutanamide(Non-covalent)

C0G.2: 16 residues within 4Å: Chain A: V.156, I.167, L.171, T.172, A.173, E.202, T.206, Y.240 Chain B: E.70, F.71, G.100, T.101, S.102, R.113, G.116, I.117 16 PLIP interactions: 5 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:F.71, A:V.156, A:I.167, A:E.202, A:E.202 Hydrogen bonds: B:G.100, B:R.113, B:R.113, A:T.172, A:T.172, A:T.172, A:A.173 Water bridges: B:G.100, A:E.202, A:Y.240 pi-Stacking: A:Y.240 C0G.4: 17 residues within 4Å: Chain A: E.70, F.71, G.100, T.101, S.102, R.113, G.116, I.117 Chain B: V.156, I.167, L.171, T.172, A.173, E.202, T.206, Y.240 Ligands: ATP.1 16 PLIP interactions: 10 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:V.156, B:I.167, B:E.202, A:F.71 Hydrogen bonds: B:T.172, B:T.172, B:T.172, B:A.173, A:G.100, A:T.101, A:R.113, A:R.113 Water bridges: B:R.149, B:Y.240, A:G.98 pi-Stacking: B:Y.240

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.3: 15 residues within 4Å: Chain B: G.8, G.9, T.10, L.11, K.13, L.28, G.98, T.99, G.121, G.122, Q.125, Y.137, G.224, S.225, S.226 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:G.9, B:T.10, B:T.10, B:L.11, B:L.11, B:T.99, B:T.99, B:G.121, B:Q.125, B:S.225, B:S.225, B:S.226 Water bridges: B:K.13, B:K.13, B:G.100, B:S.225, B:A.255 Salt bridges: B:K.13, B:K.13 pi-Stacking: B:Y.137, B:Y.137

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Y. et al., Structure-based identification of uncompetitive inhibitors for Staphylococcus aureus pantothenate kinase. To Be Published

Release Date

2018-09-12

Peptides

Type II pantothenate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Type II pantothenate kinase

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