SMTL ID : 6awi.2 (1 other biounit)

Staphylococcus aureus Type II pantothenate kinase in complex with ADP and pantothenate analog Deoxy-N5Pan

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

ADP.1: 17 residues within 4Å: Chain A: G.8, G.9, T.10, L.11, K.13, L.28, V.97, G.98, T.99, G.121, G.122, Q.125, Y.137, G.224, S.225, S.226, H.228 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:G.9, A:T.10, A:T.10, A:T.10, A:L.11, A:T.99, A:T.99, A:G.121, A:S.225, A:S.225, A:H.228 Water bridges: A:D.6, A:K.13, A:K.13, A:K.13, A:K.13, A:G.100, A:S.225 Salt bridges: A:K.13, A:K.13 pi-Stacking: A:Y.137, A:Y.137 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 18 PLIP interactions: 18 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:G.121, B:S.225, B:S.225, B:S.226 Water bridges: B:K.13, B:K.13, B:G.100, B:Y.137 Salt bridges: B:K.13, B:K.13 pi-Stacking: B:Y.137, B:Y.137

2 x C0D: (2R)-2-hydroxy-3,3-dimethyl-N-[3-oxo-3-(pentylamino)propyl]butanamide(Non-covalent)

C0D.2: 14 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, L.171, T.172, A.173, E.202, Y.240 14 PLIP interactions: 6 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:F.71, B:V.156, B:L.171, B:E.202, B:Y.240, B:Y.240 Hydrogen bonds: A:G.100, A:T.101, A:R.113, A:R.113, B:T.172, B:A.173 Water bridges: A:G.100, B:Y.240 C0D.4: 15 residues within 4Å: Chain A: V.156, I.167, 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 12 PLIP interactions: 5 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:F.71, A:V.156, A:I.167, A:E.202, A:Y.240, A:Y.240 Hydrogen bonds: B:G.100, B:R.113, B:R.113, A:T.172, A:A.173 Water bridges: B:G.100

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
C

B
D

Type II pantothenate kinase

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