SMTL ID : 5kqd.2 (1 other biounit)

PANK3:Palmitoyl-CoA complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-tetramer

Ligands

4 x PKZ: Palmitoyl-CoA(Non-covalent)

PKZ.1: 31 residues within 4Å: Chain A: G.27, G.28, T.29, L.30, K.32, G.124, G.125, Y.127, N.197, G.199, S.200, G.201, V.202, S.203, R.215, G.218, T.219, N.330 Chain C: N.173, D.260, I.261, Y.262, W.274, A.275, V.276, A.277, N.307, Y.344, D.347, Y.348, W.349 22 PLIP interactions: 7 interactions with chain C, 15 interactions with chain A Hydrophobic interactions: C:A.277, C:Y.344, C:Y.348 Hydrogen bonds: C:D.260, C:V.276, C:V.276, C:A.277, A:G.28, A:T.29, A:L.30, A:G.124, A:G.125, A:N.197, A:S.200, A:S.200, A:S.200, A:G.201, A:V.202, A:R.215, A:R.215, A:N.330 Salt bridges: A:K.32 PKZ.3: 31 residues within 4Å: Chain B: G.27, G.28, T.29, L.30, K.32, G.124, G.125, Y.127, N.197, G.199, S.200, G.201, V.202, S.203, R.215, G.218, T.219, N.330 Chain D: N.173, D.260, I.261, Y.262, W.274, A.275, V.276, A.277, N.307, Y.344, D.347, Y.348, W.349 22 PLIP interactions: 15 interactions with chain B, 7 interactions with chain D Hydrogen bonds: B:G.28, B:T.29, B:L.30, B:G.124, B:G.125, B:N.197, B:S.200, B:S.200, B:S.200, B:G.201, B:V.202, B:R.215, B:R.215, B:N.330, D:D.260, D:V.276, D:V.276, D:A.277 Salt bridges: B:K.32 Hydrophobic interactions: D:A.277, D:Y.344, D:Y.348 PKZ.5: 31 residues within 4Å: Chain A: N.173, D.260, I.261, Y.262, W.274, A.275, V.276, A.277, N.307, Y.344, D.347, Y.348, W.349 Chain C: G.27, G.28, T.29, L.30, K.32, G.124, G.125, Y.127, N.197, G.199, S.200, G.201, V.202, S.203, R.215, G.218, T.219, N.330 24 PLIP interactions: 8 interactions with chain A, 16 interactions with chain C Hydrophobic interactions: A:A.277, A:Y.344, A:Y.348 Hydrogen bonds: A:D.260, A:Y.262, A:V.276, A:V.276, A:A.277, C:G.28, C:T.29, C:L.30, C:G.124, C:G.125, C:Y.127, C:N.197, C:S.200, C:S.200, C:S.200, C:G.201, C:V.202, C:R.215, C:R.215, C:N.330 Salt bridges: C:K.32 PKZ.7: 31 residues within 4Å: Chain B: N.173, D.260, I.261, Y.262, W.274, A.275, V.276, A.277, N.307, Y.344, D.347, Y.348, W.349 Chain D: G.27, G.28, T.29, L.30, K.32, G.124, G.125, Y.127, N.197, G.199, S.200, G.201, V.202, S.203, R.215, G.218, T.219, N.330 24 PLIP interactions: 16 interactions with chain D, 8 interactions with chain B Hydrogen bonds: D:G.28, D:T.29, D:L.30, D:G.124, D:G.125, D:Y.127, D:N.197, D:S.200, D:S.200, D:S.200, D:G.201, D:V.202, D:R.215, D:R.215, D:N.330, B:D.260, B:Y.262, B:V.276, B:V.276, B:A.277 Salt bridges: D:K.32 Hydrophobic interactions: B:A.277, B:Y.344, B:Y.348

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: H.208, N.212 Chain D: P.192, N.323, R.324 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:N.212, D:N.323 Salt bridges: A:H.208, D:R.324 SO4.4: 5 residues within 4Å: Chain B: H.208, N.212 Chain C: P.192, N.323, R.324 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:N.212, C:N.323 Salt bridges: B:H.208, C:R.324 SO4.6: 5 residues within 4Å: Chain B: P.192, N.323, R.324 Chain C: H.208, N.212 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:N.323, C:N.212 Salt bridges: B:R.324, C:H.208 SO4.8: 5 residues within 4Å: Chain A: P.192, N.323, R.324 Chain D: H.208, N.212 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:N.212, A:N.323 Salt bridges: D:H.208, A:R.324

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Subramanian, C. et al., Allosteric Regulation of Mammalian Pantothenate Kinase. J.Biol.Chem. (2016)

Release Date

2016-08-31

Peptides

Pantothenate kinase 3: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Pantothenate kinase 3

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