SMTL ID : 4q7c.1

Structure of AF2299, a CDP-alcohol phosphotransferase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-dimer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.242, D.245, D.263 Ligands: CA.2, C2G.8 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.242, A:D.242, A:D.245, A:D.245, A:D.263 CA.2: 4 residues within 4Å: Chain A: D.242, D.263, D.267 Ligands: CA.1 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.242, A:D.263, A:D.263, A:D.267, A:D.267 CA.9: 5 residues within 4Å: Chain B: D.242, D.245, D.263 Ligands: CA.10, C2G.16 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.242, B:D.242, B:D.245, B:D.263, B:D.263 CA.10: 4 residues within 4Å: Chain B: D.242, D.263, D.267 Ligands: CA.9 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.242, B:D.263, B:D.263, B:D.267

8 x MPG: [(Z)-octadec-9-enyl] (2R)-2,3-bis(oxidanyl)propanoate(Non-covalent)

MPG.3: 5 residues within 4Å: Chain A: Q.204, V.207, F.208 Ligands: MPG.5, MPG.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Q.204, A:V.207, A:V.207, A:F.208 MPG.4: 2 residues within 4Å: Chain A: L.195, F.208 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.195, A:F.208 MPG.5: 4 residues within 4Å: Chain A: V.207, Y.258 Chain B: I.364 Ligands: MPG.3 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.364 MPG.6: 2 residues within 4Å: Chain A: V.207 Ligands: MPG.3 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.207 MPG.11: 3 residues within 4Å: Chain B: V.200 Ligands: MPG.12, MPG.13 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:V.200 MPG.12: 4 residues within 4Å: Chain B: V.200, F.208 Ligands: MPG.11, MPG.13 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:V.200, B:F.208, B:F.208, B:F.208 MPG.13: 4 residues within 4Å: Chain B: L.194, T.198 Ligands: MPG.11, MPG.12 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:T.198 MPG.14: 3 residues within 4Å: Chain B: L.295, A.353, L.354 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.295, B:A.353, B:L.354

2 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.7: 7 residues within 4Å: Chain A: R.268, I.303, A.304, T.328, R.329, R.332 Ligands: C2G.8 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.268, A:R.329 Salt bridges: A:R.268, A:R.268, A:R.332 TLA.15: 8 residues within 4Å: Chain B: Y.174, R.268, I.303, A.304, T.328, R.329, R.332 Ligands: C2G.16 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Y.174, B:R.268, B:R.268, B:R.329 Salt bridges: B:R.268, B:R.268, B:R.332

2 x C2G: [CYTIDINE-5'-PHOSPHATE] GLYCERYLPHOSPHORIC ACID ESTER(Non-covalent)

C2G.8: 21 residues within 4Å: Chain A: D.176, A.180, N.184, R.185, P.202, N.203, T.206, S.239, D.242, G.243, D.245, G.246, A.249, R.250, E.255, S.256, G.259, A.260, D.263 Ligands: CA.1, TLA.7 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:D.245, A:D.263 Hydrogen bonds: A:D.176, A:N.184, A:T.206, A:T.206, A:S.239, A:D.245, A:G.246, A:R.250, A:S.256 Salt bridges: A:R.185, A:R.250 C2G.16: 23 residues within 4Å: Chain B: K.164, A.180, N.184, R.185, P.202, N.203, T.206, S.239, D.242, G.243, D.245, G.246, A.249, R.250, M.254, E.255, S.256, G.259, A.260, D.263, D.330 Ligands: CA.9, TLA.15 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:D.245, B:D.263 Hydrogen bonds: B:N.184, B:R.185, B:T.206, B:T.206, B:S.239, B:S.239, B:G.243, B:G.246, B:R.250, B:S.256 Salt bridges: B:K.164, B:K.164, B:R.185, B:R.250

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sciara, G. et al., Structural basis for catalysis in a CDP-alcohol phosphotransferase. Nat Commun (2014)

Release Date

2014-05-28

Peptides

AF2299, a CDP-alcohol phosphotransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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AF2299, a CDP-alcohol phosphotransferase

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