SMTL ID : 4qyq.1 (3 other biounits)

Crystal structure of the complex of goat lactoperoxidase with an antithyroid agent propylthiouracil at 2.5 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

2 x NAG: SUGAR (N-ACETYL-D-GLUCOSAMINE)(Post Translational Modification)

NAG.1: 2 residues within 4Å: Chain A: N.95, Q.568 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.95, A:Q.568, A:Q.568 NAG.2: 7 residues within 4Å: Chain A: N.205, S.208, L.210, M.213, A.214, V.215, Q.217 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.208, A:V.215, A:Q.217

1 x NAG- NAG: SUGAR (2-MER)(Post Translational Modification)

NAG-NAG.3: 5 residues within 4Å: Chain A: N.241, A.244, E.371, W.384, K.388 No protein-ligand interaction detected (PLIP)

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)

HEM.4: 22 residues within 4Å: Chain A: M.101, G.104, Q.105, D.108, D.112, F.113, A.114, R.255, E.258, Q.259, T.344, F.347, R.348, G.350, H.351, V.354, F.380, L.417, L.433, I.436, R.440 Ligands: 3CJ.6 20 PLIP interactions: 20 interactions with chain A, Hydrophobic interactions: A:Q.105, A:Q.105, A:E.258, A:Q.259, A:F.347, A:F.347, A:F.347, A:R.348, A:V.354, A:F.380, A:L.417, A:L.433, A:L.433 Hydrogen bonds: A:D.112, A:D.112, A:A.114 Salt bridges: A:R.255, A:R.348, A:R.440 Metal complexes: A:H.351

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 5 residues within 4Å: Chain A: D.110, T.184, F.186, D.188, S.190 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.110, A:D.110, A:T.184, A:F.186, A:S.190

1 x 3CJ: 6-PROPYL-2-THIOXO-2,3-DIHYDROPYRIMIDIN-4(1H)-ONE(Non-covalent)

3CJ.6: 6 residues within 4Å: Chain A: Q.105, H.109, F.113, A.114, R.255 Ligands: HEM.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.113, A:R.255 Hydrogen bonds: A:R.255

3 x NO3: NITRATE ION(Non-functional Binders)

NO3.7: 9 residues within 4Å: Chain A: A.44, R.45, W.46, L.47, S.340, N.341, V.342, M.446, W.452 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.45, A:W.46, A:L.47, A:N.341, A:V.342 Water bridges: A:R.45, A:R.45 NO3.8: 3 residues within 4Å: Chain A: L.92, K.402, N.403 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.403 NO3.9: 7 residues within 4Å: Chain A: Q.305, I.306, F.309, R.310, W.529, W.530, E.531 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.530

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Singh, R.P. et al., Mode of binding of the antithyroid drug propylthiouracil to mammalian haem peroxidases. Acta Crystallogr.,Sect.F (2015)

Release Date

2014-08-20

Peptides

Lactoperoxidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lactoperoxidase

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