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

CRYSTAL STRUCTURE OF MYELOPEROXIDASE SUBFORM C (MPO) COMPLEX WITH Compound-29 A.K.A 7-(1,2-DIPHENYLETHYL)-1H-[1,2,3]TRIAZOLO[4,5-B]PYRIDIN-5-AMINE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.23 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.1: 6 residues within 4Å: Chain B: R.202, N.205, S.207, V.208, R.392 Ligands: BMA-MAN.2 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.208 Water bridges: B:R.392, B:R.392, B:R.392 Hydrogen bonds: B:R.202, B:N.205

1 x BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose(Non-covalent)

BMA-MAN.2: 8 residues within 4Å: Chain A: W.32 Chain B: Y.197, F.327, C.385, K.393 Ligands: NAG-FUC.1, NAG.10, MAN.11 1 PLIP interactions: 1 interactions with chain B Water bridges: B:Y.197 Hydrogen bonds: B:K.393

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 5 residues within 4Å: Chain A: R.31, W.32 Chain B: N.214, V.215, W.324 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain B: Q.89 Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain A: D.96 Chain B: T.56, F.58, D.60, S.62 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Metal complexes: B:T.56, B:F.58, B:D.60, B:S.62, A:D.96

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-functional Binders)(Non-covalent)

NAG.5: 4 residues within 4Å: Chain B: N.113, W.257, L.261 Ligands: NAG.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.113 NAG.6: 1 residues within 4Å: Ligands: NAG.5 No protein-ligand interaction detected (PLIP) NAG.9: 5 residues within 4Å: Chain B: N.77, N.80, A.86, V.87, Q.89 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:A.86 Hydrogen bonds: B:N.80, B:V.87, B:Q.89, B:Q.89 NAG.10: 5 residues within 4Å: Chain A: L.33 Chain B: R.326, F.327, G.329 Ligands: BMA-MAN.2 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:F.327 Hydrophobic interactions: A:L.33

1 x HEC: HEME C(Covalent)

HEC.7: 22 residues within 4Å: Chain A: M.87, G.90, Q.91, D.94, D.98, F.99, T.100 Chain B: R.127, E.130, M.131, T.217, F.220, R.221, G.223, H.224, I.227, F.253, L.294, F.295, L.305, R.312 Ligands: UEY.8 24 PLIP interactions: 18 interactions with chain B, 6 interactions with chain A, Hydrophobic interactions: B:M.131, B:F.220, B:F.220, B:R.221, B:I.227, B:F.253, B:L.294, B:L.294, B:F.295, B:L.305, B:L.305, A:Q.91, A:Q.91, A:D.94 Water bridges: B:T.217, B:R.221, B:R.221 Salt bridges: B:R.127, B:R.221, B:R.312 Metal complexes: B:H.224 Hydrogen bonds: A:D.98, A:T.100, A:T.100

1 x UEY: 7-[(1R)-1,2-diphenylethyl]-3H-[1,2,3]triazolo[4,5-b]pyridin-5-amine(Non-covalent)

UEY.8: 9 residues within 4Å: Chain A: H.95, F.99 Chain B: T.126, R.127, E.130, F.254, F.295, L.303 Ligands: HEC.7 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:R.127, B:F.254, B:F.295, B:L.303, A:F.99 Hydrogen bonds: B:R.127, B:E.130, A:Q.91, A:H.95

1 x MAN: alpha-D-mannopyranose(Non-covalent)

MAN.11: 2 residues within 4Å: Chain B: K.196 Ligands: BMA-MAN.2 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.196

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shaw, S.A. et al., Discovery and structure activity relationships of 7-benzyl triazolopyridines as stable, selective, and reversible inhibitors of myeloperoxidase. Bioorg.Med.Chem. (2020)

Release Date

2020-10-14

Peptides

Myeloperoxidase light chain: A
Myeloperoxidase heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Myeloperoxidase light chain

Myeloperoxidase heavy chain

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