SMTL ID : 3f9p.1 (1 other biounit)

Crystal structure of myeloperoxidase from human leukocytes

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.93 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- BMA- BMA- BMA- FUC: beta-D-mannopyranose-(1-3)-[beta-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-NAG-BMA-BMA-BMA-FUC.1: 3 residues within 4Å: Chain B: N.205, V.208, R.392 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.392

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

CL.2: 5 residues within 4Å: Chain A: R.33, W.34 Chain B: N.214, V.215, W.324 Ligand excluded by PLIP

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)

HEM.3: 22 residues within 4Å: Chain A: M.89, G.92, Q.93, D.96, D.100, F.101, T.102 Chain B: R.127, E.130, M.131, T.217, F.220, R.221, Y.222, G.223, H.224, I.227, F.253, F.295, L.305, L.308, R.312 17 PLIP interactions: 5 interactions with chain A, 12 interactions with chain B, Hydrophobic interactions: A:Q.93, A:D.96, B:E.130, B:F.220, B:R.221, B:Y.222, B:I.227, B:F.253, B:F.295, B:L.305 Hydrogen bonds: A:D.100, A:T.102, A:T.102 Salt bridges: B:R.127, B:R.221, B:R.312 Metal complexes: B:H.224

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain A: D.98 Chain B: T.56, F.58, D.60, S.62 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:T.56, B:T.56, B:F.58, B:D.60, B:S.62

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 6 residues within 4Å: Chain B: N.77, N.80, L.84, A.86, V.87, Q.89 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.80, B:V.87, B:Q.89, B:Q.89 NAG.6: 4 residues within 4Å: Chain B: N.113, A.116, W.257, L.261 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.113

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 4 residues within 4Å: Chain B: P.11, P.12, R.36, R.49 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:P.11 Salt bridges: B:R.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carpena, X. et al., Essential role of proximal histidine-asparagine interaction in Mammalian peroxidases. J.Biol.Chem. (2009)

Release Date

2009-07-14

Peptides

Myeloperoxidase: A
Myeloperoxidase: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Myeloperoxidase

Myeloperoxidase

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