SMTL ID : 3zs1.2 (1 other biounit)

Human Myeloperoxidase inactivated by TX5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- BMA- FUC: 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

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

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)

HEM.2: 24 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, Y.184, T.217, F.220, R.221, G.223, H.224, I.227, F.253, L.294, F.295, L.305, L.308, R.312 Ligands: PVW.3 22 PLIP interactions: 5 interactions with chain A, 16 interactions with chain B, 1 Ligand-Water interactions, Hydrophobic interactions: A:Q.93, A:Q.93, A:D.96, B:E.130, B:M.131, 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 Hydrogen bonds: A:D.100, A:T.102 Water bridges: B:R.312 Salt bridges: B:R.127, B:R.221, B:R.312 Metal complexes: B:H.224, H2O.2

1 x PVW: 3-(2-METHOXYETHYL)-2-THIOXO-1,2,3,7-TETRAHYDRO-6H-PURIN-6-ONE(Non-covalent)

PVW.3: 7 residues within 4Å: Chain A: F.101, E.104 Chain B: R.127, E.130, F.254, F.295 Ligands: HEM.2 2 PLIP interactions: 2 interactions with chain B Water bridges: B:T.126, B:E.130

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

SO4.4: 3 residues within 4Å: Chain B: T.192, K.374, R.375 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.192, B:R.375, B:R.375, B:R.375 Salt bridges: B:K.374 SO4.7: 1 residues within 4Å: Chain B: R.117 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.117

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 5 residues within 4Å: Chain A: D.98 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.98

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

CL.6: 5 residues within 4Å: Chain A: R.33, W.34 Chain B: N.214, V.215, W.324 Ligand excluded by PLIP

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

ACT.8: 1 residues within 4Å: Chain B: R.413 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.413 ACT.9: 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 ACT.10: 3 residues within 4Å: Chain B: P.191, R.195, R.375 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.195, B:R.375

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

NAG.11: 6 residues within 4Å: Chain B: N.77, N.80, L.84, A.86, V.87, Q.89 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.80, B:V.87, B:Q.89 NAG.12: 4 residues within 4Å: Chain B: N.113, A.116, W.257, L.261 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tiden, A.K. et al., 2-Thioxanthines are Mechanism-Based Inactivators of Myeloperoxidase that Block Oxidative Stress During Inflammation. J.Biol.Chem. (2011)

Release Date

2011-08-31

Peptides

MYELOPEROXIDASE LIGHT CHAIN: A
MYELOPEROXIDASE HEAVY CHAIN: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

MYELOPEROXIDASE LIGHT CHAIN

MYELOPEROXIDASE HEAVY CHAIN

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