SMTL ID : 5al9.1

Structure of Leishmania major peroxidase D211R mutant (high res)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.37 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 26 residues within 4Å: Chain A: P.27, S.28, I.30, R.31, W.34, P.129, D.130, G.131, V.138, F.142, L.155, I.156, A.158, H.159, C.161, G.162, E.163, C.164, H.165, F.168, S.169, Y.171, W.175, S.219, F.247, F.251 26 PLIP interactions: 25 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:I.30, A:R.31, A:W.34, A:W.34, A:W.34, A:P.129, A:V.138, A:F.142, A:L.155, A:L.155, A:I.156, A:A.158, A:Y.171, A:F.247, A:F.251 Hydrogen bonds: A:E.163, A:H.165, A:S.169 Water bridges: A:R.31, A:R.31 Salt bridges: A:R.31, A:H.165, A:H.165 pi-Stacking: A:W.34 Metal complexes: A:H.159, H2O.3 HEM.4: 26 residues within 4Å: Chain B: P.27, S.28, I.30, R.31, W.34, P.129, D.130, G.131, V.138, F.142, L.155, I.156, A.158, H.159, C.161, G.162, E.163, C.164, H.165, F.168, S.169, Y.171, W.175, S.219, F.247, F.251 27 PLIP interactions: 26 interactions with chain B, 1 Ligand-Water interactions Hydrophobic interactions: B:I.30, B:R.31, B:W.34, B:W.34, B:W.34, B:P.129, B:V.138, B:F.142, B:L.155, B:L.155, B:I.156, B:A.158, B:Y.171, B:F.247, B:F.251 Hydrogen bonds: B:E.163, B:H.165, B:S.169 Water bridges: B:R.31, B:E.163, B:H.165 Salt bridges: B:R.31, B:H.165, B:H.165 pi-Stacking: B:W.34 Metal complexes: B:H.159, H2O.13

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: E.36, S.39, G.47, S.48, S.53, E.59 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.36, A:S.39, A:E.59, H2O.3, H2O.3 CA.5: 6 residues within 4Å: Chain B: E.36, S.39, G.47, S.48, S.53, E.59 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.36, B:S.39, B:E.59, H2O.13, H2O.13

2 x K: POTASSIUM ION(Non-covalent)

K.3: 5 residues within 4Å: Chain A: T.160, T.176, R.178, G.181, S.185 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.160, A:T.176, A:R.178, A:G.181, H2O.8 K.6: 5 residues within 4Å: Chain B: T.160, T.176, R.178, G.181, S.185 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.160, B:T.176, B:R.178, B:G.181, H2O.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chreifi, G. et al., Enzymatic Mechanism of Leishmania major Peroxidase and the Critical Role of Specific Ionic Interactions. Biochemistry (2015)

Release Date

2015-05-20

Peptides

ASCORBATE PEROXIDASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ASCORBATE PEROXIDASE

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