SMTL ID : 4jm9.1

Crystal structure of Cytochrome C Peroxidase W191G-Gateless in complex with 3-amino-1-methylpyridinium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.41 Å

Oligo State

monomer

Ligands

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

HEM.1: 22 residues within 4Å: Chain A: P.41, V.42, R.45, W.48, P.142, D.143, A.144, F.155, L.168, M.169, A.171, H.172, L.174, G.175, K.176, T.177, H.178, N.181, S.182, L.227, T.229 Ligands: LG5.2 22 PLIP interactions: 21 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:R.45, A:W.48, A:W.48, A:W.48, A:P.142, A:A.144, A:F.155, A:L.168, A:A.171, A:T.177 Hydrogen bonds: A:K.176, A:H.178, A:N.181, A:S.182 Water bridges: A:H.178 Salt bridges: A:R.45, A:H.178, A:H.178 pi-Stacking: A:W.48 pi-Cation interactions: A:R.45 Metal complexes: A:H.172, H2O.6

1 x LG5: 1-METHYL-1,6-DIHYDROPYRIDIN-3-AMINE(Non-covalent)

LG5.2: 11 residues within 4Å: Chain A: H.172, L.174, G.175, K.176, T.177, M.225, M.226, L.227, D.230 Ligands: HEM.1, IOD.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:H.172, A:T.177 Hydrogen bonds: A:M.225, A:L.227

1 x IOD: IODIDE ION(Non-functional Binders)

IOD.3: 6 residues within 4Å: Chain A: K.176, T.177, G.186, G.188, M.225 Ligands: LG5.2 Ligand excluded by PLIP

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 3 residues within 4Å: Chain A: L.27, M.116, N.191 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.27, A:N.191 Water bridges: A:Y.39, A:G.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rocklin, G.J. et al., Blind prediction of charged ligand binding affinities in a model binding site. J.Mol.Biol. (2013)

Release Date

2013-05-01

Peptides

Cytochrome c peroxidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome c peroxidase

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