SMTL ID : 8av5.1

Glycosylated PaDa-I mutant of Unspecific Peroxygenase from Agrocybe aegerita

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 3 residues within 4Å: Chain A: N.138, T.140, L.141 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 7 residues within 4Å: Chain A: F.152, G.153, G.154, N.158, L.159, T.160, Q.210 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN.3: 8 residues within 4Å: Chain A: E.279, N.283, K.287, V.319, F.320, P.321, Y.322, G.323 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 4 residues within 4Å: Chain A: E.119, G.120, S.123 Ligands: HEM.7 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.119, A:G.120, A:S.123, H2O.2, H2O.6

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

CL.5: 4 residues within 4Å: Chain A: P.5, D.67, N.68, P.235 Ligand excluded by PLIP

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

NAG.6: 4 residues within 4Å: Chain A: N.8, S.10, A.11, K.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.8, A:S.10

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

HEM.7: 27 residues within 4Å: Chain A: P.32, C.33, P.34, G.35, L.36, I.56, V.60, F.64, F.66, A.74, T.75, A.78, L.112, F.118, E.119, G.120, S.123, M.124, T.125, R.186, E.193, F.196, L.200, F.201, F.220 Ligands: MG.4, ACT.8 27 PLIP interactions: 27 interactions with chain A, Hydrophobic interactions: A:P.32, A:P.34, A:L.36, A:I.56, A:V.60, A:F.64, A:F.66, A:F.66, A:F.66, A:A.74, A:A.78, A:L.112, A:F.118, A:E.193, A:F.196, A:L.200, A:L.200, A:F.201 Hydrogen bonds: A:G.120, A:S.123, A:M.124, A:T.125, A:T.125, A:E.193 Salt bridges: A:R.186 pi-Stacking: A:F.196 Metal complexes: A:C.33

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

ACT.8: 5 residues within 4Å: Chain A: A.74, F.118, T.189, F.196 Ligands: HEM.7 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.74, A:F.196

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mielke, T.F. et al., Glycosylated PaDa-I mutant of Unspecific Peroxygenase from Agrocybe aegerita. To Be Published

Release Date

2023-08-02

Peptides

Aromatic peroxygenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Aromatic peroxygenase