SMTL ID : 5lwx.1

Crystal structure of the H253D mutant of McoG from Aspergillus niger

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

monomer

Ligands

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

NAG-NAG.1: 12 residues within 4Å: Chain A: N.102, N.103, F.155, S.156, T.193, D.195, E.196, W.403, Y.562, P.572 Ligands: NAG.7, BMA.8 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.193, A:E.196 Water bridges: A:D.195, A:E.196, A:E.196, A:Q.199 NAG-NAG.2: 12 residues within 4Å: Chain A: Q.78, P.82, T.83, E.85, L.168, L.181, G.182, M.183, V.184, N.216, F.233 Ligands: BMA.14 4 PLIP interactions: 4 interactions with chain A Water bridges: A:T.83, A:E.85, A:D.180, A:M.183

4 x CU: COPPER (II) ION(Non-covalent)

CU.3: 5 residues within 4Å: Chain A: H.110, W.150, H.152, H.517 Ligands: PER.16 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.110, A:H.152, A:H.517 CU.4: 7 residues within 4Å: Chain A: H.154, H.451, H.453, L.513, H.515 Ligands: CU.5, PER.16 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.154, A:H.453, A:H.515 CU.5: 6 residues within 4Å: Chain A: H.108, H.110, H.451, H.453 Ligands: CU.4, PER.16 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.108, A:H.451, H2O.8 CU.6: 5 residues within 4Å: Chain A: H.448, C.516, I.518, H.521, F.526 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.448, A:C.516, A:H.521

5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)(Non-functional Binders)

NAG.7: 8 residues within 4Å: Chain A: N.60, L.73, M.100, E.101, N.102, N.103 Ligands: NAG-NAG.1, NAG.9 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.73, A:N.103 Hydrogen bonds: A:E.101, A:N.102, A:N.102 Water bridges: A:N.60, A:N.60, A:N.60, A:N.60 NAG.9: 3 residues within 4Å: Chain A: N.102, Y.562 Ligands: NAG.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.102, A:Y.562 NAG.10: 5 residues within 4Å: Chain A: N.400, R.567, L.569, Y.573 Ligands: NAG.13 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.569, A:Y.573 Hydrogen bonds: A:N.400, A:R.567, A:R.567 Water bridges: A:R.567 NAG.12: 1 residues within 4Å: Chain A: N.134 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.134 NAG.13: 1 residues within 4Å: Ligands: NAG.10 No protein-ligand interaction detected (PLIP)

2 x BMA: beta-D-mannopyranose(Non-covalent)

BMA.8: 4 residues within 4Å: Chain A: E.196 Ligands: NAG-NAG.1, MAN.11, MAN.15 No protein-ligand interaction detected (PLIP) BMA.14: 2 residues within 4Å: Chain A: E.85 Ligands: NAG-NAG.2 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.85

2 x MAN: alpha-D-mannopyranose(Non-covalent)(Non-functional Binders)

MAN.11: 4 residues within 4Å: Chain A: Q.199, A.570, G.571 Ligands: BMA.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.570 MAN.15: 1 residues within 4Å: Ligands: BMA.8 No protein-ligand interaction detected (PLIP)

1 x PER: PEROXIDE ION(Non-covalent)

PER.16: 11 residues within 4Å: Chain A: H.108, H.110, H.152, H.154, H.451, H.453, H.515, H.517 Ligands: CU.3, CU.4, CU.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ferraroni, M. et al., Structure and function of Aspergillus niger laccase McoG. Biocatalysis (2017)

Release Date

2017-05-03

Peptides

Multicopper oxidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Multicopper oxidase