SMTL ID : 1gw0.2 (1 other biounit)

Crystal Structure of Laccase from Melanocarpus albomyces in Four Copper Form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]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.1: 14 residues within 4Å: Chain A: E.42, E.55, K.56, M.58, T.87, N.88, R.178, A.179, D.181, D.182, H.185, N.550, Y.552, P.553 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.179 Hydrogen bonds: A:D.181, A:D.182 Water bridges: A:E.55, A:D.181

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: 8 residues within 4Å: Chain A: N.216, T.218, I.309, H.311, A.313, G.314, A.315, G.317 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.314 Water bridges: A:G.318

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-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.3: 8 residues within 4Å: Chain A: Y.214, W.287, N.289, H.305, A.307, E.323, T.325, P.326 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.287 Water bridges: A:Y.214, A:Y.214, A:E.323

1 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.4: 11 residues within 4Å: Chain A: H.93, H.95, H.138, H.140, H.434, H.436, H.502, H.504 Ligands: CU.6, CU.7, CU.8 No protein-ligand interaction detected (PLIP)

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

CU.5: 5 residues within 4Å: Chain A: H.431, C.503, I.505, H.508, L.513 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.431, A:C.503, A:H.508 CU.6: 5 residues within 4Å: Chain A: H.140, H.436, H.502 Ligands: OXY.4, CU.8 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.140, A:H.436, A:H.502 CU.7: 7 residues within 4Å: Chain A: H.93, H.95, W.136, H.138, H.504 Ligands: OXY.4, CU.8 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.95, A:H.138, A:H.504 CU.8: 8 residues within 4Å: Chain A: H.93, H.95, H.434, H.436 Ligands: OXY.4, CU.6, CU.7, CL.9 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.93, A:H.434

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

CL.9: 7 residues within 4Å: Chain A: H.93, H.95, G.96, H.434, L.435, H.436 Ligands: CU.8 Ligand excluded by PLIP

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

NAG.10: 3 residues within 4Å: Chain A: N.39, T.41, N.84 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.39, A:N.84 Water bridges: A:N.84 NAG.11: 7 residues within 4Å: Chain A: P.355, D.356, T.358, L.359, N.376, V.406, W.417 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.359, A:W.417 Hydrogen bonds: A:P.355, A:P.355, A:N.376 NAG.12: 4 residues within 4Å: Chain A: K.386, Y.391, N.396, S.398 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.391, A:Y.391 NAG.13: 6 residues within 4Å: Chain A: L.167, V.169, F.170, N.201, V.217, L.227 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.167, A:F.170, A:L.227 Hydrogen bonds: A:V.169, A:N.201 NAG.14: 2 residues within 4Å: Chain A: N.244, R.281 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.244

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

SO4.15: 2 residues within 4Å: Chain A: R.128, R.130 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.128, A:R.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hakulinen, N. et al., Crystal Structure of a Laccase from Melanocarpus Albomyces with an Intact Trinuclear Copper Site. Nat.Struct.Biol. (2002)

Release Date

2002-07-31

Peptides

LACCASE-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

LACCASE-1

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