SMTL ID : 2qt6.1 (1 other biounit)

Crystal Structure Determination of a Blue Laccase from Lentinus Tigrinus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- BMA- BMA- BMA: beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-6)-[beta-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-BMA-BMA-BMA.1: 11 residues within 4Å: Chain A: F.20, R.22, A.23, N.54, M.57, H.153, V.154, A.155, L.158, S.179 Ligands: MAN.10 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:R.22, A:A.155 Hydrogen bonds: A:A.155 Water bridges: A:H.153

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: 6 residues within 4Å: Chain A: Q.318, N.324, N.326, T.382, P.384, N.435 No protein-ligand interaction detected (PLIP)

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

CU.3: 5 residues within 4Å: Chain A: H.394, C.452, I.454, H.457, F.462 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.394, A:C.452, A:H.457 CU.4: 5 residues within 4Å: Chain A: H.64, H.66, G.67, H.397, H.399 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.64, A:H.397, H2O.10, H2O.15 CU.5: 4 residues within 4Å: Chain A: H.111, H.397, H.399, H.451 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.111, A:H.399, A:H.451, H2O.10, H2O.17 CU.6: 5 residues within 4Å: Chain A: H.64, H.66, W.107, H.109, H.453 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.66, A:H.109, A:H.453, H2O.10, H2O.17

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

NAG.7: 8 residues within 4Å: Chain A: S.375, N.376, T.442, D.443, P.445, D.469 Ligands: TLA.8, CA.11 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.445 Hydrogen bonds: A:S.375, A:N.376, A:N.376

1 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.8: 6 residues within 4Å: Chain A: S.375, D.469, P.471, N.472 Ligands: NAG.7, CA.11 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.375, A:N.472, A:N.472 Water bridges: A:S.375, A:N.376, A:N.472

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 6 residues within 4Å: Chain A: A.80, H.111, L.112, S.113, F.449, L.458 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.111, A:S.113 Water bridges: A:D.459

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

MAN.10: 1 residues within 4Å: Ligands: NAG-NAG-BMA-BMA-BMA-BMA.1 No protein-ligand interaction detected (PLIP)

5 x CA: CALCIUM ION(Non-covalent)

CA.11: 4 residues within 4Å: Chain A: D.469, N.472 Ligands: NAG.7, TLA.8 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.469, H2O.15, H2O.15 CA.12: 2 residues within 4Å: Chain A: D.253 Ligands: CA.13 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.253, A:D.253, H2O.24 CA.13: 2 residues within 4Å: Chain A: D.253 Ligands: CA.12 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.253, H2O.17, H2O.24 CA.14: 2 residues within 4Å: Chain A: E.341, S.367 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.341, A:S.367, H2O.7, H2O.20, H2O.23 CA.15: 1 residues within 4Å: Chain A: K.157 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:K.157, H2O.5, H2O.24, H2O.27, H2O.40

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

CL.16: 4 residues within 4Å: Chain A: M.40, G.41, P.100, G.101 Ligand excluded by PLIP CL.17: 4 residues within 4Å: Chain A: H.401, Q.441, D.443, N.444 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ferraroni, M. et al., Crystal structure of a blue laccase from Lentinus tigrinus: evidences for intermediates in the molecular oxygen reductive splitting by multicopper oxidases. Bmc Struct.Biol. (2007)

Release Date

2007-11-20

Peptides

Laccase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Laccase

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