SMTL ID : 3qpk.2 (1 other biounit)

Probing oxygen channels in Melanocarpus albomyces laccase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

3 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: E.42, E.55, K.56, M.58, T.87, N.88, F.141, A.179, D.181, D.182, N.550, Y.552 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:K.56, A:A.179 Hydrogen bonds: A:D.182, A:D.182 Water bridges: A:K.56, A:K.56, A:A.180 NAG-NAG.2: 8 residues within 4Å: Chain A: N.216, T.218, H.311, A.313, G.314, A.315, G.317, G.318 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.314 Water bridges: A:G.318 NAG-NAG.3: 8 residues within 4Å: Chain A: Y.214, W.287, N.289, T.291, H.305, A.307, E.323, T.325 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.287 Water bridges: A:Y.214

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

CU.4: 4 residues within 4Å: Chain A: H.431, C.503, I.505, H.508 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.431, A:C.503, A:H.508 CU.5: 3 residues within 4Å: Chain A: H.140, H.436, H.502 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.140, A:H.436, A:H.502, H2O.1 CU.6: 4 residues within 4Å: Chain A: H.95, W.136, H.138, H.504 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.95, A:H.138, A:H.504, H2O.1 CU.7: 5 residues within 4Å: Chain A: H.93, H.95, H.434, H.436 Ligands: CL.8 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.93, A:H.434, H2O.1

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

CL.8: 7 residues within 4Å: Chain A: H.93, W.94, H.95, G.96, H.434, H.436 Ligands: CU.7 Ligand excluded by PLIP

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

NAG.9: 3 residues within 4Å: Chain A: N.39, I.82, N.84 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.82 Hydrogen bonds: A:N.39, A:N.84 Water bridges: A:N.84 NAG.10: 4 residues within 4Å: Chain A: L.167, N.201, N.216, V.217 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.217 Hydrogen bonds: A:N.201 Water bridges: A:L.167, A:L.167, A:V.169 NAG.11: 6 residues within 4Å: Chain A: P.355, D.356, T.358, L.359, N.376, V.406 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.359 Hydrogen bonds: A:P.355, A:P.355, A:N.376

3 x XE: XENON(Non-covalent)

XE.12: 3 residues within 4Å: Chain A: F.491, F.501, F.517 No protein-ligand interaction detected (PLIP) XE.13: 3 residues within 4Å: Chain A: V.375, M.433, F.501 No protein-ligand interaction detected (PLIP) XE.14: 5 residues within 4Å: Chain A: V.348, S.350, F.351, L.468, L.488 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kallio, J.P. et al., Probing the Dioxygen Route in Melanocarpus albomyces Laccase with Pressurized Xenon Gas. Biochemistry (2011)

Release Date

2011-05-11

Peptides

Laccase-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Laccase-1

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