- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.67 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAG- NAG- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 5 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, G.317, G.318
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:G.314
- Water bridges: A:G.318
NAG-NAG.4: 7 residues within 4Å:- Chain A: P.355, D.356, T.358, L.359, N.376, V.406, W.417
No protein-ligand interaction detected (PLIP)NAG-NAG.5: 5 residues within 4Å:- Chain A: L.167, F.170, N.201, N.216, V.217
No protein-ligand interaction detected (PLIP)NAG-NAG.7: 8 residues within 4Å:- Chain B: N.216, T.218, I.309, H.311, A.313, G.314, G.317, G.318
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:G.314
- Water bridges: B:G.318
NAG-NAG.9: 7 residues within 4Å:- Chain B: P.355, D.356, T.358, L.359, N.376, V.406, W.417
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.356
- Water bridges: B:D.356
- 2 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
NAG-NAG-MAN.3: 10 residues within 4Å:- Chain A: Y.214, W.287, N.289, T.291, H.305, A.307, L.319, E.323, T.325, P.326
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:W.287, A:L.319
NAG-NAG-MAN.8: 11 residues within 4Å:- Chain B: Y.214, W.287, N.289, T.291, H.305, A.307, L.319, E.323, G.324, T.325, P.326
2 PLIP interactions:2 interactions with chain B- Hydrophobic interactions: B:W.287, B:L.319
- 8 x CU: COPPER (II) ION(Non-covalent)
CU.10: 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.11: 4 residues within 4Å:- Chain A: H.140, H.436, H.502
- Ligands: OXY.15
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.140, A:H.436, A:H.502
CU.12: 5 residues within 4Å:- Chain A: H.95, W.136, H.138, H.504
- Ligands: OXY.15
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.95, A:H.138, A:H.504
CU.13: 6 residues within 4Å:- Chain A: H.93, H.95, H.434, H.436
- Ligands: CL.14, OXY.15
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:H.93, A:H.434
CU.21: 5 residues within 4Å:- Chain B: H.431, C.503, I.505, H.508, L.513
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.431, B:C.503, B:H.508
CU.22: 4 residues within 4Å:- Chain B: H.140, H.436, H.502
- Ligands: OXY.26
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.140, B:H.436, B:H.502
CU.23: 5 residues within 4Å:- Chain B: H.95, W.136, H.138, H.504
- Ligands: OXY.26
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.95, B:H.138, B:H.504
CU.24: 6 residues within 4Å:- Chain B: H.93, H.95, H.434, H.436
- Ligands: CL.25, OXY.26
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:H.93, B:H.434
- 2 x CL: CHLORIDE ION(Non-functional Binders)
- 2 x OXY: OXYGEN MOLECULE(Non-covalent)
OXY.15: 11 residues within 4Å:- Chain A: H.93, H.95, H.138, H.140, H.434, H.436, H.502, H.504
- Ligands: CU.11, CU.12, CU.13
No protein-ligand interaction detected (PLIP)OXY.26: 11 residues within 4Å:- Chain B: H.93, H.95, H.138, H.140, H.434, H.436, H.502, H.504
- Ligands: CU.22, CU.23, CU.24
No protein-ligand interaction detected (PLIP)- 5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.16: 4 residues within 4Å:- Chain A: N.39, T.41, I.82, N.84
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:I.82
- Hydrogen bonds: A:N.39, A:N.84
NAG.17: 4 residues within 4Å:- Chain A: K.386, Y.391, N.396, S.398
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:K.386, A:Y.391, A:Y.391, A:N.396
NAG.27: 4 residues within 4Å:- Chain B: N.39, T.41, I.82, N.84
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:I.82
- Hydrogen bonds: B:N.84
- Water bridges: B:N.39
NAG.28: 3 residues within 4Å:- Chain B: K.386, Y.391, N.396
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:K.386
- Water bridges: B:N.396
NAG.29: 7 residues within 4Å:- Chain B: L.167, V.169, F.170, N.201, N.216, V.217, L.227
7 PLIP interactions:7 interactions with chain B- Hydrophobic interactions: B:F.170, B:V.217, B:L.227
- Hydrogen bonds: B:V.169, B:N.201
- Water bridges: B:L.167, B:T.218
- 3 x SO4: SULFATE ION(Non-functional Binders)
SO4.18: 2 residues within 4Å:- Chain A: R.128, R.130
4 PLIP interactions:4 interactions with chain A- Water bridges: A:T.27, A:R.130
- Salt bridges: A:R.128, A:R.130
SO4.19: 2 residues within 4Å:- Chain A: R.520, R.527
2 PLIP interactions:2 interactions with chain A- Salt bridges: A:R.520, A:R.527
SO4.30: 2 residues within 4Å:- Chain B: R.128, R.130
2 PLIP interactions:2 interactions with chain B- Salt bridges: B:R.128, B:R.130
- 1 x 3DM: 2,6-dimethoxyphenol(Non-covalent)
- 1 x D2M: 4-(2,6-dimethoxyphenoxy)-2,6-dimethoxyphenol(Non-covalent)
- 1 x KIA: 2,6-dimethoxycyclohexa-2,5-diene-1,4-dione(Covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kallio, J.P. et al., Structure Function Studies of a Melanocarpus albomyces Laccase Suggest a Pathway for Oxidation of Phenolic Compounds. J.Mol.Biol. (2009)
- Release Date
- 2009-09-22
- Peptides
- Laccase-1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.67 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAG- NAG- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 5 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 8 x CU: COPPER (II) ION(Non-covalent)
- 2 x CL: CHLORIDE ION(Non-functional Binders)
- 2 x OXY: OXYGEN MOLECULE(Non-covalent)
- 5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 3 x SO4: SULFATE ION(Non-functional Binders)
- 1 x 3DM: 2,6-dimethoxyphenol(Non-covalent)
- 1 x D2M: 4-(2,6-dimethoxyphenoxy)-2,6-dimethoxyphenol(Non-covalent)
- 1 x KIA: 2,6-dimethoxycyclohexa-2,5-diene-1,4-dione(Covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kallio, J.P. et al., Structure Function Studies of a Melanocarpus albomyces Laccase Suggest a Pathway for Oxidation of Phenolic Compounds. J.Mol.Biol. (2009)
- Release Date
- 2009-09-22
- Peptides
- Laccase-1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B