- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.15 Å
- Oligo State
- homo-trimer
- Ligands
- 5 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)
- 12 x CU: COPPER (II) ION(Non-covalent)
CU.6: 5 residues within 4Å:- Chain A: H.397, C.453, I.455, H.458, F.463
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.397, A:C.453, A:H.458
CU.7: 8 residues within 4Å:- Chain A: H.65, H.67, H.110, H.400, H.454
- Ligands: CU.8, CU.9, OXY.14
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:H.67, A:H.110, A:H.454, H2O.12
CU.8: 7 residues within 4Å:- Chain A: H.112, H.400, H.402, H.452
- Ligands: CU.7, CU.9, OXY.14
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:H.112, A:H.402, A:H.452, H2O.12
CU.9: 8 residues within 4Å:- Chain A: H.65, H.67, G.68, H.400, H.402
- Ligands: CU.7, CU.8, OXY.14
4 PLIP interactions:2 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:H.65, A:H.400, H2O.12, H2O.18
CU.15: 5 residues within 4Å:- Chain B: H.397, C.453, I.455, H.458, F.463
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:C.453, B:H.458
CU.16: 8 residues within 4Å:- Chain B: H.65, H.67, H.110, H.400, H.454
- Ligands: CU.17, CU.18, OXY.26
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:H.67, B:H.110, B:H.454, H2O.28
CU.17: 6 residues within 4Å:- Chain B: H.112, H.400, H.402, H.452
- Ligands: CU.16, OXY.26
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:H.112, B:H.402, B:H.452, H2O.28
CU.18: 7 residues within 4Å:- Chain B: H.65, H.67, G.68, H.400, H.402
- Ligands: CU.16, OXY.26
4 PLIP interactions:2 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:H.65, B:H.400, H2O.28, H2O.35
CU.27: 5 residues within 4Å:- Chain C: H.397, C.453, I.455, H.458, F.463
3 PLIP interactions:3 interactions with chain C- Metal complexes: C:H.397, C:C.453, C:H.458
CU.28: 8 residues within 4Å:- Chain C: H.65, H.67, H.110, H.400, H.454
- Ligands: CU.29, CU.30, OXY.36
3 PLIP interactions:3 interactions with chain C- Metal complexes: C:H.67, C:H.110, C:H.454
CU.29: 6 residues within 4Å:- Chain C: H.112, H.400, H.402, H.452
- Ligands: CU.28, OXY.36
3 PLIP interactions:3 interactions with chain C- Metal complexes: C:H.112, C:H.402, C:H.452
CU.30: 7 residues within 4Å:- Chain C: H.65, H.67, G.68, H.400, H.402
- Ligands: CU.28, OXY.36
3 PLIP interactions:2 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:H.65, C:H.400, H2O.51
- 7 x SO4: SULFATE ION(Non-functional Binders)
SO4.10: 3 residues within 4Å:- Chain A: G.258, N.259, T.288
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.259, A:N.259
SO4.11: 1 residues within 4Å:- Chain A: R.263
5 PLIP interactions:5 interactions with chain A- Water bridges: A:W.261, A:W.261, A:F.273, A:F.273
- Salt bridges: A:R.263
SO4.12: 4 residues within 4Å:- Chain A: T.365, A.366, A.367, S.377
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:A.366, A:A.367, A:S.377
- Water bridges: A:S.377, A:S.377
SO4.19: 6 residues within 4Å:- Chain A: D.15, V.17
- Chain B: D.15, V.17
- Chain C: V.17
- Ligands: GOL.25
5 PLIP interactions:2 interactions with chain B, 1 interactions with chain A, 2 interactions with chain C- Water bridges: B:V.17, B:V.17, A:V.17, C:V.17, C:V.17
SO4.20: 4 residues within 4Å:- Chain B: T.365, A.366, A.367, S.377
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:A.366, B:A.367, B:S.377
SO4.31: 6 residues within 4Å:- Chain A: A.14, D.15
- Chain B: A.14, D.15
- Chain C: A.14, D.15
6 PLIP interactions:3 interactions with chain A, 1 interactions with chain B, 2 interactions with chain C- Hydrogen bonds: A:D.15, A:D.15, B:D.15, C:D.15
- Water bridges: A:N.13, C:N.13
SO4.32: 3 residues within 4Å:- Chain C: A.366, A.367, S.377
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:S.377
- Water bridges: C:A.366
- 8 x GOL: GLYCEROL(Non-functional Binders)
GOL.13: 8 residues within 4Å:- Chain A: A.81, H.112, L.113, T.114, F.348, P.350, F.450, L.459
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:H.112, A:T.114
GOL.21: 7 residues within 4Å:- Chain B: F.70, Q.71, K.72, N.99, V.100, P.101, M.103
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:K.72
- Water bridges: B:Q.71, B:K.72, B:N.99
GOL.22: 6 residues within 4Å:- Chain B: H.180, V.181, N.182, V.183
- Chain C: T.192, D.285
7 PLIP interactions:3 interactions with chain C, 4 interactions with chain B- Hydrogen bonds: C:T.192, C:D.285, B:N.182, B:N.182, B:V.183
- Water bridges: C:T.192, B:V.183
GOL.23: 7 residues within 4Å:- Chain B: A.81, H.112, L.113, T.114, P.350, F.450, L.459
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:H.112, B:T.114
GOL.24: 7 residues within 4Å:- Chain A: G.20, F.21, N.182, A.184
- Chain B: D.174, S.189, V.190
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:D.174, B:V.190, A:N.182
- Water bridges: B:D.174
GOL.25: 10 residues within 4Å:- Chain A: V.17, G.20
- Chain B: V.17, P.18, G.20, L.176, V.186, P.187
- Ligands: SO4.19, GOL.33
6 PLIP interactions:1 interactions with chain A, 5 interactions with chain B- Hydrogen bonds: A:V.17, B:V.17, B:G.20
- Water bridges: B:V.17, B:P.18, B:V.186
GOL.33: 7 residues within 4Å:- Chain A: V.17, P.18, L.176
- Chain C: V.17, G.20, V.22
- Ligands: GOL.25
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:V.17, C:V.22
- Water bridges: A:V.17, A:G.175
GOL.34: 6 residues within 4Å:- Chain A: T.192, D.285
- Chain C: H.180, V.181, N.182, V.183
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:N.182, C:N.182, C:V.183
- Water bridges: C:V.183, C:D.274
- 3 x OXY: OXYGEN MOLECULE(Non-covalent)
OXY.14: 9 residues within 4Å:- Chain A: H.67, H.110, H.112, H.400, H.452, H.454
- Ligands: CU.7, CU.8, CU.9
No protein-ligand interaction detected (PLIP)OXY.26: 10 residues within 4Å:- Chain B: H.67, H.110, H.112, H.400, H.402, H.452, H.454
- Ligands: CU.16, CU.17, CU.18
No protein-ligand interaction detected (PLIP)OXY.36: 11 residues within 4Å:- Chain C: H.65, H.67, H.110, H.112, H.400, H.402, H.452, H.454
- Ligands: CU.28, CU.29, CU.30
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:H.67
- 1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ferraroni, M. et al., Reaction intermediates and redox state changes in a blue laccase from Steccherinum ochraceum observed by crystallographic high/low X-ray dose experiments. J.Inorg.Biochem. (2012)
- Release Date
- 2012-04-18
- Peptides
- Laccase: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.15 Å
- Oligo State
- homo-trimer
- Ligands
- 5 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)
- 12 x CU: COPPER (II) ION(Non-covalent)
- 7 x SO4: SULFATE ION(Non-functional Binders)
- 8 x GOL: GLYCEROL(Non-functional Binders)
- 3 x OXY: OXYGEN MOLECULE(Non-covalent)
- 1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ferraroni, M. et al., Reaction intermediates and redox state changes in a blue laccase from Steccherinum ochraceum observed by crystallographic high/low X-ray dose experiments. J.Inorg.Biochem. (2012)
- Release Date
- 2012-04-18
- Peptides
- Laccase: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C