- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 4 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: 5 residues within 4Å:- Chain A: N.215, Y.257, S.291, V.292, T.294
No protein-ligand interaction detected (PLIP)NAG-NAG.3: 5 residues within 4Å:- Chain A: N.333, T.335, N.336, F.338, T.343
No protein-ligand interaction detected (PLIP)NAG-NAG.29: 5 residues within 4Å:- Chain B: N.215, Y.257, S.291, V.292, T.294
No protein-ligand interaction detected (PLIP)NAG-NAG.30: 5 residues within 4Å:- Chain B: N.333, T.335, N.336, F.338, T.343
No protein-ligand interaction detected (PLIP)- 2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-BMA.4: 5 residues within 4Å:- Chain A: P.325, N.327, S.383, P.385, N.434
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:P.325
- Water bridges: A:N.327
NAG-NAG-BMA.31: 5 residues within 4Å:- Chain B: P.325, N.327, S.383, P.385, N.434
2 PLIP interactions:2 interactions with chain B- Hydrophobic interactions: B:P.325
- Water bridges: B:N.327
- 8 x CU: COPPER (II) ION(Non-covalent)
CU.5: 5 residues within 4Å:- Chain A: H.395, C.451, I.453, H.456, F.461
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.395, A:C.451, A:H.456
CU.6: 5 residues within 4Å:- Chain A: H.111, H.398, H.400, H.450
- Ligands: PER.9
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.111, A:H.400, A:H.450
CU.7: 7 residues within 4Å:- Chain A: H.64, H.66, W.107, H.109, H.452
- Ligands: CU.8, PER.9
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.66, A:H.109, A:H.452
CU.8: 6 residues within 4Å:- Chain A: H.64, H.66, H.398, H.400
- Ligands: CU.7, PER.9
3 PLIP interactions:2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:H.64, A:H.398, H2O.11
CU.32: 5 residues within 4Å:- Chain B: H.395, C.451, I.453, H.456, F.461
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.395, B:C.451, B:H.456
CU.33: 5 residues within 4Å:- Chain B: H.111, H.398, H.400, H.450
- Ligands: PER.36
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.111, B:H.400, B:H.450
CU.34: 7 residues within 4Å:- Chain B: H.64, H.66, W.107, H.109, H.452
- Ligands: CU.35, PER.36
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.66, B:H.109, B:H.452
CU.35: 6 residues within 4Å:- Chain B: H.64, H.66, H.398, H.400
- Ligands: CU.34, PER.36
3 PLIP interactions:2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:H.64, B:H.398, H2O.38
- 2 x PER: PEROXIDE ION(Non-covalent)
PER.9: 11 residues within 4Å:- Chain A: H.64, H.66, H.109, H.111, H.398, H.400, H.450, H.452
- Ligands: CU.6, CU.7, CU.8
No protein-ligand interaction detected (PLIP)PER.36: 11 residues within 4Å:- Chain B: H.64, H.66, H.109, H.111, H.398, H.400, H.450, H.452
- Ligands: CU.33, CU.34, CU.35
No protein-ligand interaction detected (PLIP)- 2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x AS8: ACETYLSULFATE(Non-covalent)
AS8.11: 7 residues within 4Å:- Chain A: F.162, P.163, D.206, F.265, P.391, G.392, H.456
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:F.162
- Hydrogen bonds: A:D.206
- Salt bridges: A:H.456, A:H.456
AS8.38: 7 residues within 4Å:- Chain B: F.162, P.163, D.206, F.265, P.391, G.392, H.456
4 PLIP interactions:4 interactions with chain B- Hydrophobic interactions: B:F.162
- Hydrogen bonds: B:D.206
- Salt bridges: B:H.456, B:H.456
- 2 x ACT: ACETATE ION(Non-functional Binders)
ACT.12: 5 residues within 4Å:- Chain A: F.69, H.402, A.403, N.442
- Ligands: ZN.19
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:F.69
- Hydrogen bonds: A:A.403, A:N.442
- Salt bridges: A:H.402
ACT.39: 5 residues within 4Å:- Chain B: F.69, H.402, A.403, N.442
- Ligands: ZN.46
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:F.69
- Hydrogen bonds: B:A.403
- Salt bridges: B:H.402
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.13: 4 residues within 4Å:- Chain A: G.193, R.195, D.249, S.251
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.249
- Salt bridges: A:R.195
SO4.14: 4 residues within 4Å:- Chain A: S.376, D.468, D.471
- Ligands: ZN.21
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:S.376, A:S.376
SO4.40: 4 residues within 4Å:- Chain B: G.193, R.195, D.249, S.251
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.249
- Salt bridges: B:R.195
SO4.41: 4 residues within 4Å:- Chain B: S.376, D.468, D.471
- Ligands: ZN.48
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:S.376
- 8 x GOL: GLYCEROL(Non-functional Binders)
GOL.15: 7 residues within 4Å:- Chain A: A.80, H.111, L.112, S.113, P.346, F.448, L.457
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:H.111, A:S.113
GOL.16: 7 residues within 4Å:- Chain A: S.212, I.213, N.215, H.216, D.234, Q.293, T.294
8 PLIP interactions:8 interactions with chain A- Hydrogen bonds: A:H.216, A:H.216, A:T.294, A:T.294
- Water bridges: A:S.212, A:D.214, A:N.215, A:Q.293
GOL.17: 6 residues within 4Å:- Chain A: N.215, H.216, T.217, D.249, S.251, Q.252
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:T.217, A:T.217, A:S.251
- Water bridges: A:S.251
GOL.18: 8 residues within 4Å:- Chain A: Y.127, D.128, P.129, D.131, A.134, Y.137, D.140, R.199
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:D.131, A:Y.137, A:D.140, A:D.140, A:R.199
- Water bridges: A:D.128
GOL.42: 7 residues within 4Å:- Chain B: A.80, H.111, L.112, S.113, P.346, F.448, L.457
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:H.111, B:H.111, B:S.113
GOL.43: 7 residues within 4Å:- Chain B: S.212, I.213, N.215, H.216, D.234, Q.293, T.294
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:H.216, B:H.216, B:T.294, B:T.294
- Water bridges: B:S.212, B:N.215, B:Q.293
GOL.44: 6 residues within 4Å:- Chain B: N.215, H.216, T.217, D.249, S.251, Q.252
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:T.217, B:T.217, B:S.251
- Water bridges: B:S.251
GOL.45: 8 residues within 4Å:- Chain B: Y.127, D.128, P.129, D.131, A.134, Y.137, D.140, R.199
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:D.131, B:D.140, B:R.199
- Water bridges: B:D.128, B:D.131
- 16 x ZN: ZINC ION(Non-covalent)
ZN.19: 5 residues within 4Å:- Chain A: G.401, H.402, E.440, N.442
- Ligands: ACT.12
4 PLIP interactions:1 interactions with chain A, 2 Ligand-Water interactions, 1 Ligand-Ligand interactions- Metal complexes: A:H.402, H2O.5, H2O.6, ACT.12
ZN.20: 1 residues within 4Å:- Chain A: E.23
3 PLIP interactions:1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:E.23, H2O.2, H2O.2
ZN.21: 3 residues within 4Å:- Chain A: D.468, D.471
- Ligands: SO4.14
3 PLIP interactions:2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.468, A:D.471, H2O.18
ZN.22: 2 residues within 4Å:- Chain A: H.342, E.368
5 PLIP interactions:2 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:H.342, A:E.368, H2O.1, H2O.17, H2O.19
ZN.23: 1 residues within 4Å:- Chain A: H.306
5 PLIP interactions:1 interactions with chain A, 4 Ligand-Water interactions- Metal complexes: A:H.306, H2O.9, H2O.19, H2O.19, H2O.22
ZN.24: 1 residues within 4Å:- Chain A: H.91
5 PLIP interactions:1 interactions with chain A, 4 Ligand-Water interactions- Metal complexes: A:H.91, H2O.15, H2O.16, H2O.17, H2O.18
ZN.25: 1 residues within 4Å:- Chain A: H.55
5 PLIP interactions:1 interactions with chain A, 4 Ligand-Water interactions- Metal complexes: A:H.55, H2O.10, H2O.18, H2O.21, H2O.26
ZN.26: 1 residues within 4Å:- Chain A: D.418
4 PLIP interactions:1 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:D.418, H2O.16, H2O.18, H2O.19
ZN.46: 5 residues within 4Å:- Chain B: G.401, H.402, E.440, N.442
- Ligands: ACT.39
4 PLIP interactions:1 interactions with chain B, 2 Ligand-Water interactions, 1 Ligand-Ligand interactions- Metal complexes: B:H.402, H2O.32, H2O.33, ACT.39
ZN.47: 1 residues within 4Å:- Chain B: E.23
3 PLIP interactions:1 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:E.23, H2O.29, H2O.29
ZN.48: 3 residues within 4Å:- Chain B: D.468, D.471
- Ligands: SO4.41
3 PLIP interactions:2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.468, B:D.471, H2O.46
ZN.49: 2 residues within 4Å:- Chain B: H.342, E.368
5 PLIP interactions:2 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:H.342, B:E.368, H2O.29, H2O.45, H2O.46
ZN.50: 1 residues within 4Å:- Chain B: H.306
5 PLIP interactions:1 interactions with chain B, 4 Ligand-Water interactions- Metal complexes: B:H.306, H2O.36, H2O.46, H2O.47, H2O.49
ZN.51: 1 residues within 4Å:- Chain B: H.91
5 PLIP interactions:1 interactions with chain B, 4 Ligand-Water interactions- Metal complexes: B:H.91, H2O.43, H2O.44, H2O.45, H2O.46
ZN.52: 1 residues within 4Å:- Chain B: H.55
5 PLIP interactions:1 interactions with chain B, 4 Ligand-Water interactions- Metal complexes: B:H.55, H2O.37, H2O.45, H2O.48, H2O.53
ZN.53: 1 residues within 4Å:- Chain B: D.418
4 PLIP interactions:1 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:D.418, H2O.43, H2O.46, H2O.47
- 2 x NA: SODIUM ION(Non-functional Binders)
NA.27: 4 residues within 4Å:- Chain A: N.331, F.332, N.389
- Chain B: G.266
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.331, A:N.389
NA.54: 4 residues within 4Å:- Chain A: G.266
- Chain B: N.331, F.332, N.389
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:N.331, A:G.266
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Piontek, K. et al., Substrate Binding and Copper Geometry in Laccases. To be Published
- Release Date
- 2011-11-30
- Peptides
- LACCASE: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 4 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- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 8 x CU: COPPER (II) ION(Non-covalent)
- 2 x PER: PEROXIDE ION(Non-covalent)
- 2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x AS8: ACETYLSULFATE(Non-covalent)
- 2 x ACT: ACETATE ION(Non-functional Binders)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- 8 x GOL: GLYCEROL(Non-functional Binders)
- 16 x ZN: ZINC ION(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Piontek, K. et al., Substrate Binding and Copper Geometry in Laccases. To be Published
- Release Date
- 2011-11-30
- Peptides
- LACCASE: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A