SMTL ID : 2xuw.1

Crystal Structure of Apolaccase from Thermus thermophilus HB27

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

18 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 12 residues within 4Å: Chain A: L.221, A.224, D.225, L.238, L.239, L.240, E.244, R.245, A.246, Y.391, K.395 Ligands: MPD.8 Ligand excluded by PLIP MPD.3: 2 residues within 4Å: Chain A: R.257, Y.294 Ligand excluded by PLIP MPD.5: 9 residues within 4Å: Chain A: P.319, V.320, V.321, T.322 Chain B: P.319, V.320, V.321, T.322 Ligands: MPD.21 Ligand excluded by PLIP MPD.8: 7 residues within 4Å: Chain A: L.233, V.235, E.237, L.238, P.390, Y.391 Ligands: MPD.1 Ligand excluded by PLIP MPD.9: 5 residues within 4Å: Chain A: E.104, L.105, S.135, F.228, S.311 Ligand excluded by PLIP MPD.10: 3 residues within 4Å: Chain A: K.8, G.41, P.47 Ligand excluded by PLIP MPD.12: 5 residues within 4Å: Chain A: P.121, P.165, H.166, W.171 Ligands: MRD.7 Ligand excluded by PLIP MPD.13: 5 residues within 4Å: Chain A: I.78, F.99, T.100, P.102 Ligands: MPD.16 Ligand excluded by PLIP MPD.16: 5 residues within 4Å: Chain A: S.79, K.81, V.82, E.414 Ligands: MPD.13 Ligand excluded by PLIP MPD.17: 12 residues within 4Å: Chain B: L.221, A.224, D.225, L.238, L.239, L.240, E.244, R.245, A.246, Y.391, K.395 Ligands: MPD.24 Ligand excluded by PLIP MPD.19: 2 residues within 4Å: Chain B: R.257, Y.294 Ligand excluded by PLIP MPD.21: 9 residues within 4Å: Chain A: P.319, V.320, V.321, T.322 Chain B: P.319, V.320, V.321, T.322 Ligands: MPD.5 Ligand excluded by PLIP MPD.24: 7 residues within 4Å: Chain B: L.233, V.235, E.237, L.238, P.390, Y.391 Ligands: MPD.17 Ligand excluded by PLIP MPD.25: 5 residues within 4Å: Chain B: E.104, L.105, S.135, F.228, S.311 Ligand excluded by PLIP MPD.26: 3 residues within 4Å: Chain B: K.8, G.41, P.47 Ligand excluded by PLIP MPD.28: 5 residues within 4Å: Chain B: P.121, P.165, H.166, W.171 Ligands: MRD.23 Ligand excluded by PLIP MPD.29: 5 residues within 4Å: Chain B: I.78, F.99, T.100, P.102 Ligands: MPD.32 Ligand excluded by PLIP MPD.32: 5 residues within 4Å: Chain B: S.79, K.81, V.82, E.414 Ligands: MPD.29 Ligand excluded by PLIP

14 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.2: 5 residues within 4Å: Chain A: E.104, L.316, W.394, P.411, R.413 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.104, A:L.316, A:P.411 Water bridges: A:E.104 MRD.4: 7 residues within 4Å: Chain A: P.168, M.169, M.272, M.331, M.332, A.334 Ligands: MRD.11 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.334 MRD.6: 2 residues within 4Å: Chain A: N.339, Q.341 No protein-ligand interaction detected (PLIP) MRD.7: 5 residues within 4Å: Chain A: G.117, W.171, D.429, R.430 Ligands: MPD.12 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.171, A:W.171, A:D.429 Hydrogen bonds: A:R.430 Water bridges: A:R.335, A:D.429 MRD.11: 6 residues within 4Å: Chain A: P.168, W.171, M.332, A.333, R.430 Ligands: MRD.4 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.168, A:W.171 Hydrogen bonds: A:M.332 Water bridges: A:R.430 MRD.14: 8 residues within 4Å: Chain A: P.85, F.86, H.114, L.115, H.116, F.343, H.345, M.433 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.343 Water bridges: A:E.88, A:E.88, A:H.345 MRD.15: 3 residues within 4Å: Chain A: P.218, E.234, S.236 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.218 Hydrogen bonds: A:E.234 MRD.18: 5 residues within 4Å: Chain B: E.104, L.316, W.394, P.411, R.413 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:E.104, B:L.316, B:P.411 MRD.20: 7 residues within 4Å: Chain B: P.168, M.169, M.272, M.331, M.332, A.334 Ligands: MRD.27 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:A.334 MRD.22: 2 residues within 4Å: Chain B: N.339, Q.341 No protein-ligand interaction detected (PLIP) MRD.23: 5 residues within 4Å: Chain B: G.117, W.171, D.429, R.430 Ligands: MPD.28 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:W.171, B:W.171, B:D.429 Hydrogen bonds: B:R.430 Water bridges: B:R.335, B:D.429 MRD.27: 6 residues within 4Å: Chain B: P.168, W.171, M.332, A.333, R.430 Ligands: MRD.20 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:P.168, B:W.171 Hydrogen bonds: B:M.332 Water bridges: B:R.430 MRD.30: 8 residues within 4Å: Chain B: P.85, F.86, H.114, L.115, H.116, F.343, H.345, M.433 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.343 Water bridges: B:E.88, B:H.345 MRD.31: 3 residues within 4Å: Chain B: P.218, E.234, S.236 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:P.218

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Serrano-Posada, H. et al., X-Ray-Induced Catalytic Active-Site Reduction of a Multicopper Oxidase: Structural Insights Into the Proton-Relay Mechanism and O2-Reduction States. Acta Crystallogr.,Sect.D (2015)

Release Date

2011-10-26

Peptides

LACCASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

LACCASE

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