SMTL ID : 5jx9.1

Crystal structure of laccase from Thermus thermophilus HB27 (Cu(II)-cyclophanes, 5 min)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

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

CU.1: 5 residues within 4Å: Chain A: H.72, H.114, H.373, H.375, H.421 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.114, A:H.375, A:H.421 CU.2: 5 residues within 4Å: Chain A: H.72, H.74, W.110, H.112, H.423 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.74, A:H.112, A:H.423 CU.3: 5 residues within 4Å: Chain A: H.370, C.422, I.424, H.427, M.432 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.370, A:C.422, A:H.427

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

MPD.4: 3 residues within 4Å: Chain A: N.339, G.340, Q.341 No protein-ligand interaction detected (PLIP) MPD.5: 11 residues within 4Å: Chain A: L.221, A.224, D.225, L.239, L.240, E.244, R.245, A.246, Y.391, K.395 Ligands: MPD.12 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.221, A:A.224, A:L.240, A:A.246, A:K.395 Hydrogen bonds: A:D.225, A:R.245, A:Y.391, A:K.395 MPD.6: 6 residues within 4Å: Chain A: G.117, W.171, D.429, R.430 Ligands: MPD.11, MPD.16 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.171, A:D.429 Hydrogen bonds: A:R.430 Water bridges: A:R.335 MPD.7: 6 residues within 4Å: Chain A: E.104, L.105, A.106, S.136, F.228, S.311 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.136, A:S.311 MPD.8: 5 residues within 4Å: Chain A: E.104, P.314, L.316, P.411, R.413 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:P.314, A:L.316, A:P.411 Hydrogen bonds: A:W.394, A:R.413 Water bridges: A:E.104, A:R.413 MPD.9: 6 residues within 4Å: Chain A: P.168, M.169, M.272, M.332, A.334 Ligands: MPD.11 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.334 Water bridges: A:M.169 MPD.10: 4 residues within 4Å: Chain A: K.8, V.10, G.41, P.47 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:K.8 MPD.11: 6 residues within 4Å: Chain A: P.168, W.171, A.334, R.430 Ligands: MPD.6, MPD.9 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.168, A:W.171, A:A.334 MPD.12: 6 residues within 4Å: Chain A: L.233, V.235, E.237, L.238, P.390 Ligands: MPD.5 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.233, A:L.238, A:P.390 Water bridges: A:E.237 MPD.13: 2 residues within 4Å: Chain A: K.415, V.438 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.437 MPD.14: 3 residues within 4Å: Chain A: P.218, E.234, S.236 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.218 MPD.15: 4 residues within 4Å: Chain A: P.319, V.320, V.321, T.322 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.319 Hydrogen bonds: A:V.320, A:T.322 MPD.16: 5 residues within 4Å: Chain A: P.121, P.165, H.166, W.171 Ligands: MPD.6 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.121, A:P.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Diaz-Vilchis, A. et al., Preserving metallic sites affected by radiation damage: the CuT2 case in Thermus thermophilus multicopper oxidase. To be Published

Release Date

2017-06-07

Peptides

Laccase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Laccase

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