SMTL ID : 5mia.1

The study of the X-ray induced enzymatic reduction of molecular oxygen to water for laccase from Steccherinum murashkinskyi.The 11-th structure of the series with total exposition time 303 min.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

monomer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 7 residues within 4Å: Chain A: R.342, G.343, V.350, E.404, A.406, P.408, N.455 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 6 residues within 4Å: Chain A: V.324, T.326, N.433, T.435, P.436, N.437 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.440

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

CU.3: 9 residues within 4Å: Chain A: H.84, H.129, H.131, H.419, H.421, F.469, H.471 Ligands: CU.5, OXY.7 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.131, A:H.421, A:H.471, H2O.1, H2O.1 CU.4: 9 residues within 4Å: Chain A: H.84, H.86, W.127, H.129, A.263, H.419, H.473 Ligands: CU.5, OXY.7 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.86, A:H.129, A:H.473, H2O.1, H2O.1 CU.5: 8 residues within 4Å: Chain A: H.84, H.86, G.87, H.419, H.421 Ligands: CU.3, CU.4, OXY.7 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.84, A:H.419, H2O.1, H2O.14, H2O.16 CU.6: 6 residues within 4Å: Chain A: H.416, P.417, C.472, I.474, H.477, F.482 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.416, A:C.472, A:H.477

2 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.7: 12 residues within 4Å: Chain A: H.84, H.86, H.129, H.131, H.419, H.421, H.471, H.473 Ligands: CU.3, CU.4, CU.5, OXY.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.131 OXY.8: 9 residues within 4Å: Chain A: H.129, S.130, H.131, Y.136, H.471, H.473, D.475, L.478 Ligands: OXY.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.129 Water bridges: A:H.131, A:H.471

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.9: 3 residues within 4Å: Chain A: T.312, T.313, T.314 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.312, A:T.312, A:T.312, A:T.314 Water bridges: A:T.314

1 x NA: SODIUM ION(Non-functional Binders)

NA.10: 1 residues within 4Å: Chain A: V.336 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.336, A:V.336

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Polyakov, K.M. et al., Structural study of the X-ray-induced enzymatic reduction of molecular oxygen to water by Steccherinum murashkinskyi laccase: insights into the reaction mechanism. Acta Crystallogr D Struct Biol (2017)

Release Date

2017-05-10

Peptides

Laccase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Laccase 2

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