SMTL ID : 1asp.1 (1 other biounit)

X-RAY STRUCTURES AND MECHANISTIC IMPLICATIONS OF THREE FUNCTIONAL DERIVATIVES OF ASCORBATE OXIDASE FROM ZUCCHINI: REDUCED-, PEROXIDE-, AND AZIDE-FORMS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: W.71, F.90, N.92, P.532 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.71, A:P.532 Hydrogen bonds: A:N.92 NAG.9: 5 residues within 4Å: Chain B: V.45, W.71, F.90, N.92, P.532 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:W.71, B:P.532 Hydrogen bonds: B:N.92

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

CU.2: 4 residues within 4Å: Chain A: H.445, C.507, H.512, M.517 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.445, A:C.507, A:H.512 CU.3: 4 residues within 4Å: Chain A: H.106, H.450, H.506 Ligands: PEO.8 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.106, A:H.450, A:H.506 CU.4: 5 residues within 4Å: Chain A: H.62, H.104, H.508 Ligands: CU.5, PEO.8 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.62, A:H.104, A:H.508 CU.5: 6 residues within 4Å: Chain A: H.60, H.62, H.448, H.450 Ligands: CU.4, OH.6 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.60, A:H.448, OH.6 CU.7: 2 residues within 4Å: Chain A: H.286 Chain B: H.286 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Metal complexes: A:H.286, B:H.286 CU.10: 4 residues within 4Å: Chain B: H.445, C.507, H.512, M.517 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.445, B:C.507, B:H.512 CU.11: 4 residues within 4Å: Chain B: H.106, H.450, H.506 Ligands: PEO.15 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.106, B:H.450, B:H.506 CU.12: 6 residues within 4Å: Chain B: H.62, H.104, H.448, H.508 Ligands: CU.13, PEO.15 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.62, B:H.104, B:H.508 CU.13: 6 residues within 4Å: Chain B: H.60, H.62, H.448, H.450 Ligands: CU.12, OH.14 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:H.60, B:H.448, OH.14

2 x OH: HYDROXIDE ION(Non-covalent)

OH.6: 7 residues within 4Å: Chain A: H.60, W.61, H.62, G.63, H.448, H.450 Ligands: CU.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.63 Water bridges: A:I.64, A:G.451, A:G.451 OH.14: 6 residues within 4Å: Chain B: H.60, W.61, H.62, G.63, H.448 Ligands: CU.13 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.63, B:L.449 Water bridges: B:G.451, B:G.451

2 x PEO: HYDROGEN PEROXIDE(Non-functional Binders)

PEO.8: 7 residues within 4Å: Chain A: H.104, H.106, H.450, H.506, H.508 Ligands: CU.3, CU.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.508 PEO.15: 7 residues within 4Å: Chain B: H.104, H.106, H.450, H.506, H.508 Ligands: CU.11, CU.12 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.508 Water bridges: B:R.111

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Messerschmidt, A. et al., X-ray structures and mechanistic implications of three functional derivatives of ascorbate oxidase from zucchini. Reduced, peroxide and azide forms. J.Mol.Biol. (1993)

Release Date

1994-01-31

Peptides

ASCORBATE OXIDASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ASCORBATE OXIDASE

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