SMTL ID : 3x3y.1

Copper amine oxidase from Arthrobacter globiformis anaerobically reduced by histamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

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

CU.1: 4 residues within 4Å: Chain A: Y.374, H.423, H.425, H.584 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.423, A:H.425, A:H.584 CU.11: 4 residues within 4Å: Chain B: Y.374, H.423, H.425, H.584 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.423, B:H.425, B:H.584

11 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: T.513, L.514, L.515, T.530, K.531 Chain B: R.449 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain A Water bridges: B:R.449, B:R.482, B:R.482, A:T.513, A:T.513 Hydrogen bonds: A:T.513, A:K.531, A:K.531 GOL.3: 11 residues within 4Å: Chain A: R.524, R.525, P.545, T.546, F.549, V.550, H.553, S.554, G.555, G.556, A.557 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.524, A:F.549, A:A.557, A:A.557 Water bridges: A:A.527 GOL.4: 7 residues within 4Å: Chain A: E.339, W.341, R.362, K.393 Chain B: D.340, W.341 Ligands: GOL.6 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.362, A:K.393, A:K.393 Water bridges: A:E.339, A:E.339, B:D.340, B:D.340, B:R.359 GOL.5: 6 residues within 4Å: Chain A: N.360, Y.383, D.385, T.387, K.602 Chain B: V.596 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.360, A:D.385, A:K.602, A:K.602 GOL.6: 6 residues within 4Å: Chain A: W.341, R.362, Y.381, E.389, E.391 Ligands: GOL.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.362, A:R.362, A:Y.381, A:Y.381 Water bridges: A:E.389 GOL.7: 6 residues within 4Å: Chain A: F.97, A.127, P.128, G.372 Chain B: L.350, W.351 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Water bridges: A:G.372, B:L.350, B:L.350 GOL.8: 5 residues within 4Å: Chain A: D.153, H.162, V.189, P.190, A.191 No protein-ligand interaction detected (PLIP) GOL.12: 6 residues within 4Å: Chain B: W.341, N.360, Y.383, D.385, T.387, K.602 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:W.341, B:N.360, B:D.385, B:K.602, B:K.602 Water bridges: B:D.385 GOL.13: 5 residues within 4Å: Chain A: L.515, D.517 Chain B: R.449, Q.450, T.451 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.449, B:Q.450 Water bridges: B:Q.450 GOL.14: 6 residues within 4Å: Chain A: D.340, W.341 Chain B: E.339, W.341, R.362, K.393 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:R.362, B:K.393, B:K.393 Water bridges: B:E.339, B:E.339, B:Y.381, B:K.393, A:D.340, A:D.340, A:D.340 GOL.15: 2 residues within 4Å: Chain A: H.509 Chain B: H.509 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.511 Water bridges: A:H.509, A:H.509, A:H.509, B:H.509, B:K.602

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

NA.9: 6 residues within 4Å: Chain A: R.41, D.432, M.433, F.438, D.573, I.574 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.41, A:I.574, A:I.574 NA.16: 6 residues within 4Å: Chain B: R.41, D.432, M.433, F.438, D.573, I.574 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.41, B:D.573, B:D.573, B:I.574

2 x K: POTASSIUM ION(Non-covalent)

K.10: 3 residues within 4Å: Chain A: V.71, T.72, G.74 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:V.71, A:T.72 K.17: 2 residues within 4Å: Chain B: V.71, T.72 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:V.71, H2O.46, H2O.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Murakawa, T. et al., Probing the Catalytic Mechanism of Copper Amine Oxidase from Arthrobacter globiformis with Halide Ions. J.Biol.Chem. (2015)

Release Date

2015-08-19

Peptides

Phenylethylamine oxidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phenylethylamine oxidase

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