SMTL ID : 4e4z.1

Oxidized (Cu2+) peptidylglycine alpha-hydroxylating monooxygenase (PHM) in complex with hydrogen peroxide (1.98 A)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

monomer

Ligands

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

CU.1: 3 residues within 4Å: Chain A: H.63, H.64, H.128 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.63, A:H.64, A:H.128 CU.2: 4 residues within 4Å: Chain A: H.198, H.200, M.270 Ligands: PEO.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.198, A:H.200, H2O.2

1 x NI: NICKEL (II) ION(Non-covalent)

NI.3: 1 residues within 4Å: Chain A: H.191 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.191, H2O.2

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

PEO.4: 5 residues within 4Å: Chain A: E.84, H.198, H.200, M.270 Ligands: CU.2 No protein-ligand interaction detected (PLIP)

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 9 residues within 4Å: Chain A: F.53, L.94, Y.95, T.104, R.105, L.106, A.194, F.230, M.276 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.94 Water bridges: A:A.96, A:T.104, A:T.104, A:T.104 GOL.6: 8 residues within 4Å: Chain A: Y.161, C.183, Q.184, Y.185, K.186, M.187, M.288, T.289 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.184, A:K.186, A:T.289 GOL.7: 7 residues within 4Å: Chain A: Q.184, V.211, R.212, N.213, G.214, G.242, I.244 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.184, A:N.213, A:G.214, A:G.242 GOL.8: 10 residues within 4Å: Chain A: G.69, N.92, L.94, F.112, R.113, V.114, G.119, S.120, S.286, F.287 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.69, A:G.69, A:N.92, A:S.120, A:S.120, A:S.286, A:S.286 Water bridges: A:R.113

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rudzka, K. et al., Coordination of peroxide to the Cu(M) center of peptidylglycine alpha-hydroxylating monooxygenase (PHM): structural and computational study. J.Biol.Inorg.Chem. (2013)

Release Date

2013-01-23

Peptides

Peptidyl-glycine alpha-amidating monooxygenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptidyl-glycine alpha-amidating monooxygenase

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