SMTL ID : 3k3u.1 (1 other biounit)

The V59W mutation blocks the distal pocket of the hemoglobin dehaloperoxidase from Amphitrite ornata

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.63 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 19 residues within 4Å: Chain A: F.24, E.31, Y.34, F.35, Y.38, H.55, K.58, W.59, L.62, M.63, L.83, M.86, Q.88, H.89, L.92, N.96, F.97, L.100, L.127 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:F.24, A:F.35, A:F.35, A:H.55, A:W.59, A:W.59, A:L.62, A:L.62, A:M.63, A:L.83, A:Q.88, A:L.92, A:L.92, A:N.96, A:F.97, A:L.127 Hydrogen bonds: A:Y.38 Salt bridges: A:H.55, A:H.55, A:K.58 pi-Stacking: A:W.59, A:W.59 Metal complexes: A:H.89 HEM.6: 18 residues within 4Å: Chain B: F.24, E.31, Y.34, F.35, H.55, K.58, W.59, L.62, M.63, L.83, M.86, Q.88, H.89, L.92, N.96, F.97, L.100, L.127 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:F.24, B:F.35, B:F.35, B:W.59, B:L.62, B:M.63, B:L.83, B:Q.88, B:L.92, B:L.92, B:N.96, B:F.97, B:L.100, B:L.127 Hydrogen bonds: B:Q.88 Water bridges: B:K.36 Salt bridges: B:H.55, B:H.55, B:K.58 Metal complexes: B:H.89

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: G.1, F.2, K.3, D.116 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.2, A:K.3 Water bridges: A:Q.4, A:S.119 SO4.3: 4 residues within 4Å: Chain A: K.27, Y.28, P.29, D.30 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.27, A:D.30, A:D.30, A:D.30 SO4.4: 3 residues within 4Å: Chain A: R.32, V.39, G.40 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.40 Water bridges: A:P.29 Salt bridges: A:R.32 SO4.5: 2 residues within 4Å: Chain A: R.109, Q.118 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.118 Water bridges: A:Q.118 Salt bridges: A:R.109 SO4.7: 5 residues within 4Å: Chain B: E.31, R.33, Y.34, N.96, K.99 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:E.31, B:Y.34, B:N.96 Water bridges: B:Y.34, B:Y.34 Salt bridges: B:R.33, B:K.99 SO4.8: 4 residues within 4Å: Chain B: K.36, N.37, Y.38, V.39 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.37, B:Y.38, B:V.39 Water bridges: B:N.37, B:V.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Davis, M.F. et al., The V59W mutation blocks the distal pocket of the hemoglobin dehaloperoxidase from Amphitrite ornata. To be Published

Release Date

2010-11-03

Peptides

Dehaloperoxidase A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dehaloperoxidase A

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