SMTL ID : 3vlj.1

Crystal Structure Analysis of the Cyanide Arg409Leu Variant Complexes with o-Dianisidine in KatG from HALOARCULA MARISMORTUI

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 26 residues within 4Å: Chain A: P.88, L.89, I.91, R.92, W.95, V.219, P.221, F.241, L.254, I.255, G.258, H.259, F.261, G.262, K.263, V.264, H.265, T.304, S.305, W.311, L.369, T.371, F.399, W.403 Ligands: DDJ.2, CYN.3 30 PLIP interactions: 30 interactions with chain A, Hydrophobic interactions: A:I.91, A:R.92, A:W.95, A:W.95, A:W.95, A:F.241, A:L.254, A:L.254, A:I.255, A:V.264, A:T.304, A:W.311, A:W.311, A:L.369, A:T.371, A:F.399, A:W.403 Hydrogen bonds: A:K.263, A:H.265, A:S.305 Water bridges: A:D.82, A:D.82, A:R.92, A:N.128, A:H.265 Salt bridges: A:R.92, A:H.265, A:H.265 pi-Stacking: A:W.95 Metal complexes: A:H.259 HEM.4: 27 residues within 4Å: Chain B: P.88, L.89, I.91, R.92, W.95, V.219, P.221, I.237, F.241, L.254, I.255, G.258, H.259, F.261, G.262, K.263, V.264, H.265, T.304, S.305, W.311, L.369, T.371, F.399, W.403 Ligands: DDJ.5, CYN.6 29 PLIP interactions: 29 interactions with chain B, Hydrophobic interactions: B:I.91, B:R.92, B:W.95, B:W.95, B:W.95, B:V.219, B:P.221, B:I.237, B:F.241, B:L.254, B:I.255, B:V.264, B:W.311, B:W.311, B:L.369, B:T.371, B:F.399, B:W.403 Hydrogen bonds: B:K.263, B:H.265, B:S.305 Water bridges: B:R.92, B:N.128, B:H.265 Salt bridges: B:R.92, B:H.265, B:H.265 pi-Stacking: B:W.95 Metal complexes: B:H.259

2 x DDJ: 3,3'-dimethoxybiphenyl-4,4'-diamine(Non-covalent)

DDJ.2: 11 residues within 4Å: Chain A: R.92, P.124, D.125, E.194, L.216, P.221, P.270, E.271, T.304, S.305 Ligands: HEM.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.216, A:P.221, A:P.270 Hydrogen bonds: A:E.271, A:E.271 Water bridges: A:R.92 DDJ.5: 11 residues within 4Å: Chain B: R.92, H.96, P.124, D.125, E.194, P.221, P.270, T.304, S.305 Ligands: HEM.4, CYN.6 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:P.221 Hydrogen bonds: B:R.92, B:H.96 Water bridges: B:I.217, B:E.222

2 x CYN: CYANIDE ION(Non-covalent)

CYN.3: 4 residues within 4Å: Chain A: R.92, W.95, H.96 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) CYN.6: 5 residues within 4Å: Chain B: R.92, W.95, H.96 Ligands: HEM.4, DDJ.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sato, T. et al., Crystal Structures and Peroxidatic Function of Cyanide Arg409Leu Variant and its Complexes with o-Dianisidine in KatG from HALOARCULA MARISMORTUI. To be Published

Release Date

2012-12-05

Peptides

Catalase-peroxidase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Catalase-peroxidase 2

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