SMTL ID : 3e4w.1 (1 other biounit)

Crystal structure of a 33kDa catalase-related protein from Mycobacterium avium subsp. paratuberculosis. P2(1)2(1)2(1) crystal form.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

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

HEM.1: 24 residues within 4Å: Chain A: R.32, A.33, L.34, H.35, R.70, S.105, A.106, Q.107, L.112, F.120, H.170, G.171, L.172, V.276, F.277, V.293, F.296, R.297, V.300, Y.301, S.304, V.305, R.308 Ligands: HEZ.2 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:R.32, A:A.33, A:L.34, A:L.34, A:Q.107, A:L.112, A:F.120, A:F.120, A:L.172, A:V.293, A:F.296, A:R.297, A:V.300 Hydrogen bonds: A:S.72 Water bridges: A:R.32, A:F.277 Salt bridges: A:R.32, A:R.32, A:R.70, A:R.308 pi-Stacking: A:H.35 pi-Cation interactions: A:R.297 Metal complexes: A:Y.301

3 x HEZ: HEXANE-1,6-DIOL(Non-covalent)

HEZ.2: 11 residues within 4Å: Chain A: H.35, G.74, Q.107, A.109, L.111, L.112, V.113, F.120, L.172 Ligands: HEM.1, HEZ.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.109, A:F.120, A:F.120 Hydrogen bonds: A:L.111, A:V.113 HEZ.3: 7 residues within 4Å: Chain A: R.110, E.168, H.190, V.192, R.231, Q.233, I.253 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.231, A:R.231 HEZ.4: 11 residues within 4Å: Chain A: A.109, L.111, L.112, V.113, R.146, L.147, A.150, L.153, L.154, S.245 Ligands: HEZ.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.111, A:A.150, A:L.153 Hydrogen bonds: A:R.146, A:R.146

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 6 residues within 4Å: Chain A: S.114, S.115, T.116, G.119, H.144 Ligands: PO4.6 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.114, A:S.114, A:S.115, A:T.116 Salt bridges: A:H.144 PO4.6: 6 residues within 4Å: Chain A: T.143, H.144, P.145, R.146, L.147 Ligands: PO4.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.146, A:L.147 Salt bridges: A:R.146 PO4.7: 3 residues within 4Å: Chain A: E.269, H.270, G.271 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.269, A:G.271 Salt bridges: A:H.270

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pakhomova, S. et al., The structure and peroxidase activity of a 33-kDa catalase-related protein from Mycobacterium avium ssp. paratuberculosis. Protein Sci. (2009)

Release Date

2009-08-18

Peptides

Putative uncharacterized protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Putative uncharacterized protein

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