SMTL ID : 9bwq.1

X-ray Counterpart to the Neutron Structure of Peroxide-Soaked Tyr34Phe MnSOD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: H.27, H.75, D.160, H.164 Ligands: PEO.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.27, A:H.75, A:D.160, A:H.164, H2O.4 MN.6: 4 residues within 4Å: Chain B: H.27, H.75, D.160, H.164 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.27, B:H.75, B:D.160, B:H.164, H2O.15

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

PEO.2: 7 residues within 4Å: Chain A: H.75, W.124, Q.144, D.160, W.162, H.164 Ligands: MN.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.144, A:D.160, A:W.162

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

PO4.3: 3 residues within 4Å: Chain A: H.3, S.4, H.72 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.2, A:S.4 Water bridges: A:S.4, A:S.76 Salt bridges: A:H.3, A:H.72 PO4.4: 1 residues within 4Å: Chain A: K.107 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.107 PO4.7: 4 residues within 4Å: Chain B: M.1, H.3, S.4, H.72 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.4 Salt bridges: B:H.3, B:H.72

1 x K: POTASSIUM ION(Non-covalent)

K.5: 1 residues within 4Å: Chain A: G.13 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Azadmanesh, J. et al., The role of Tyr34 in proton coupled electron transfer and product inhibition of manganese superoxide dismutase. Nat Commun (2025)

Release Date

2025-03-12

Peptides

Superoxide dismutase [Mn], mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Superoxide dismutase [Mn], mitochondrial

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