SMTL ID : 5vf9.1

Native human manganese superoxide dismutase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

homo-tetramer

Ligands

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

MN.1: 4 residues within 4Å: Chain A: H.27, H.75, D.160, H.164 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.1 MN.4: 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.6 MN.6: 4 residues within 4Å: Chain C: H.27, H.75, D.160, H.164 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.27, C:H.75, C:D.160, C:H.164, H2O.12 MN.9: 4 residues within 4Å: Chain D: H.27, H.75, D.160, H.164 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:H.27, D:H.75, D:D.160, D:H.164, H2O.18

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

PO4.2: 4 residues within 4Å: Chain A: K.2, H.3, S.4, H.72 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.4 Water bridges: A:S.4 Salt bridges: A:H.3, A:H.72 PO4.5: 3 residues within 4Å: Chain B: 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 PO4.7: 4 residues within 4Å: Chain C: K.2, H.3, S.4, H.72 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:S.4 Water bridges: C:S.4 Salt bridges: C:H.3, C:H.72 PO4.10: 3 residues within 4Å: Chain D: H.3, S.4, H.72 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.4 Salt bridges: D:H.3, D:H.72

2 x K: POTASSIUM ION(Non-covalent)

K.3: 1 residues within 4Å: Chain A: G.13 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.13, H2O.2 K.8: 1 residues within 4Å: Chain C: G.13 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:G.13, H2O.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Azadmanesh, J. et al., Substrate-analog binding and electrostatic surfaces of human manganese superoxide dismutase. J. Struct. Biol. (2017)

Release Date

2017-05-17

Peptides

Superoxide dismutase [Mn], mitochondrial: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Superoxide dismutase [Mn], mitochondrial

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