SMTL ID : 7ypp.1 (2 other biounits)

Structural basis of a superoxide dismutase from a tardigrade, Ramazzottius varieornatus strain YOKOZUNA-1.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x CU: COPPER (II) ION(Non-covalent)

CU.1: 3 residues within 4Å: Chain A: H.85, H.104, H.162 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.85, A:H.104, A:H.162 CU.4: 3 residues within 4Å: Chain B: H.85, H.104, H.162 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.85, B:H.104, B:H.162, H2O.6

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.104, H.112, H.121, D.124 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.104, A:H.112, A:H.121, A:D.124, A:D.124 ZN.5: 4 residues within 4Å: Chain B: H.104, H.112, H.121, D.124 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:H.104, B:H.112, B:H.121, B:D.124, B:D.124

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 1 residues within 4Å: Chain A: T.143 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.143, H2O.2, H2O.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sim, K.S. et al., Structure of a superoxide dismutase from a tardigrade: Ramazzottius varieornatus strain YOKOZUNA-1. Acta Crystallogr.,Sect.F (2023)

Release Date

2023-07-26

Peptides

Superoxide dismutase [Cu-Zn]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Superoxide dismutase [Cu-Zn]

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