SMTL ID : 9c11.1

Crystal structure of Staphylococcal nuclease variant Delta+PHS L36R at cryogenic temperature

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x THP: THYMIDINE-3',5'-DIPHOSPHATE(Non-covalent)

THP.1: 10 residues within 4Å: Chain A: R.35, R.36, L.37, D.40, D.77, K.78, Y.79, R.81, L.83, Y.107 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:R.35, A:L.83, A:Y.107, A:Y.107, A:Y.107 Hydrogen bonds: A:D.40, A:R.81 Water bridges: A:D.21, A:R.35, A:R.35, A:K.78, A:K.78, A:K.78, A:Y.79, A:R.81, A:R.81 Salt bridges: A:R.35, A:K.78, A:R.81 THP.2: 11 residues within 4Å: Chain B: R.35, R.36, L.37, D.40, D.77, K.78, Y.79, R.81, L.83, Y.107 Ligands: CA.3 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:R.35, B:L.83, B:Y.107, B:Y.107, B:Y.107 Hydrogen bonds: B:D.40, B:Y.79 Water bridges: B:Y.107 Salt bridges: B:R.35, B:K.78, B:R.81

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain B: D.21, D.40, T.41, E.43 Ligands: THP.2 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.21, B:D.40, B:T.41, B:E.43, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Y. et al., Domain-swapping promoted by the introduction of a charge in the hydrophobic interior of a protein. To Be Published

Release Date

2024-06-19

Peptides

Nuclease A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nuclease A