SMTL ID : 4iun.1

Crystal structure of Staphylococcal nuclease variant Delta+PHS R126E at cryogenic temperature

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

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

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

THP.2: 13 residues within 4Å: Chain A: D.21, R.35, L.36, L.37, D.40, D.77, K.78, Y.79, R.81, L.83, Y.107 Ligands: CA.1, MPD.4 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:L.83, A:Y.107, A:Y.107 Hydrogen bonds: A:D.21, A:T.22, A:D.77, A:R.81 Water bridges: A:R.35, A:E.43, A:K.78, A:K.78, A:K.78, A:K.78, A:R.81, A:Y.107 Salt bridges: A:R.35, A:K.78, A:R.81

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

PO4.3: 4 residues within 4Å: Chain A: H.8, E.10, Y.27, R.75 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.27, A:Y.27 Water bridges: A:R.75 Salt bridges: A:H.8, A:R.75

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 3 residues within 4Å: Chain A: Y.79, R.81 Ligands: THP.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.79, A:Y.79, A:Y.79 Water bridges: A:R.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bell-Upp, P.C. et al., Crystal structure of Staphylococcal nuclease variant Delta+PHS R126E at cryogenic temperature. To be Published

Release Date

2013-02-06

Peptides

Thermonuclease: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Thermonuclease