SMTL ID : 1tt2.1

Cryogenic crystal structure of Staphylococcal nuclease variant truncated Delta+PHS I92K

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.21, R.35, D.40, T.41 Ligands: THP.4 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.1

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 5 residues within 4Å: Chain A: G.73, Q.74, Y.109, K.110, N.112 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.74 DMS.3: 3 residues within 4Å: Chain A: M.32, F.70, T.76 No protein-ligand interaction detected (PLIP)

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

THP.4: 12 residues within 4Å: Chain A: R.35, L.36, L.37, D.40, D.77, K.78, Y.79, R.81, L.83, Y.107, Y.109 Ligands: CA.1 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:R.35, A:Y.107, A:Y.107 Hydrogen bonds: A:Y.79, A:R.81, A:Y.107 Water bridges: A:T.22, A:T.22, A:E.43, A:E.43, A:E.43, A:E.43, A:Y.79 Salt bridges: A:R.35, A:K.78, A:R.81

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 6 residues within 4Å: Chain A: A.12, T.13, L.14, K.64, K.65, I.66 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.14, A:I.66

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nguyen, D.M. et al., X-ray and thermodynamic studies of staphylococcal nuclease variants I92E and I92K: insights into polarity of the protein interior. J.Mol.Biol. (2004)

Release Date

2004-07-06

Peptides

Thermonuclease: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Thermonuclease