SMTL ID : 4hvy.1 (1 other biounit)

A thermostable variant of human NUDT18 NUDIX domain obtained by Hot Colony Filtration

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.46 Å

Oligo State

monomer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: V.84, E.86 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.84, A:E.86 GOL.10: 3 residues within 4Å: Chain A: L.136, H.137, E.140 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.137, A:E.140

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: L.105, W.120 No protein-ligand interaction detected (PLIP) MG.3: 7 residues within 4Å: Chain A: A.24, V.25, F.26, V.33, L.34, L.49, P.50 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:A.24, A:L.34 MG.6: 1 residues within 4Å: Chain A: Q.148 No protein-ligand interaction detected (PLIP)

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 4 residues within 4Å: Chain A: T.128, P.129, L.130, H.133 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.128, A:L.130 Salt bridges: A:H.133

4 x NA: SODIUM ION(Non-functional Binders)

NA.5: 3 residues within 4Å: Chain A: V.61, E.62, Q.65 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.65 Water bridges: A:T.59, A:E.62 NA.7: 2 residues within 4Å: Chain A: H.75, T.101 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.75, A:T.101, A:T.101 Water bridges: A:C.76 NA.8: 2 residues within 4Å: Chain A: A.132, H.133 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.133, A:H.133 Water bridges: A:D.134 NA.9: 1 residues within 4Å: Chain A: R.131 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.131

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Asial, I. et al., Engineering protein thermostability using a generic activity-independent biophysical screen inside the cell. Nat Commun (2013)

Release Date

2014-01-01

Peptides

Nucleoside diphosphate-linked moiety X motif 18: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Nucleoside diphosphate-linked moiety X motif 18

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