SMTL ID : 5qgr.1

PanDDA analysis group deposition of models with modelled events (e.g. bound ligands) -- Crystal Structure of NUDT7 in complex with FMOPL000022a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

monomer

Ligands

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 4 residues within 4Å: Chain A: G.56, V.58, Y.173, Q.174 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.174 Water bridges: A:T.172 ACT.2: 4 residues within 4Å: Chain A: P.88, H.89, V.91, E.92 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.92 Water bridges: A:Q.90, A:E.92

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

DMS.3: 7 residues within 4Å: Chain A: G.85, R.87, Q.90, N.118, F.119, Q.120, Q.122 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.120 DMS.4: 2 residues within 4Å: Chain A: D.116, H.117 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.117 Salt bridges: A:D.116

2 x H0J: 5-(pyridin-2-yl)thiophene-2-carbothioamide(Non-covalent)

H0J.5: 10 residues within 4Å: Chain A: Y.27, V.29, C.59, F.60, G.62, I.102, D.103, I.108, M.178 Ligands: H0J.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.27, A:I.102 Hydrogen bonds: A:F.60 pi-Stacking: A:Y.27 H0J.6: 5 residues within 4Å: Chain A: Y.27, R.47, R.53, A.54 Ligands: H0J.5 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.53 pi-Cation interactions: A:R.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krojer, T. et al., PanDDA analysis group deposition of models with modelled events (e.g. bound ligands). To Be Published

Release Date

2019-03-27

Peptides

Peroxisomal coenzyme A diphosphatase NUDT7: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peroxisomal coenzyme A diphosphatase NUDT7

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