SMTL ID : 5qhh.1

PanDDA analysis group deposition of models with modelled events (e.g. bound ligands) -- Crystal Structure of NUDT7 in complex with NU000443a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.52 Å

Oligo State

monomer

Ligands

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

ACT.1: 5 residues within 4Å: Chain A: V.46, G.56, V.58, Y.173, Q.174 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.174 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 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.90, 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

1 x H5D: 2-{3-[(2S)-1-acetylpyrrolidin-2-yl]phenyl}-N-(3-chlorophenyl)acetamide(Covalent)

H5D.5: 19 residues within 4Å: Chain A: Y.27, V.29, T.45, R.47, L.51, A.54, E.57, V.58, C.59, F.60, P.61, G.62, G.63, E.83, I.108, E.127, V.128, M.178, T.179 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.27, A:V.29, A:R.47, A:I.108, A:V.128 Hydrogen bonds: A:R.47, A:F.60 pi-Cation interactions: A:R.47

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

Related Entries With Identical Sequence