SMTL ID : 6wfg.2 (2 other biounits)

Crystal structure of human Naa50 in complex with an inhibitor (compound 3) identified using DNA encoded library technology

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

monomer

Ligands

1 x COA: COENZYME A(Non-covalent)

COA.1: 21 residues within 4Å: Chain A: I.28, F.29, T.78, L.79, G.80, C.81, R.86, R.87, L.88, G.89, I.90, G.91, T.92, L.113, N.119, S.121, A.122, D.124, F.125, K.128 Ligands: U3V.2 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:I.28, A:F.29, A:L.79, A:A.122 Hydrogen bonds: A:L.79, A:C.81, A:R.86, A:R.87, A:R.87, A:L.88, A:G.89, A:G.89, A:I.90, A:G.91, A:T.92, A:N.119, A:S.121, A:K.128 Water bridges: A:Y.85, A:R.86, A:R.87, A:S.121 Salt bridges: A:R.87, A:K.128 pi-Cation interactions: A:R.87, A:R.87

1 x U3V: (2S)-N-[(2S)-3-[1-(3-tert-butyl-1-methyl-1H-pyrazole-5-carbonyl)piperidin-4-yl]-1-(methylamino)-1-oxopropan-2-yl]-6-oxopiperidine-2-carboxamide(Non-covalent)

U3V.2: 18 residues within 4Å: Chain A: F.29, P.30, V.31, Y.33, K.36, F.37, R.64, D.66, Y.75, M.77, T.78, Y.112, H.114, V.115, Q.116, Y.140, Y.141 Ligands: COA.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.33, A:D.66, A:Y.75, A:Y.75, A:Y.75 Hydrogen bonds: A:Y.75, A:M.77, A:H.114, A:Q.116, A:Y.140, A:Y.140, A:Y.141 Water bridges: A:H.114, A:N.119

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kung, P.P. et al., Characterization of SpecificN-alpha-Acetyltransferase 50 (Naa50) Inhibitors Identified Using a DNA Encoded Library. Acs Med.Chem.Lett. (2020)

Release Date

2020-07-01

Peptides

N-alpha-acetyltransferase 50: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

N-alpha-acetyltransferase 50

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