SMTL ID : 6wfn.1

Crystal structure of human Naa50 in complex with AcCoA and an inhibitor (compound 4a) identified using DNA encoded library technology

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.07 Å

Oligo State

monomer

Ligands

1 x ACO: ACETYL COENZYME *A(Non-covalent)

ACO.1: 24 residues within 4Å: Chain A: I.28, F.29, I.76, M.77, T.78, L.79, G.80, C.81, R.86, R.87, L.88, G.89, I.90, G.91, T.92, L.113, H.114, N.119, S.121, A.122, F.125, Y.126, K.128 Ligands: U2J.2 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:I.28, A:F.29, A:L.79, A:L.113 Hydrogen bonds: A:L.79, A:L.79, A:C.81, A:R.86, A:R.87, A:L.88, A:G.89, A:I.90, A:G.91, A:T.92, A:T.92, A:N.119, A:S.121, A:S.121 Water bridges: A:Y.85, A:R.87, A:R.87, A:R.87, A:A.122 Salt bridges: A:R.87, A:K.128 pi-Cation interactions: A:R.87

1 x U2J: (4S)-1-methyl-N-{(3S,5S)-5-[4-(methylcarbamoyl)-1,3-thiazol-2-yl]-1-[4-(1H-tetrazol-5-yl)benzene-1-carbonyl]pyrrolidin-3-yl}-2,6-dioxohexahydropyrimidine-4-carboxamide(Non-covalent)

U2J.2: 19 residues within 4Å: Chain A: F.29, P.30, V.31, S.32, Y.33, F.37, R.64, Y.75, M.77, T.78, H.114, V.115, Q.116, Y.140, Y.141, K.142, R.143, I.144 Ligands: ACO.1 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:F.29, A:V.31, A:Y.75, A:M.77, A:Y.140 Hydrogen bonds: A:Y.33, A:M.77, A:H.114, A:Q.116, A:Y.141, A:K.142, A:R.143 Water bridges: A:S.32, A:S.32, A:S.32, A:D.40, A:D.40, A:R.64, A:R.64, A:Y.75, 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
A

N-alpha-acetyltransferase 50

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