SMTL ID : 9emt.1

Crystal structure of Histidine acetyltransferase with imidazole and coenzyme A disulfide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x 5NG: [[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3~{R})-4-[[3-[2-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyldisulfanyl]ethylamino]-3-oxidanylidene-propyl]amino]-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-butyl] hydrogen phosphate

5NG.1: 28 residues within 4Å: Chain A: I.50, Y.51, V.98, L.101, R.102, V.103, R.108, G.109, K.110, G.111, V.112, A.113, G.114, Q.117, R.118, S.121, Q.122, K.125, A.134, L.136, R.138, R.145, K.149, Y.150, A.344, I.346, H.347, H.348 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:I.50, A:A.344 Hydrogen bonds: A:L.101, A:V.103, A:R.108, A:R.108, A:G.109, A:K.110, A:G.111, A:V.112, A:A.113, A:G.114, A:Q.117, A:S.121, A:S.121, A:K.149, A:Y.150, A:Y.150 Water bridges: A:Y.51, A:K.110, A:K.110, A:Q.117, A:R.145, A:R.145, A:H.347 Salt bridges: A:R.118, A:K.125, A:R.145, A:K.149, A:K.149 pi-Stacking: A:H.347

1 x IMD: IMIDAZOLE

IMD.2: 5 residues within 4Å: Chain A: Y.51, Y.56, T.137, R.138, W.223 7 PLIP interactions: 7 interactions with chain A Water bridges: A:Y.51, A:Y.51, A:T.137, A:T.137 pi-Stacking: A:Y.51, A:W.223, A:W.223

3 x GOL: GLYCEROL

GOL.3: 5 residues within 4Å: Chain A: Q.295, R.296, Q.297, P.299, R.300 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.296, A:R.300, A:R.300 Water bridges: A:R.296 GOL.5: 8 residues within 4Å: Chain A: F.163, A.167, L.168, G.171, R.175, L.328, G.329, L.330 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.328 Water bridges: A:G.171, A:R.175 GOL.6: 5 residues within 4Å: Chain A: P.314, Q.315, W.317, S.318, Y.336 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.318, A:S.318, A:Y.336, A:Y.336 Water bridges: A:W.317

1 x MLI: MALONATE ION

MLI.4: 8 residues within 4Å: Chain A: K.148, K.149, Y.150, R.151, E.343, A.344, D.345, H.347 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.151, A:R.151, A:D.345, A:D.345 Water bridges: A:D.345 Salt bridges: A:R.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Myllykoski, M. et al., Human NAT16 encodes histidine alpha-acetyltransferase. To Be Published

Release Date

2025-03-26

Peptides

Probable N-acetyltransferase 16: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Probable N-acetyltransferase 16

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