SMTL ID : 7ovv.1

Crystal structure of the Arabidopsis thaliana thialysine acetyltransferase AtNATA2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

2 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(Non-covalent)

5NG.1: 38 residues within 4Å: Chain A: F.29, E.30, R.31, L.32, L.35, I.132, E.133, D.134, I.135, F.136, V.137, R.142, R.143, K.144, G.145, F.146, G.147, S.148, W.168, V.169, V.170, L.171, W.173, N.174, N.176, A.177, K.179, F.180, Y.181, Q.183, R.196 Chain B: S.122, S.123, F.124, R.165, L.189, E.191, W.192 29 PLIP interactions: 24 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:L.32, A:L.35, A:F.136, B:F.124, B:F.124 Hydrogen bonds: A:E.30, A:E.133, A:I.135, A:V.137, A:R.142, A:R.142, A:R.143, A:R.143, A:K.144, A:G.145, A:F.146, A:G.147, A:S.148, A:S.148, A:N.176, B:W.192 Water bridges: A:R.196, B:S.123, B:R.165 Salt bridges: A:R.143, A:R.196, A:R.196 pi-Cation interactions: A:R.143, A:R.143 5NG.2: 40 residues within 4Å: Chain A: S.122, S.123, F.124, L.125, R.165, L.189, E.191, W.192 Chain B: M.26, F.29, E.30, L.32, L.35, I.132, E.133, D.134, I.135, F.136, V.137, R.142, R.143, K.144, G.145, F.146, G.147, S.148, W.168, V.169, V.170, L.171, W.173, N.174, N.176, A.177, K.179, F.180, Y.181, Q.183, M.184, R.196 29 PLIP interactions: 24 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:F.29, B:L.32, B:F.136, A:F.124 Hydrogen bonds: B:E.30, B:E.30, B:E.133, B:I.135, B:V.137, B:R.142, B:R.143, B:R.143, B:G.145, B:F.146, B:G.147, B:S.148, B:S.148, B:N.174, A:E.191, A:E.191, A:W.192 Water bridges: B:K.144, B:K.144, A:R.165 Salt bridges: B:R.143, B:R.196, B:R.196 pi-Cation interactions: B:R.143, B:R.143

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Layer, D. et al., Structural insights into the Arabidopsis thaliana thialysine acetyltransferase AtNATA2. To Be Published

Release Date

2022-12-21

Peptides

Probable acetyltransferase NATA1-like: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Probable acetyltransferase NATA1-like