SMTL ID : 4y49.1 (2 other biounits)

Crystal structure of yeast N-terminal acetyltransferase (ppGpp) NatE in complex with a bisubstrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.95 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x SER- TYR- SER- MET- GLU- HIS: ALA-ALA-ALA-ALA-ALA-ALA(Non-covalent)

SER-TYR-SER-MET-GLU-HIS.1: 8 residues within 4Å: Chain B: E.26, Y.28, T.116, S.117, H.153, Y.180, Y.181 Ligands: CMC.3 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:E.26 Hydrogen bonds: B:E.26, B:T.116, B:T.116

1 x G4P: GUANOSINE-5',3'-TETRAPHOSPHATE(Non-covalent)

G4P.2: 4 residues within 4Å: Chain A: L.395, R.426, K.457 Chain B: H.22 No protein-ligand interaction detected (PLIP)

1 x CMC: CARBOXYMETHYL COENZYME *A(Covalent)

CMC.3: 19 residues within 4Å: Chain B: L.24, S.117, L.118, S.119, V.120, R.125, R.126, M.127, G.128, I.129, A.130, E.131, R.159, A.160, H.163, L.164, Y.165, T.168 Ligands: SER-TYR-SER-MET-GLU-HIS.1 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.24, B:S.119, B:A.130, B:A.160 Hydrogen bonds: B:L.118, B:L.118, B:V.120, B:R.126, B:M.127, B:G.128, B:A.130, B:E.131 Salt bridges: B:H.163

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

ACO.4: 14 residues within 4Å: Chain C: T.26, I.93, E.94, F.95, L.96, G.97, V.98, R.103, H.104, K.105, S.106, G.108, S.109, W.141 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:V.98, C:R.103 Hydrogen bonds: C:L.96, C:R.103, C:K.105, C:S.106, C:G.108, C:S.109, C:W.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, J. et al., Crystal structure of yeast N-terminal acetyltransferase (ppGpp) NatE in complex with a bisubstrate. To Be Published

Release Date

2016-07-13

Peptides

N-terminal acetyltransferase A complex subunit NAT1: A
N-terminal acetyltransferase A complex catalytic subunit ARD1: B
N-terminal acetyltransferase A complex subunit NAT5: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

N-terminal acetyltransferase A complex subunit NAT1

N-terminal acetyltransferase A complex catalytic subunit ARD1

N-terminal acetyltransferase A complex subunit NAT5

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