SMTL ID : 7l1k.1

Cryo-EM structure of S. Pombe NatC complex with a Bisubstrate inhibitor and inositol hexaphosphate

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x MET- LEU- GLY- PRO: MLGP peptide(Non-covalent)

MET-LEU-GLY-PRO.1: 11 residues within 4Å: Chain A: S.24, E.25, Y.27, F.35, Y.71, A.73, E.109, E.111, Y.135, Y.136 Ligands: CMC.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.27, A:F.35 Hydrogen bonds: A:Y.27, A:Y.27, A:A.73

1 x IHP: INOSITOL HEXAKISPHOSPHATE(Non-covalent)

IHP.2: 9 residues within 4Å: Chain A: H.63, R.64, R.69, Y.129, K.130, R.144 Chain B: R.444, R.447, N.451 13 PLIP interactions: 3 interactions with chain B, 10 interactions with chain A Hydrogen bonds: B:R.444, B:N.451, A:R.69 Salt bridges: B:R.447, A:H.63, A:H.63, A:R.64, A:R.69, A:K.130, A:K.130, A:K.130, A:R.144, A:R.144

1 x CMC: CARBOXYMETHYL COENZYME *A(Non-covalent)

CMC.3: 21 residues within 4Å: Chain A: D.22, L.23, A.73, L.75, I.77, R.82, G.83, Q.84, G.85, I.86, A.87, T.88, E.109, T.110, A.116, A.117, S.119, F.120, Y.121, R.123 Ligands: MET-LEU-GLY-PRO.1 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.23, A:I.77, A:A.117 Hydrogen bonds: A:I.72, A:I.77, A:G.83, A:G.85, A:I.86, A:N.114, A:A.116, A:S.119, A:S.119, A:R.123

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Deng, S. et al., Molecular mechanism of N-terminal acetylation by the ternary NatC complex. Structure (2021)

Release Date

2021-05-12

Peptides

N-alpha-acetyltransferase 30: A
N-alpha-acetyltransferase 35, NatC auxiliary subunit: B
N-alpha-acetyltransferase 38, NatC auxiliary subunit: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

N-alpha-acetyltransferase 30

N-alpha-acetyltransferase 35, NatC auxiliary subunit

N-alpha-acetyltransferase 38, NatC auxiliary subunit