SMTL ID : 6i7g.1

Crystal structure of dimeric wild type FICD complexed with ATP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 16 residues within 4Å: Chain A: I.131, E.132, V.214, H.217, V.258, H.261, D.265, G.266, N.267, G.268, R.269, R.272, Y.297, Y.298, L.301, N.305 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:G.266, A:N.267, A:G.268, A:R.269, A:R.272, A:R.272, A:Y.297, A:N.305 Water bridges: A:V.214, A:H.216, A:R.294, A:Y.298 Salt bridges: A:H.261, A:R.269 pi-Stacking: A:Y.298 ATP.4: 15 residues within 4Å: Chain B: E.132, V.214, H.217, V.258, H.261, D.265, G.266, N.267, G.268, R.269, R.272, Y.297, Y.298, L.301, N.305 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:G.266, B:N.267, B:G.268, B:R.269, B:R.272, B:R.272, B:Y.297, B:Y.297, B:N.305 Water bridges: B:E.132, B:R.294, B:Y.298, B:Y.298, B:Y.298 Salt bridges: B:H.261, B:R.269

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 5 residues within 4Å: Chain A: Y.255, Y.259, A.304, N.305 Ligands: 1PE.3 No protein-ligand interaction detected (PLIP)

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.3: 8 residues within 4Å: Chain A: Q.228, W.235, L.252, Y.255, K.256, Y.259, I.260 Ligands: PEG.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.256 1PE.6: 7 residues within 4Å: Chain B: W.235, L.252, Y.255, K.256, Y.259, I.260 Ligands: PG4.5 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.235, B:K.256

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.5: 6 residues within 4Å: Chain B: Y.255, K.256, Y.259, A.304, G.307 Ligands: 1PE.6 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.256, B:G.307

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Perera, L.A. et al., An oligomeric state-dependent switch in the ER enzyme FICD regulates AMPylation and deAMPylation of BiP. Embo J. (2019)

Release Date

2019-09-25

Peptides

Adenosine monophosphate-protein transferase FICD: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Adenosine monophosphate-protein transferase FICD