SMTL ID : 7spy.1

Get3 bound to ATP from G. intestinalis in the closed form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.23 Å

Oligo State

homo-dimer

Ligands

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

ATP.1: 24 residues within 4Å: Chain A: G.26, G.27, V.28, G.29, K.30, T.31, T.32, N.56, P.170, N.279, F.280, P.320, L.321, R.322, D.324, E.325, V.326, Y.335 Chain B: K.25, G.26, E.252, L.254, R.296 Ligands: MG.2 30 PLIP interactions: 22 interactions with chain A, 8 interactions with chain B Hydrogen bonds: A:G.27, A:V.28, A:G.29, A:K.30, A:T.31, A:T.32, A:T.32, A:N.56, A:N.279, A:F.280, A:P.320, A:R.322, A:V.326, B:G.26, B:R.296 Water bridges: A:T.31, A:T.31, A:T.32, A:N.60, A:N.60, A:E.325, A:V.326, B:K.25, B:L.254, B:R.296 Salt bridges: A:K.30, A:K.30, B:K.25, B:K.25, B:K.25 ATP.6: 24 residues within 4Å: Chain A: K.25, G.26, E.252, L.254, R.296 Chain B: G.26, G.27, V.28, G.29, K.30, T.31, T.32, N.56, P.170, N.279, F.280, P.320, L.321, R.322, D.324, E.325, V.326, Y.335 Ligands: MG.7 31 PLIP interactions: 22 interactions with chain B, 9 interactions with chain A Hydrogen bonds: B:G.27, B:V.28, B:G.29, B:K.30, B:T.31, B:T.31, B:T.32, B:T.32, B:N.56, B:N.279, B:F.280, B:P.320, B:R.322, B:V.326, A:G.26, A:E.252, A:R.296 Water bridges: B:T.31, B:T.32, B:N.60, B:N.60, B:N.60, B:V.326, A:K.25, A:L.254, A:R.296 Salt bridges: B:K.30, B:K.30, A:K.25, A:K.25, A:K.25

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.31, N.56 Ligands: ATP.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.31, H2O.1, H2O.2, H2O.4 MG.7: 3 residues within 4Å: Chain B: T.31, N.56 Ligands: ATP.6 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:T.31, H2O.8, H2O.9, H2O.11

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain A: C.290, C.293 Chain B: C.290, C.293 Ligands: ZN.8 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.290, B:C.293, A:C.290, A:C.293 ZN.4: 2 residues within 4Å: Chain A: H.9, D.13 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.9, A:D.13, A:D.13 ZN.8: 5 residues within 4Å: Chain A: C.290, C.293 Chain B: C.290, C.293 Ligands: ZN.3 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.290, B:C.293, A:C.290, A:C.293 ZN.9: 2 residues within 4Å: Chain B: H.9, D.13 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.9, B:D.13, B:D.13

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 2 residues within 4Å: Chain A: R.294, R.298 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.294, A:R.298 SO4.10: 2 residues within 4Å: Chain B: R.294, R.298 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.294, B:R.298

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fry, M.Y. et al., Structurally derived universal mechanism for the catalytic cycle of the tail-anchored targeting factor Get3. Nat.Struct.Mol.Biol. (2022)

Release Date

2022-07-20

Peptides

ATPase ASNA1 homolog: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ATPase ASNA1 homolog