SMTL ID : 7ky5.1

Structure of the S. cerevisiae phosphatidylcholine flippase Dnf2-Lem3 complex in the E2P transition state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

2 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN.1: 10 residues within 4Å: Chain B: F.152, K.154, N.240, P.287, Y.288, K.291, M.292, H.347, W.348, P.349 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.154 NAG-NAG-MAN.2: 7 residues within 4Å: Chain B: M.292, Y.293, D.295, G.296, N.298, T.300, N.301 No protein-ligand interaction detected (PLIP)

2 x CLR: CHOLESTEROL(Non-functional Binders)(Non-covalent)

CLR.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CLR.4: 1 residues within 4Å: Chain A: I.1250 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.1250

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.5: 11 residues within 4Å: Chain A: L.483, D.484, G.485, D.712, T.714, L.1031, T.1032, G.1033, V.1148, K.1153, N.1176 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 6 residues within 4Å: Chain A: K.713, L.717, T.718, D.1008, L.1010, I.1042 No protein-ligand interaction detected (PLIP)

5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-functional Binders)

NAG.7: 3 residues within 4Å: Chain B: T.112, N.113, P.122 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.112 NAG.8: 3 residues within 4Å: Chain B: Q.246, T.253, N.256 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Q.246 Hydrogen bonds: B:N.256 NAG.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NAG.10: 3 residues within 4Å: Chain B: T.260, K.331, N.332 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.260, B:T.260 NAG.11: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bai, L. et al., Transport mechanism of P4 ATPase phosphatidylcholine flippases. Elife (2020)

Release Date

2021-01-06

Peptides

Phospholipid-transporting ATPase DNF2: A
Alkylphosphocholine resistance protein LEM3: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Phospholipid-transporting ATPase DNF2

Alkylphosphocholine resistance protein LEM3

Related Entries With Identical Sequence