SMTL ID : 9bvo.1

Vitamin K-dependent gamma-carboxylase in apo state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: E.537, Q.542, N.544 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 7 residues within 4Å: Chain A: L.497, N.524, T.525, S.526, K.552, Q.554, V.576 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.552 Hydrogen bonds: A:K.552 NAG-NAG.3: 3 residues within 4Å: Chain A: D.521, N.579, T.580 No protein-ligand interaction detected (PLIP)

1 x 6PL: (4S,7R)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSAN-1-AMINIUM 4-OXIDE(Non-covalent)

6PL.4: 8 residues within 4Å: Chain A: L.11, G.13, F.14, L.171, A.175, R.178, F.245, D.247 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.178, A:D.247

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 2 residues within 4Å: Chain A: Y.432, N.433 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.433

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cao, Q. et al., Structural basis of vitamin K dependent gamma-carboxylation. To Be Published

Release Date

2025-01-22

Peptides

Vitamin K-dependent gamma-carboxylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Vitamin K-dependent gamma-carboxylase

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