SMTL ID : 3wht.1

Crystal structure of ERGIC-53/MCFD2, Calcium-free form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: F.23, K.30 Chain B: D.47, Y.93 Ligand excluded by PLIP

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: K.30, G.31, P.32, H.33, L.34 Chain B: Y.40, L.49, T.53 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.30, A:G.31, A:H.33 Water bridges: A:K.30, A:K.30 GOL.3: 8 residues within 4Å: Chain A: F.78, E.79, W.81, Y.104, Y.184, I.215, P.216, A.217 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.104, A:Y.184, A:I.215 Water bridges: A:Y.104, A:I.215

2 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain B: D.39, D.41, N.43, L.45, E.50 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.39, B:D.41, B:L.45, B:E.50, H2O.6 CA.5: 4 residues within 4Å: Chain B: D.87, N.89, D.91, Y.93 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.87, B:D.91, B:Y.93, H2O.6, H2O.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Satoh, T. et al., Structural Basis for Disparate Sugar-Binding Specificities in the Homologous Cargo Receptors ERGIC-53 and VIP36. Plos One (2014)

Release Date

2014-01-15

Peptides

Protein ERGIC-53: A
Multiple coagulation factor deficiency protein 2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein ERGIC-53

Multiple coagulation factor deficiency protein 2

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