SMTL ID : 3whu.1

Crystal structure of ERGIC-53/MCFD2, Calcium/Man2-bound form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose(Non-covalent)

MAN-MAN.1: 9 residues within 4Å: Chain A: S.65, A.97, D.98, F.131, N.133, H.155, G.228, G.229, L.230 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.65, A:S.65

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.129, F.131, N.133, D.158 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.129, A:D.129, A:F.131, A:D.158 CA.3: 5 residues within 4Å: Chain A: D.132, D.134, N.138, N.139, D.158 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.134, A:D.158 CA.5: 5 residues within 4Å: Chain B: D.39, D.41, N.43, L.45, E.50 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.39, B:D.41, B:L.45, B:E.50, B:E.50 CA.6: 5 residues within 4Å: Chain B: D.87, N.89, D.91, Y.93, E.98 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.87, B:D.91, B:Y.93, B:E.98, B:E.98

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 8 residues within 4Å: Chain A: K.30, G.31, P.32, H.33, L.34 Chain B: L.49, S.52, T.53 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.31, A:H.33

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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