SMTL ID : 4zrq.2 (1 other biounit)

E88 deletion mutant of CD320 in complex with TC2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

1 x CNC: CYANOCOBALAMIN(Non-covalent)

CNC.1: 31 residues within 4Å: Chain A: G.85, Q.86, T.134, S.135, Y.137, Q.138, D.176, T.177, N.224, Y.226, S.227, N.267, M.270, Q.273, S.357, L.358, S.359, G.360, P.361, Y.362, L.363, F.376, W.377, Q.378, L.379, P.386, L.387, L.388, Q.389, G.390, W.409 28 PLIP interactions: 27 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:Y.137, A:Y.137, A:Y.226, A:Y.362, A:Y.362, A:F.376, A:F.376, A:F.376 Hydrogen bonds: A:Q.86, A:T.134, A:Y.137, A:Q.138, A:D.176, A:N.224, A:N.224, A:Q.273, A:L.358, A:S.359, A:S.359, A:L.363, A:L.363, A:L.379, A:L.387, A:L.387, A:L.388 Water bridges: A:Y.137, A:W.377 Metal complexes: CNC.1

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: Q.63, R.102, G.103, K.105 Chain B: D.25, L.26, D.27 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:D.27, A:Q.63, A:Q.63, A:K.105

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain B: W.97, D.100, H.102, D.104, D.110, E.111 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.100, B:H.102, B:D.104, B:D.110, B:E.111 CA.4: 6 residues within 4Å: Chain B: W.20, C.22, D.23, D.25, D.27, D.33 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.20, B:D.23, B:D.25, B:D.27, B:D.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alam, A. et al., Structural basis of transcobalamin recognition by human CD320 receptor. Nat Commun (2016)

Release Date

2016-07-20

Peptides

Transcobalamin-2: A
CD320 antigen: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Transcobalamin-2

CD320 antigen

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