SMTL ID : 4kki.1

Crystal Structure of Haptocorrin in Complex with CNCbl

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: I.342, N.343, L.392, W.430 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.342, A:L.392 Hydrogen bonds: A:N.343 NAG.2: 3 residues within 4Å: Chain A: N.349, T.351, M.368 No protein-ligand interaction detected (PLIP) NAG.3: 3 residues within 4Å: Chain A: N.369, T.371, I.372 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.371 NAG.4: 6 residues within 4Å: Chain A: V.167, D.210, E.211, G.212, S.213, N.216 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:D.210 Hydrogen bonds: A:N.216 NAG.5: 1 residues within 4Å: Chain A: N.316 No protein-ligand interaction detected (PLIP) NAG.6: 2 residues within 4Å: Chain A: I.334, N.354 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.354 NAG.7: 5 residues within 4Å: Chain A: N.337, S.339, T.345, F.347, N.425 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.337, A:S.339, A:N.425

1 x CNC: CYANOCOBALAMIN(Non-covalent)

CNC.8: 30 residues within 4Å: Chain A: G.93, E.94, T.142, N.143, Y.145, Q.146, F.179, D.186, T.187, N.240, F.242, S.243, Q.289, W.382, G.383, P.384, Y.385, I.386, N.396, Y.401, W.402, E.403, L.404, P.410, L.411, S.412, Q.413, G.414, Y.433 Ligands: PEG.19 43 PLIP interactions: 42 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:E.94, A:N.143, A:Y.145, A:F.179, A:D.186, A:F.242, A:W.382, A:W.382, A:W.382, A:Y.385, A:Y.385, A:Y.385, A:Y.401, A:L.404 Hydrogen bonds: A:E.94, A:T.142, A:N.143, A:Q.146, A:N.240, A:N.240, A:Q.289, A:Q.289, A:W.382, A:I.386, A:I.386, A:N.396, A:L.404, A:L.411, A:L.411, A:G.414 Water bridges: A:S.91, A:E.246, A:N.283, A:N.283, A:Q.289, A:R.380, A:R.380, A:R.380, A:R.380, A:S.381, A:W.402, A:S.417 Metal complexes: CNC.8

1 x CA: CALCIUM ION(Non-covalent)

CA.9: 1 residues within 4Å: Chain A: D.370 No protein-ligand interaction detected (PLIP)

11 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.10: 5 residues within 4Å: Chain A: T.196, K.200, I.203, V.253 Ligands: PEG.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.200 PEG.11: 2 residues within 4Å: Chain A: K.200 Ligands: PEG.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.200 PEG.12: 7 residues within 4Å: Chain A: K.62, L.63, V.64, G.65, V.104, K.297, D.301 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.64, A:V.104 PEG.13: 5 residues within 4Å: Chain A: Y.33, L.40, V.64, G.65, I.66 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.33, A:G.65 PEG.14: 5 residues within 4Å: Chain A: C.155, L.156, N.158, C.197, Q.206 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.158 PEG.15: 3 residues within 4Å: Chain A: I.219, K.222, E.226 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.222, A:E.226 PEG.16: 5 residues within 4Å: Chain A: F.242, Q.278, G.279, A.280, Q.413 No protein-ligand interaction detected (PLIP) PEG.17: 9 residues within 4Å: Chain A: N.49, G.51, T.52, P.284, E.379, R.380, S.381, W.382, G.383 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.49, A:G.51 PEG.18: 3 residues within 4Å: Chain A: N.395, N.397, D.398 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.395, A:N.397 Water bridges: A:N.395 PEG.19: 5 residues within 4Å: Chain A: N.240, P.410, L.411, S.412 Ligands: CNC.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.240, A:S.412 PEG.20: 5 residues within 4Å: Chain A: S.53, V.55, N.82, E.94, L.97 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.53, A:N.56

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Furger, E. et al., Structural basis for universal corrinoid recognition by the cobalamin transport protein haptocorrin. J.Biol.Chem. (2013)

Release Date

2013-07-17

Peptides

Transcobalamin-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Transcobalamin-1

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