SMTL ID : 5nsa.1

Beta domain of human transcobalamin bound to Co-beta-[2-(2,4-difluorophenyl)ethinyl]cobalamin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.27 Å

Oligo State

monomer

Ligands

1 x B12: COBALAMIN(Non-covalent)

B12.1: 19 residues within 4Å: Chain A: S.56, S.58, G.59, P.60, Y.61, L.62, F.75, W.76, Q.77, L.78, P.85, L.86, L.87, Q.88, G.89, I.90, D.92, W.108 Ligands: 8FS.2 19 PLIP interactions: 18 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:Y.61, A:F.75, A:F.75, A:F.75, A:L.78, A:L.78, A:W.108 Hydrogen bonds: A:L.62, A:L.62, A:L.78, A:L.78, A:L.86, A:G.89 Water bridges: A:S.58, A:Y.61, A:Q.77, A:L.87 pi-Stacking: A:Y.61 Metal complexes: B12.1

1 x 8FS: 1-ethynyl-2,4-difluorobenzene(Non-functional Binders)

8FS.2: 1 residues within 4Å: Ligands: B12.1 No protein-ligand interaction detected (PLIP)

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 2 residues within 4Å: Chain A: D.3, H.4 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.4, H2O.1, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bloch, J.S. et al., Structure of the human transcobalamin beta domain in four distinct states. PLoS ONE (2017)

Release Date

2017-09-27

Peptides

Transcobalamin-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Transcobalamin-2

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