SMTL ID : 2wef.1

Human 3'(2'), 5'-bisphosphate nucleotidase 1 (BPNT1) in complex with AMP, PO4 and Magnesium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: D.113, D.116, D.243 Ligands: MG.2, PO4.4, AMP.5 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.113, A:D.116, A:D.243, H2O.8 MG.2: 6 residues within 4Å: Chain A: E.70, D.113, L.115, D.116 Ligands: MG.1, PO4.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.70, A:D.113, A:L.115, H2O.2 MG.3: 3 residues within 4Å: Chain A: D.41, E.70 Ligands: PO4.4 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.70, H2O.2, H2O.2, H2O.3, H2O.10

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 12 residues within 4Å: Chain A: D.47, E.70, D.113, L.115, D.116, G.117, T.118, D.243 Ligands: MG.1, MG.2, MG.3, AMP.5 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:D.116, A:D.116, A:G.117, A:T.118, A:T.118, A:T.118 Water bridges: A:K.36, A:K.119

1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.5: 14 residues within 4Å: Chain A: D.41, D.116, T.191, H.194, G.215, G.216, A.217, K.220, F.234, G.238, C.239, D.243 Ligands: MG.1, PO4.4 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:D.116, A:T.191, A:G.216 Water bridges: A:T.40, A:K.119, A:E.120, A:R.192, A:H.194, A:H.194, A:Y.232, A:P.237 Salt bridges: A:H.194, A:K.220 pi-Stacking: A:H.194, A:H.194

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Moche, M. et al., Human 3'(2'), 5'-Bisphosphate Nucleotidase 1 (Bpnt1) in Complex with AMP, Po4 and Magnesium. To be Published

Release Date

2009-04-14

Peptides

3'(2')\, 5'-BISPHOSPHATE NUCLEOTIDASE 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

3'(2')\, 5'-BISPHOSPHATE NUCLEOTIDASE 1