SMTL ID : 4d4m.1

human PFKFB3 in complex with a pyrrolopyrimidone compound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.32 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 9 residues within 4Å: Chain A: L.43, P.44, A.45, R.46, G.47, K.48, T.49, N.164, K.169 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:L.43, A:A.45, A:R.46, A:G.47, A:K.48, A:T.49, A:T.49, A:N.164 Water bridges: A:K.48, A:K.48, A:Y.425, A:Y.425 Salt bridges: A:K.48, A:K.169 PO4.2: 5 residues within 4Å: Chain A: N.70, G.72, R.75, R.76, R.190 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.70, A:R.75, A:R.190 Water bridges: A:G.72, A:R.76, A:R.76 Salt bridges: A:R.76 PO4.6: 9 residues within 4Å: Chain B: L.43, P.44, A.45, R.46, G.47, K.48, T.49, N.164, K.169 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:L.43, B:A.45, B:R.46, B:G.47, B:K.48, B:T.49, B:N.164 Water bridges: B:G.47, B:K.48, B:K.48, B:T.49, B:Y.50 Salt bridges: B:K.48, B:K.169 PO4.7: 5 residues within 4Å: Chain B: N.70, G.72, R.75, R.76, R.190 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:N.70, B:R.75, B:R.190 Water bridges: B:T.49, B:G.72, B:R.76, B:R.76 Salt bridges: B:R.76

2 x PHS: PHOSPHONIC ACID(Non-covalent)

PHS.3: 7 residues within 4Å: Chain A: R.253, H.254, N.260, E.323, H.388, Q.389 Ligands: F6P.4 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:N.260, A:E.323, A:Q.389 Water bridges: A:N.257, A:H.388 Salt bridges: A:R.253, A:H.254, A:H.388 PHS.8: 7 residues within 4Å: Chain B: R.253, H.254, N.260, E.323, H.388, Q.389 Ligands: F6P.9 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.260, B:Q.389 Water bridges: B:N.257 Salt bridges: B:R.253, B:H.254, B:H.388

2 x F6P: 6-O-phosphono-beta-D-fructofuranose(Non-covalent)

F6P.4: 10 residues within 4Å: Chain A: I.265, G.266, E.323, Y.334, R.348, K.352, Y.363, Q.389, R.393 Ligands: PHS.3 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:G.266, A:E.323, A:Y.334, A:Q.389, A:Q.389 Water bridges: A:N.260, A:N.260, A:R.264, A:G.266, A:Y.334, A:Y.334, A:Y.357, A:H.388, A:R.393 Salt bridges: A:R.348, A:K.352, A:R.393 F6P.9: 10 residues within 4Å: Chain B: I.265, G.266, E.323, Y.334, R.348, K.352, Y.363, Q.389, R.393 Ligands: PHS.8 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:G.266, B:Y.334, B:Y.334, B:Y.363, B:Q.389, B:Q.389 Water bridges: B:N.260, B:N.260, B:R.264, B:G.266, B:H.388, B:R.393 Salt bridges: B:R.348, B:K.352, B:R.393

2 x BKV: 7-(4-bromophenyl)-5-phenyl-3,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one(Non-covalent)

BKV.5: 14 residues within 4Å: Chain A: A.45, R.46, G.47, Y.50, I.51, S.153, V.160, N.164, E.167, V.215, V.218, L.239, I.242, V.244 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.50, A:I.51, A:V.215, A:V.218, A:V.244 Hydrogen bonds: A:S.153, A:N.164 Water bridges: A:A.45, A:V.218 Halogen bonds: A:L.239 BKV.10: 14 residues within 4Å: Chain B: A.45, R.46, G.47, Y.50, I.51, S.153, V.160, N.164, E.167, V.215, V.218, L.239, I.242, V.244 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:Y.50, B:I.51, B:V.215, B:V.218, B:V.244 Hydrogen bonds: B:S.153, B:N.164 Water bridges: B:A.45, B:V.218 Halogen bonds: B:L.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stgallay, S.A. et al., Identifying a Novel Series of Pfkfb3 Inhibitors as a Metabolic Approach to Treating Cancer from Hts, Biophysical and Biochemical Methods. To be Published

Release Date

2016-01-20

Peptides

6-PHOSPHOFRUCTO-2-KINASE/FRUCTOSE-2,6-BISPHOSPHATASE 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

6-PHOSPHOFRUCTO-2-KINASE/FRUCTOSE-2,6-BISPHOSPHATASE 3

Related Entries With Identical Sequence