SMTL ID : 5ajx.1

Human PFKFB3 in complex with an indole inhibitor 3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.58 Å

Oligo State

homo-dimer

Ligands

2 x PHS: PHOSPHONIC ACID(Non-covalent)

PHS.1: 6 residues within 4Å: Chain A: R.253, H.254, N.260, H.388, Q.389 Ligands: F6P.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.260, A:E.323, A:Q.389 Salt bridges: A:R.253, A:H.254, A:H.388 PHS.5: 6 residues within 4Å: Chain B: R.253, H.254, N.260, H.388, Q.389 Ligands: F6P.7 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.260, B:Q.389 Salt bridges: B:R.253, B:H.254, B:H.388

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

PO4.2: 7 residues within 4Å: Chain A: L.43, P.44, A.45, R.46, G.47, K.48, T.49 11 PLIP interactions: 11 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 Water bridges: A:K.48, A:K.48, A:Y.50 Salt bridges: A:K.48 PO4.6: 7 residues within 4Å: Chain B: L.43, P.44, A.45, R.46, G.47, K.48, T.49 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:L.43, B:A.45, B:R.46, B:G.47, B:K.48, B:T.49 Water bridges: B:K.48, B:K.48, B:Y.50 Salt bridges: B:K.48

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

F6P.3: 12 residues within 4Å: Chain A: I.265, G.266, E.323, Y.334, R.348, K.352, Y.363, Q.389, A.390, R.393, T.441 Ligands: PHS.1 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:G.266, A:E.323, A:Y.334, A:Y.334, A:Q.389 Water bridges: A:N.260, A:R.393 Salt bridges: A:R.348, A:K.352, A:R.393 F6P.7: 12 residues within 4Å: Chain B: I.265, G.266, E.323, Y.334, R.348, K.352, Y.363, Q.389, A.390, R.393, T.441 Ligands: PHS.5 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:G.266, B:Y.334, B:Y.334, B:Y.363, B:Q.389 Water bridges: B:N.260, B:R.393 Salt bridges: B:R.348, B:K.352, B:R.393

2 x FD9: (2S)-N-[4-[3-cyano-1-[(3,5-dimethyl-1,2-oxazol-4-yl)methyl]indol-5-yl]oxyphenyl]pyrrolidine-2-carboxamide(Non-covalent)

FD9.4: 16 residues within 4Å: Chain A: R.46, G.47, Y.50, I.51, S.153, C.155, V.215, V.218, G.219, F.222, L.239, M.240, I.242, H.243, V.244 Chain B: V.227 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.50, A:Y.50, A:V.215, A:V.218, A:F.222, A:V.244 Hydrogen bonds: A:L.239 FD9.8: 16 residues within 4Å: Chain A: V.227 Chain B: R.46, G.47, Y.50, I.51, S.153, C.155, V.215, V.218, G.219, F.222, L.239, M.240, I.242, H.243, V.244 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Y.50, B:Y.50, B:V.215, B:V.218, B:F.222, B:V.244 Hydrogen bonds: B:L.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boyd, S. et al., Structure-Based Design of Potent and Selective Inhibitors of the Metabolic Kinase Pfkfb3. J.Med.Chem. (2015)

Release Date

2015-04-22

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

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