SMTL ID : 6h1h.1

Crystal structure of human Pirin in complex with compound 7 (PLX4720)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

monomer

Ligands

1 x FE: FE (III) ION(Non-covalent)

FE.1: 4 residues within 4Å: Chain A: H.59, H.61, H.104, E.106 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.59, A:H.61, A:H.104, A:E.106, H2O.4, H2O.5

1 x FJE: [3-azanyl-2,6-bis(fluoranyl)phenyl]-(5-chloranyl-1~{H}-pyrrolo[2,3-b]pyridin-3-yl)methanone(Non-covalent)

FJE.2: 14 residues within 4Å: Chain A: E.21, G.22, D.46, F.48, F.56, H.59, H.61, M.76, E.106, Q.118, W.120, G.257, P.258 Ligands: EDO.7 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.56, A:F.56 Hydrogen bonds: A:D.46, A:D.46 pi-Stacking: A:F.56

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: A.77, G.86, K.87, C.109 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.85, A:G.86 Water bridges: A:H.78 GOL.4: 7 residues within 4Å: Chain A: E.18, R.26, V.27, R.28, E.47, K.49, H.115 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.18, A:R.28, A:R.28, A:R.28, A:E.47 GOL.5: 3 residues within 4Å: Chain A: F.274, R.275, A.284 No protein-ligand interaction detected (PLIP)

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 3 residues within 4Å: Chain A: G.157, E.158, P.190 No protein-ligand interaction detected (PLIP) EDO.7: 6 residues within 4Å: Chain A: R.29, L.44, W.120, Q.255, G.257 Ligands: FJE.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.255, A:G.257

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Meyers, J. et al., Privileged Structures and Polypharmacology within and between Protein Families. ACS Med Chem Lett (2018)

Release Date

2018-11-28

Peptides

Pirin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Pirin

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