SMTL ID : 5skf.2 (3 other biounits)

CRYSTAL STRUCTURE OF HUMAN PHOSPHODIESTERASE 10 IN COMPLEX WITH C1(=NN(C=CC1=O)c2cccc3c2OC(O3)(F)F)c4ccnn4c5cccc(c5)C#N, micromolar IC50=0.080428

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.83, H.117, D.118, D.228 Ligands: MG.2 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.83, A:H.117, A:D.118, A:D.228, H2O.2, H2O.4

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: D.118, E.146 Ligands: ZN.1 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.118, H2O.1, H2O.2, H2O.2, H2O.4, H2O.4

5 x PR: PRASEODYMIUM ION(Non-covalent)(Non-functional Binders)

PR.3: 2 residues within 4Å: Chain A: K.307, D.311 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.311, H2O.1, H2O.6, H2O.6 PR.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PR.5: 2 residues within 4Å: Chain A: E.160 Ligands: PR.7 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.160 PR.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PR.7: 2 residues within 4Å: Chain A: E.160 Ligands: PR.5 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.160, H2O.1

1 x KF9: 3-{5-[1-(2,2-difluoro-2H-1,3-benzodioxol-4-yl)-4-oxo-1,4-dihydropyridazin-3-yl]-1H-pyrazol-1-yl}benzonitrile(Non-covalent)

KF9.8: 14 residues within 4Å: Chain A: Y.78, H.79, T.187, L.189, D.228, L.229, S.231, V.232, I.246, F.250, M.267, Q.280, F.283, V.287 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.189, A:L.229, A:V.232, A:I.246, A:I.246, A:F.250, A:F.283, A:F.283 Hydrogen bonds: A:Y.78, A:Q.280 pi-Stacking: A:F.250, A:F.283

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Flohr, A. et al., Crystal Structure of a human phosphodiesterase 10 complex. To be published

Release Date

2022-10-12

Peptides

cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A

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