SMTL ID : 5shy.1

Crystal Structure of human phosphodiesterase 10 in complex with [8-[(2-methyl-1,3-thiazol-4-yl)amino]-5-pyridin-3-yl-1,7-naphthyridin-2-yl]methanol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.83, H.117, D.118, D.228 Ligands: MG.2, K.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.83, A:H.117, A:D.118, A:D.228, H2O.2

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.118, H.149 Ligands: ZN.1, K.3 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.118, H2O.1, H2O.2, H2O.2, H2O.3, H2O.3

1 x K: POTASSIUM ION(Non-covalent)

K.3: 5 residues within 4Å: Chain A: H.79, D.118, D.228 Ligands: ZN.1, MG.2 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.79, H2O.1, H2O.2, H2O.3

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: K.61, G.161, N.163 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: R.74, R.122 Ligand excluded by PLIP CL.6: 1 residues within 4Å: Chain A: R.75 Ligand excluded by PLIP

1 x JJR: {8-[(2-methyl-1,3-thiazol-4-yl)amino]-5-(pyridin-3-yl)-1,7-naphthyridin-2-yl}methanol(Non-covalent)

JJR.7: 13 residues within 4Å: Chain A: L.229, S.231, V.232, T.239, T.242, A.243, I.246, Y.247, F.250, M.267, G.279, Q.280, F.283 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.229, A:T.242, A:I.246 Hydrogen bonds: A:Q.280 Water bridges: A:Y.284 pi-Stacking: 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
A

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

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