SMTL ID : 3kkt.3 (2 other biounits)

Crystal structure of human PDE4b with 5-[3-[(1S,2S,4R)-Bicyclo[2.2.1]hept-2-yloxy]-4-methoxyp henyl]tetrahydro-2(1H)-pyrimidinone reveals ordering of the C-terminal helix residues 502-509.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.48 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.108, H.144, D.145, D.262 Ligands: MG.3 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.108, A:H.144, A:D.145, A:D.262, H2O.1, H2O.1 ZN.4: 4 residues within 4Å: Chain B: H.108, H.144, D.145, D.262 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.108, B:H.144, B:D.145, B:D.262, H2O.2, H2O.2

2 x 0CP: 5-{3-[(1S,2S,4R)-bicyclo[2.2.1]hept-2-yloxy]-4-methoxyphenyl}tetrahydropyrimidin-2(1H)-one(Non-covalent)

0CP.2: 15 residues within 4Å: Chain A: Y.103, M.217, L.263, N.265, Y.273, T.277, I.280, M.281, F.284, S.312, Q.313, F.316, L.372, M.373 Ligands: MG.3 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.280, A:F.316, A:F.316, A:F.316, A:L.372 Hydrogen bonds: A:Q.313 0CP.5: 14 residues within 4Å: Chain B: Y.103, M.217, L.263, N.265, Y.273, T.277, I.280, F.284, S.312, Q.313, F.316, L.372, M.373, F.376 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:Y.103, B:Y.103, B:I.280, B:I.280, B:F.284, B:F.316, B:F.316, B:F.376 Hydrogen bonds: B:Q.313

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.145 Ligands: ZN.1, 0CP.2 No protein-ligand interaction detected (PLIP) MG.7: 4 residues within 4Å: Chain B: H.144, D.145, E.174, H.177 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.145, H2O.2, H2O.2, H2O.2, H2O.2

1 x B3P: 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

B3P.6: 3 residues within 4Å: Chain B: H.98, D.147, P.149 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cheng, R.K.Y. et al., Crystal structure of human PDE4b with 5-[3-[(1S,2S,4R)-Bicyclo[2.2.1]hept-2-yloxy]-4-methoxyp henyl]tetrahydro-2(1H)-pyrimidinone reveals ordering of the C-terminal helix residues 502-509. To be Published

Release Date

2009-11-24

Peptides

cAMP-specific 3',5'-cyclic phosphodiesterase 4B: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

cAMP-specific 3',5'-cyclic phosphodiesterase 4B

Related Entries With Identical Sequence