SMTL ID : 4hjf.1

EAL domain of phosphodiesterase PdeA in complex with c-di-GMP and Ca++

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: E.108, N.169, E.201, D.231 Ligands: C2E.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.108, A:E.201, A:D.231, H2O.1 CA.2: 4 residues within 4Å: Chain A: D.231, D.232, E.288 Ligands: C2E.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.231, A:E.288, A:E.288

1 x C2E: 9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one)(Non-covalent)

C2E.3: 21 residues within 4Å: Chain A: Q.94, E.108, L.110, A.111, R.112, P.123, D.124, L.127, M.143, N.169, S.171, D.231, D.232, R.255, E.288, G.289, E.291, G.309, F.310 Ligands: CA.1, CA.2 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:Q.94, A:A.111, A:R.112, A:N.169, A:N.169, A:S.171, A:R.255, A:G.289, A:F.310 Water bridges: A:N.169, A:D.232, A:D.232, A:D.232, A:E.291 Salt bridges: A:R.112, A:E.291 pi-Stacking: A:F.310 pi-Cation interactions: A:F.310

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Filippova, E.V. et al., Crystal structure of EAL domain from Caulobacter crescentus in complex with c-di-GMP and Ca. TO BE PUBLISHED

Release Date

2012-10-31

Peptides

GGDEF family protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GGDEF family protein