SMTL ID : 3pju.1

Structure of Pseudomonas fluorescence LapD EAL domain complexed with c-di-GMP, P6522

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 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.1: 22 residues within 4Å: Chain A: Q.32, K.47, L.49, S.50, R.51, P.61, A.62, G.63, L.66, D.79, M.82, L.99, N.100, S.102, Q.161, R.162, R.219, V.220, E.221, G.239, Q.240, P.245 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:Q.32, A:S.50, A:R.51, A:G.63, A:N.100, A:S.102, A:Q.161, A:Q.161, A:R.162, A:R.162, A:R.219, A:E.221, A:Q.240 Water bridges: A:N.100, A:N.100, A:R.219, A:R.219, A:E.221, A:Q.240, A:Q.240, A:Q.240 Salt bridges: A:K.47, A:R.51, A:D.79, A:R.162, A:E.221 pi-Cation interactions: A:K.47 C2E.2: 22 residues within 4Å: Chain B: Q.32, K.47, L.49, S.50, R.51, P.61, A.62, G.63, L.66, D.79, M.82, L.99, N.100, S.102, Q.161, R.162, R.219, V.220, E.221, G.239, Q.240, P.245 26 PLIP interactions: 26 interactions with chain B Hydrogen bonds: B:Q.32, B:S.50, B:R.51, B:G.63, B:N.100, B:S.102, B:Q.161, B:Q.161, B:R.162, B:R.162, B:R.219, B:Q.240 Water bridges: B:N.100, B:N.100, B:R.219, B:R.219, B:E.221, B:Q.240, B:Q.240, B:Q.240 Salt bridges: B:K.47, B:R.51, B:D.79, B:R.162, B:E.221 pi-Cation interactions: B:K.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Navarro, M.V. et al., Structural Basis for c-di-GMP-Mediated Inside-Out Signaling Controlling Periplasmic Proteolysis. Plos Biol. (2011)

Release Date

2011-02-09

Peptides

Cyclic dimeric GMP binding protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cyclic dimeric GMP binding protein

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