SMTL ID : 5m3c.1

Structure of the hybrid domain (GGDEF-EAL) of PA0575 from Pseudomonas aeruginosa PAO1 at 2.8 Ang. with GTP and Ca2+ bound to the active site of the GGDEF domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

5 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: E.210, N.269, E.301, D.331 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.210, A:E.301, A:D.331 CA.2: 5 residues within 4Å: Chain A: D.41, L.42, D.84 Ligands: CA.3, GTP.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.41, A:L.42, A:D.84 CA.3: 5 residues within 4Å: Chain A: D.41, D.84, E.85 Ligands: CA.2, GTP.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.41, A:D.84, A:E.85 CA.5: 5 residues within 4Å: Chain B: D.41, L.42, D.84, K.154 Ligands: GTP.7 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.41, B:L.42, B:D.84 CA.6: 4 residues within 4Å: Chain B: E.210, N.269, E.301, D.331 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.210, B:E.301, B:D.331

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.4: 18 residues within 4Å: Chain A: L.8, D.41, L.42, R.44, F.45, K.46, N.49, H.54, G.57, D.58, L.61, R.80, G.83, D.84, K.154, R.158 Ligands: CA.2, CA.3 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:D.41, A:R.44, A:F.45, A:K.46, A:N.49, A:N.49, A:R.80, A:R.80 Salt bridges: A:D.58, A:K.154, A:R.158 pi-Cation interactions: A:H.54 GTP.7: 17 residues within 4Å: Chain B: D.41, L.42, D.43, R.44, F.45, K.46, N.49, H.54, G.57, D.58, L.61, R.80, G.83, D.84, K.154, R.158 Ligands: CA.5 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:D.43, B:R.44, B:F.45, B:K.46, B:N.49, B:N.49, B:R.80, B:R.80 Water bridges: B:D.41 Salt bridges: B:D.58, B:K.154, B:R.158 pi-Cation interactions: B:H.54

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mantoni, F. et al., Insights into the GTP-dependent allosteric control of c-di-GMP hydrolysis from the crystal structure of PA0575 protein from Pseudomonas aeruginosa. FEBS J. (2018)

Release Date

2017-12-20

Peptides

Diguanylate cyclase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Diguanylate cyclase