SMTL ID : 4zmm.1

GGDEF domain of Dcsbis complexed with c-di-GMP

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: 18 residues within 4Å: Chain A: A.131, L.132, R.133, D.136, V.150, R.151, R.153, E.157, M.160, I.161, R.164 Chain B: A.130, A.131, L.132, R.133, P.134, R.164 Ligands: C2E.2 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.133, A:R.133, A:R.151, A:R.164, A:R.164, B:R.133, B:R.164 Water bridges: A:R.133, A:R.133, A:R.151 Salt bridges: A:R.133, A:D.136, A:R.153 pi-Cation interactions: A:R.133, A:R.133 C2E.2: 17 residues within 4Å: Chain A: A.130, A.131, L.132, R.133, P.134, R.164 Chain B: L.132, R.133, D.136, V.150, R.151, R.153, E.157, M.160, I.161, R.164 Ligands: C2E.1 14 PLIP interactions: 3 interactions with chain A, 11 interactions with chain B Hydrogen bonds: A:R.133, A:R.164, B:R.133, B:R.151, B:R.164, B:R.164 pi-Cation interactions: A:R.164, B:R.133 Water bridges: B:R.133, B:R.133, B:R.151 Salt bridges: B:R.133, B:D.136, B:R.153

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Y. et al., Crystal structure of Dcsbis GGDEF domain complexed with c-di-GMP. To Be Published

Release Date

2016-05-04

Peptides

diguanylate cyclase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

diguanylate cyclase