SMTL ID : 2rde.1

Crystal structure of VCA0042 complexed with c-di-GMP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.92 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: 17 residues within 4Å: Chain A: I.95, L.134, R.135, K.136, R.139, D.161, L.162, S.163, S.165, G.166, C.167, R.168, C.206, N.207, G.218, L.219, E.220 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:R.135, A:K.136, A:S.163, A:S.163, A:N.207, A:L.219 Water bridges: A:R.93, A:K.136, A:R.139, A:R.139, A:R.139, A:R.139, A:R.139, A:D.161, A:R.168, A:R.168, A:R.168, A:R.168, A:R.168 Salt bridges: A:R.139, A:D.161 pi-Cation interactions: A:R.139, A:R.139 C2E.2: 17 residues within 4Å: Chain B: I.95, L.134, R.135, K.136, R.139, D.161, L.162, S.163, S.165, G.166, C.167, R.168, C.206, N.207, G.218, L.219, E.220 23 PLIP interactions: 23 interactions with chain B Hydrogen bonds: B:R.135, B:K.136, B:R.139, B:R.139, B:S.163, B:S.163, B:N.207 Water bridges: B:K.136, B:K.136, B:K.136, B:R.139, B:D.161, B:S.165, B:R.168, B:R.168, B:R.168, B:R.168, B:R.168 Salt bridges: B:K.136, B:R.139, B:D.161 pi-Cation interactions: B:R.139, B:R.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Benach, J. et al., The structural basis of cyclic diguanylate signal transduction by PilZ domains. Embo J. (2007)

Release Date

2007-10-30

Peptides

Uncharacterized protein VCA0042: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Uncharacterized protein VCA0042