8PDK: X-ray structure of the Thermus thermophilus PilF-GSPIIB domain in the c-di-GMP bound state

PDB ID: 8PDKDownload
MMDB ID: 248851
PDB Deposition Date: 2023/6/12
Updated in MMDB: 2024/07
Experimental Method:
x-ray diffraction
Resolution: 2  Å
Source Organism:
Similar Structures:
Biological Unit for 8PDK: dimeric; determined by author and by software
Molecular Components in 8PDK
Label Count Molecule
Proteins (2 molecules)
2
C-di-gmp Binding Domain of the Atpase Enzyme Pilf
Molecule annotation
Chemicals and Non-standard biopolymers (22 molecules)
1
2
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)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)
2
7
SULFATE IONSULFATE ION
3
13
ACETATE IONACETATE ION
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303