5VES

The 2.4A crystal structure of OmpA domain of OmpA from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S

Summary for 5VES

• Entry DOI: 10.2210/pdb5ves/pdb
• Related: 4ERH
• Descriptor: Outer membrane protein A, SULFATE ION (3 entities in total)
• Functional Keywords: structural genomics, psi-biology, protein structure initiative, midwest center for structural genomics, mcsg, program for the characterization of secreted effector proteins, pcsep, membrane protein
• Biological source: Salmonella typhimurium (strain 14028s / SGSC 2262)
• Total number of polymer chains: 2
• Total formula weight: 32593.92

Authors

Tan, K.,Wu, R.,Jedrzejczak, R.,Adkins, J.,Joachimiak, A.,Midwest Center for Structural Genomics (MCSG),Program for the Characterization of Secreted Effector Proteins (PCSEP) (deposition date: 2017-04-05, release date: 2017-04-19, Last modification date: 2024-11-20)

Primary citation

Tan, K.,Deatherage Kaiser, B.L.,Wu, R.,Cuff, M.,Fan, Y.,Bigelow, L.,Jedrzejczak, R.P.,Adkins, J.N.,Cort, J.R.,Babnigg, G.,Joachimiak, A.
Insights into PG-binding, conformational change, and dimerization of the OmpA C-terminal domains from Salmonella enterica serovar Typhimurium and Borrelia burgdorferi.
Protein Sci., 26:1738-1748, 2017

PubMed Abstract: Salmonella enterica serovar Typhimurium can induce both humoral and cell-mediated responses when establishing itself in the host. These responses are primarily stimulated against the lipopolysaccharide and major outer membrane (OM) proteins. OmpA is one of these major OM proteins. It comprises a N-terminal eight-stranded β-barrel transmembrane domain and a C-terminal domain (OmpA ). The OmpA and its homologs are believed to bind to peptidoglycan (PG) within the periplasm, maintaining bacterial osmotic homeostasis and modulating the permeability and integrity of the OM. Here we present the first crystal structures of the OmpA from two pathogens: S. typhimurium (STOmpA ) in open and closed forms and causative agent of Lyme Disease Borrelia burgdorferi (BbOmpA ), in closed form. In the open form of STOmpA , an aspartate residue from a long β2-α3 loop points into the binding pocket, suggesting that an anion group such as a carboxylate group from PG is favored at the binding site. In the closed form of STOmpA and in the structure of BbOmpA , a sulfate group from the crystallization buffer is tightly bound at the binding site. The differences between the closed and open forms of STOmpA , suggest a large conformational change that includes an extension of α3 helix by ordering a part of β2-α3 loop. We propose that the sulfate anion observed in these structures mimics the carboxylate group of PG when bound to STOmpA suggesting PG-anchoring mechanism. In addition, the binding of PG or a ligand mimic may enhance dimerization of STOmpA , or possibly that of full length STOmpA.

PubMed: 28580643
DOI: 10.1002/pro.3209

Experimental method

X-RAY DIFFRACTION (2.4 Å)