3EZJ

Crystal structure of the N-terminal domain of the secretin GspD from ETEC determined with the assistance of a nanobody

Summary for 3EZJ

• Entry DOI: 10.2210/pdb3ezj/pdb
• Descriptor: General secretion pathway protein GspD, NANOBODY NBGSPD_7, PHOSPHATE ION, ... (5 entities in total)
• Functional Keywords: general secretory pathway, secretin, single chain antibody, protein transport, immune system, complex
• Biological source: Escherichia coli; More
• Total number of polymer chains: 8
• Total formula weight: 160804.99

Authors

Korotkov, K.V.,Pardon, E.,Steyaert, J.,Hol, W.G. (deposition date: 2008-10-22, release date: 2009-02-17, Last modification date: 2024-10-30)

Primary citation

Korotkov, K.V.,Pardon, E.,Steyaert, J.,Hol, W.G.
Crystal structure of the N-terminal domain of the secretin GspD from ETEC determined with the assistance of a nanobody.
Structure, 17:255-265, 2009

PubMed Abstract: Secretins are among the largest bacterial outer membrane proteins known. Here we report the crystal structure of the periplasmic N-terminal domain of GspD (peri-GspD) from the type 2 secretion system (T2SS) secretin in complex with a nanobody, the VHH domain of a heavy-chain camelid antibody. Two different crystal forms contained the same compact peri-GspD:nanobody heterotetramer. The nanobody contacts peri-GspD mainly via CDR3 and framework residues. The peri-GspD structure reveals three subdomains, with the second and third subdomains exhibiting the KH fold which also occurs in ring-forming proteins of the type 3 secretion system. The first subdomain of GspD is related to domains in phage tail proteins and outer membrane TonB-dependent receptors. A dodecameric peri-GspD model is proposed in which a solvent-accessible beta strand of the first subdomain interacts with secreted proteins and/or T2SS partner proteins by beta strand complementation.

PubMed: 19217396
DOI: 10.1016/j.str.2008.11.011

Experimental method

X-RAY DIFFRACTION (2.8 Å)