7XU8

Structure of the complex of camel peptidoglycan recognition protein-short (PGRP-S) with heptanoic acid at 2.15 A resolution.

Replaces:  3UML

Summary for 7XU8

• Entry DOI: 10.2210/pdb7xu8/pdb
• Descriptor: Peptidoglycan recognition protein 1, 1,2-ETHANEDIOL, HYDROGEN PEROXIDE, ... (8 entities in total)
• Functional Keywords: cpgrp-s, innate immune system, immune system
• Biological source: Camelus dromedarius (Arabian camel)
• Total number of polymer chains: 4
• Total formula weight: 76931.60

Authors

Maurya, A.,Ahmad, N.,Viswanathan, V.,Singh, P.K.,Yamini, S.,Sharma, P.,Sinha, M.,Bhushan, A.,Kaur, P.,Sharma, S.,Singh, T.P. (deposition date: 2022-05-18, release date: 2022-06-15, Last modification date: 2024-10-16)

Primary citation

Maurya, A.,Ahmad, N.,Singh, P.K.,Viswanathan, V.,Kaur, P.,Sharma, P.,Sharma, S.,Singh, T.P.
Ligand recognition by peptidoglycan recognition protein-S (PGRP-S): structure of the complex of camel PGRP-S with heptanoic acid at 2.15 angstrom resolution.
Int J Biochem Mol Biol, 13:28-39, 2022

PubMed Abstract: Peptidoglycan recognition proteins (PGRPs) are important components of the innate immune system which provide the first line of defense against invading microbes. There are four members in the family of PGRPs in animals of which PGRP-S is a common domain. It is responsible for the binding to microbial cell wall molecules. In order to understand the mode of binding of PGRP-S to the components of the bacterial cell wall, the structure of the complex of camel PGRP-S (CPGRP-S) with heptanoic acid has been determined at 2.15 Å resolution. The structure determination showed the presence of four crystallographically independent protein molecules which are designated as A, B, C, and D. These four protein molecules associate in the form of two homodimers which are represented as A-B and C-D dimers. The association between molecules A and B gives rise to a shallow cleft on the surface at one end of the dimeric interface. One molecule of heptanoic acid is observed at this binding site in the A-B dimer. The association of C and D molecules results in the formation of a long zig-zag tunnel along with the C-D interface. In the cleft at the C-D interface, three molecules of hydrogen peroxide along with other non-water solvent molecules have been observed. The analysis of the several complexes of CPGRP-S with fatty acids and non-fatty acids such as peptidoglycan, lipopolysaccharide, and lipoteichoic acid shows that the fatty acids bind at the A-B site while non-fatty acids interact through C-D interface.

PubMed: 36188729

Experimental method

X-RAY DIFFRACTION (2.15 Å)