5NGH

Structure of Odorant Binding Protein 3 from Giant Panda (Ailuropoda melanoleuca)

Summary for 5NGH

• Entry DOI: 10.2210/pdb5ngh/pdb
• Descriptor: Odorant Binding Protein 3, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL (3 entities in total)
• Functional Keywords: odorant binding protein giant panda ailuropoda melanoleuca, protein binding
• Biological source: Ailuropoda melanoleuca (Giant panda)
• Total number of polymer chains: 1
• Total formula weight: 19916.23

Authors

Cambillau, C.,Spinelli, S.,Pelosi, P. (deposition date: 2017-03-17, release date: 2017-11-01, Last modification date: 2024-11-20)

Primary citation

Zhu, J.,Arena, S.,Spinelli, S.,Liu, D.,Zhang, G.,Wei, R.,Cambillau, C.,Scaloni, A.,Wang, G.,Pelosi, P.
Reverse chemical ecology: Olfactory proteins from the giant panda and their interactions with putative pheromones and bamboo volatiles.
Proc. Natl. Acad. Sci. U.S.A., 114:E9802-E9810, 2017

PubMed Abstract: The giant panda belongs to the family of Ursidae; however, it is not carnivorous, feeding almost exclusively on bamboo. Being equipped with a typical carnivorous digestive apparatus, the giant panda cannot get enough energy for an active life and spends most of its time digesting food or sleeping. Feeding and mating are both regulated by odors and pheromones; therefore, a better knowledge of olfaction at the molecular level can help in designing strategies for the conservation of this species. In this context, we have identified the odorant-binding protein (OBP) repertoire of the giant panda and mapped the protein expression in nasal mucus and saliva through proteomics. Four OBPs have been identified in nasal mucus, while the other two were not detected in the samples examined. In particular, AimelOBP3 is similar to a subset of OBPs reported as pheromone carriers in the urine of rodents, saliva of the boar, and seminal fluid of the rabbit. We expressed this protein, mapped its binding specificity, and determined its crystal structure. Structural data guided the design and preparation of three protein mutants bearing single-amino acid replacements in the ligand-binding pocket, for which the corresponding binding affinity spectra were measured. We also expressed AimelOBP5, which is markedly different from AimelOBP3 and complementary in its binding spectrum. By comparing our binding data with the structures of bamboo volatiles and those of typical mammalian pheromones, we formulate hypotheses on which may be the most relevant semiochemicals for the giant panda.

PubMed: 29078359
DOI: 10.1073/pnas.1711437114

Experimental method

X-RAY DIFFRACTION (2.8 Å)