4P3K

Structure of ancestral PyrR protein (PLUMPyrR)

Summary for 4P3K

• Entry DOI: 10.2210/pdb4p3k/pdb
• Descriptor: Ancestral PyrR protein (Plum), SULFATE ION, SODIUM ION, ... (5 entities in total)
• Functional Keywords: rna binding proteins, reconstructed amino acid sequence, unknown function
• Biological source: synthetic construct
• Total number of polymer chains: 1
• Total formula weight: 20535.50

Authors

Perica, T.,Kondo, Y.,Tiwari, S.,McLaughlin, S.,Steward, A.,Reuter, N.,Clarke, J.,Teichmann, S.A. (deposition date: 2014-03-08, release date: 2014-12-17, Last modification date: 2023-12-27)

Primary citation

Perica, T.,Kondo, Y.,Tiwari, S.P.,McLaughlin, S.H.,Kemplen, K.R.,Zhang, X.,Steward, A.,Reuter, N.,Clarke, J.,Teichmann, S.A.
Evolution of oligomeric state through allosteric pathways that mimic ligand binding.
Science, 346:1254346-1254346, 2014

PubMed Abstract: Evolution and design of protein complexes are almost always viewed through the lens of amino acid mutations at protein interfaces. We showed previously that residues not involved in the physical interaction between proteins make important contributions to oligomerization by acting indirectly or allosterically. In this work, we sought to investigate the mechanism by which allosteric mutations act, using the example of the PyrR family of pyrimidine operon attenuators. In this family, a perfectly sequence-conserved helix that forms a tetrameric interface is exposed as solvent-accessible surface in dimeric orthologs. This means that mutations must be acting from a distance to destabilize the interface. We identified 11 key mutations controlling oligomeric state, all distant from the interfaces and outside ligand-binding pockets. Finally, we show that the key mutations introduce conformational changes equivalent to the conformational shift between the free versus nucleotide-bound conformations of the proteins.

PubMed: 25525255
DOI: 10.1126/science.1254346

Experimental method

X-RAY DIFFRACTION (1.7 Å)