2LEG

Membrane protein complex DsbB-DsbA structure by joint calculations with solid-state NMR and X-ray experimental data

Summary for 2LEG

• Entry DOI: 10.2210/pdb2leg/pdb
• Related: 2hi7
• NMR Information: BMRB: 17710
• Descriptor: Thiol:disulfide interchange protein DsbA, Disulfide bond formation protein B, ZINC ION, ... (4 entities in total)
• Functional Keywords: disulfide bond, membrane protein, redox-active center, cell inner membrane, cell membrane, chaperone, electron transport, membrane, oxidoreductase, transmembrane, transport
• Biological source: Escherichia coli; More
• Cellular location: Periplasm: P0AEG4; Cell inner membrane; Multi-pass membrane protein: P0A6M2
• Total number of polymer chains: 2
• Total formula weight: 41545.64

Authors

Tang, M.,Sperling, L.J.,Berthold, D.A.,Schwieters, C.D.,Nesbitt, A.E.,Nieuwkoop, A.J.,Gennis, R.B.,Rienstra, C.M. (deposition date: 2011-06-15, release date: 2011-10-26, Last modification date: 2024-11-06)

Primary citation

Tang, M.,Sperling, L.J.,Berthold, D.A.,Schwieters, C.D.,Nesbitt, A.E.,Nieuwkoop, A.J.,Gennis, R.B.,Rienstra, C.M.
High-resolution membrane protein structure by joint calculations with solid-state NMR and X-ray experimental data.
J.Biomol.Nmr, 51:227-233, 2011

PubMed Abstract: X-ray diffraction and nuclear magnetic resonance spectroscopy (NMR) are the staple methods for revealing atomic structures of proteins. Since crystals of biomolecular assemblies and membrane proteins often diffract weakly and such large systems encroach upon the molecular tumbling limit of solution NMR, new methods are essential to extend structures of such systems to high resolution. Here we present a method that incorporates solid-state NMR restraints alongside of X-ray reflections to the conventional model building and refinement steps of structure calculations. Using the 3.7 Å crystal structure of the integral membrane protein complex DsbB-DsbA as a test case yielded a significantly improved backbone precision of 0.92 Å in the transmembrane region, a 58% enhancement from using X-ray reflections alone. Furthermore, addition of solid-state NMR restraints greatly improved the overall quality of the structure by promoting 22% of DsbB transmembrane residues into the most favored regions of Ramachandran space in comparison to the crystal structure. This method is widely applicable to any protein system where X-ray data are available, and is particularly useful for the study of weakly diffracting crystals.

PubMed: 21938394
DOI: 10.1007/s10858-011-9565-6

Experimental method

SOLID-STATE NMR