2DPN
Crystal Structure of the glycerol kinase from Thermus thermophilus HB8
Summary for 2DPN
| Entry DOI | 10.2210/pdb2dpn/pdb |
| Descriptor | Glycerol kinase (2 entities in total) |
| Functional Keywords | thermus thermophilus hb8, structural genomics, nppsfa, national project on protein structural and functional analyses, riken structural genomics/proteomics initiative, rsgi, transferase |
| Biological source | Thermus thermophilus |
| Total number of polymer chains | 2 |
| Total formula weight | 106810.01 |
| Authors | Asada, Y.,Sugahara, M.,Kunishima, N.,RIKEN Structural Genomics/Proteomics Initiative (RSGI) (deposition date: 2006-05-12, release date: 2006-11-12, Last modification date: 2023-10-25) |
| Primary citation | Sugahara, M.,Asada, Y.,Morikawa, Y.,Kageyama, Y.,Kunishima, N. Nucleant-mediated protein crystallization with the application of microporous synthetic zeolites. Acta Crystallogr.,Sect.D, 64:686-695, 2008 Cited by PubMed Abstract: Protein crystallization is still a major bottleneck in structural biology. As the current methodology of protein crystallization is a type of screening, it is usually difficult to crystallize important target proteins. It was thought that hetero-epitaxic growth from the surface of a mineral crystal acting as a nucleant would be an effective enhancer of protein crystallization. However, in spite of almost two decades of effort, a generally applicable hetero-epitaxic nucleant for protein crystallization has yet to be found. Here we introduce the first candidate for a universal hetero-epitaxic nucleant, microporous zeolite: a synthetic aluminosilicate crystalline polymer with regular micropores. It promotes a form-selective crystal nucleation of proteins and acts as a crystallization catalyst. The most successful zeolite nucleant was molecular sieve type 5A with a pore size of 5 A and with bound Ca2+ ions. The zeolite-mediated crystallization improved the crystal quality in five out of six proteins tested. It provided new crystal forms with better resolution in two cases, larger crystals in one case, and zeolite-dependent crystal formations in two cases. The hetero-epitaxic growth of the zeolite-mediated crystals was confirmed by a crystal-packing analysis which revealed a layer-like structure in the crystal lattice. PubMed: 18560157DOI: 10.1107/S0907444908009980 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.8 Å) |
Structure validation
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