1HD1
HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN D0 (HNRNP D0 RBD1), NMR
Summary for 1HD1
| Entry DOI | 10.2210/pdb1hd1/pdb |
| Related | 1HD0 |
| Descriptor | PROTEIN (HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN D0) (1 entity in total) |
| Functional Keywords | rna-binding domain, rna binding protein |
| Biological source | Homo sapiens (human) |
| Total number of polymer chains | 1 |
| Total formula weight | 8572.93 |
| Authors | Nagata, T.,Kurihara, Y.,Matsuda, G.,Saeki, J.,Kohno, T.,Yanagida, Y.,Ishikawa, F.,Uesugi, S.,Katahira, M. (deposition date: 1999-05-18, release date: 2000-05-18, Last modification date: 2023-12-27) |
| Primary citation | Nagata, T.,Kurihara, Y.,Matsuda, G.,Saeki, J.,Kohno, T.,Yanagida, Y.,Ishikawa, F.,Uesugi, S.,Katahira, M. Structure and interactions with RNA of the N-terminal UUAG-specific RNA-binding domain of hnRNP D0. J.Mol.Biol., 287:221-237, 1999 Cited by PubMed Abstract: Heterogeneous nuclear ribonucleoprotein (hnRNP) D0 has two ribonucleoprotein (RNP)-type RNA-binding domains (RBDs), each of which can bind solely to the UUAG sequence specifically. The structure of the N-terminal RBD (RBD1) determined by NMR is presented here. It folds into a compact alphabeta structure comprising a four-stranded antiparallel beta-sheet packed against two alpha-helices, which is characteristic of the RNP-type RBDs. Special structural features of RBD1 include N-capping boxes for both alpha-helices, a beta-bulge in the second beta-strand, and an additional short antiparallel beta-sheet coupled with a beta-turn-like structure in a loop. Two hydrogen bonds which restrict the positions of loops were identified. Backbone resonance assignments for RBD1 complexed with r(UUAGGG) revealed that the overall folding is maintained in the complex. The candidate residues involved in the interactions with RNA were identified by chemical shift perturbation analysis. They are located in the central and peripheral regions of the RNA-binding surface composed of the four-stranded beta-sheet, loops, and the C-terminal region. It is suggested that non-specific interactions with RNA are performed by the residues in the central region of the RNA-binding surface, while specific interactions are performed by those in the peripheral regions. It was also found that RBD1 has the ability to inhibit the formation of the quadruplex structure. PubMed: 10080887DOI: 10.1006/jmbi.1999.2616 PDB entries with the same primary citation |
| Experimental method | SOLUTION NMR |
Structure validation
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