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| | ==LOW RESOLUTION SOLUTION STRUCTURE OF THE TWO DNA-BINDING DOMAINS IN Schizosaccharomyces pombe ABP1 PROTEIN== | | ==LOW RESOLUTION SOLUTION STRUCTURE OF THE TWO DNA-BINDING DOMAINS IN Schizosaccharomyces pombe ABP1 PROTEIN== |
| - | <StructureSection load='1iuf' size='340' side='right'caption='[[1iuf]], [[NMR_Ensembles_of_Models | 1 NMR models]]' scene=''> | + | <StructureSection load='1iuf' size='340' side='right'caption='[[1iuf]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[1iuf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Cbs_356 Cbs 356]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IUF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IUF FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[1iuf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IUF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IUF FirstGlance]. <br> |
| - | </td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1iuf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iuf OCA], [http://pdbe.org/1iuf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1iuf RCSB], [http://www.ebi.ac.uk/pdbsum/1iuf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1iuf ProSAT], [http://www.topsan.org/Proteins/RSGI/1iuf TOPSAN]</span></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr> |
| | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1iuf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iuf OCA], [https://pdbe.org/1iuf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1iuf RCSB], [https://www.ebi.ac.uk/pdbsum/1iuf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1iuf ProSAT], [https://www.topsan.org/Proteins/RSGI/1iuf TOPSAN]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/ABP1_SCHPO ABP1_SCHPO]] Binds, preferentially, to the Maundrell ARS consensus sequence within ARS3002. | + | [https://www.uniprot.org/uniprot/ABP1_SCHPO ABP1_SCHPO] Binds, preferentially, to the Maundrell ARS consensus sequence within ARS3002. |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Cbs 356]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Iwahara, J]] | + | [[Category: Schizosaccharomyces pombe]] |
| - | [[Category: Kigawa, T]] | + | [[Category: Iwahara J]] |
| - | [[Category: Kikuchi, J]] | + | [[Category: Kigawa T]] |
| - | [[Category: Murakami, Y]] | + | [[Category: Kikuchi J]] |
| - | [[Category: Okazaki, T]] | + | [[Category: Murakami Y]] |
| - | [[Category: Structural genomic]]
| + | [[Category: Okazaki T]] |
| - | [[Category: Yokoyama, S]] | + | [[Category: Yokoyama S]] |
| - | [[Category: Centromere]]
| + | |
| - | [[Category: Dna binding protein]]
| + | |
| - | [[Category: Rsgi]]
| + | |
| Structural highlights
Function
ABP1_SCHPO Binds, preferentially, to the Maundrell ARS consensus sequence within ARS3002.
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
We have solved the solution structure of the N-terminal region of the fission yeast centromere protein, Abp1, bound to a 21-base pair DNA fragment bearing its recognition site (Mw = 30 kDa). Although the two DNA-binding domains in the Abpl protein were defined well by a conventional NOE-based NMR methodology, the overall structure of the Abpl protein was poorly defined, due to the lack of interdomain distance restraints. Therefore, we additionally used residual dipolar couplings measured in a weakly aligned state, and rotational diffusion anisotropies. Neither the NH residual dipolar couplings nor the backbone 15N T1/T2 data were sufficient to determine the overall structure of the Abpl protein, due to spectral overlap. We used a combination of these two orientational restraints (residual dipolar coupling and rotational diffusion anisotropy), which significantly improved the convergence of the overall structures. The range of the observed T1/T2 ratios was wider (20-50 for the secondary structure regions of Abp 1) than the previously reported data for several globular proteins, indicating that the overall shape of the Abp1.DNA complex is ellipsoid. This extended form would facilitate the recognition of the two separate sites in the relatively long DNA sequence by the DNA-binding domains of Apb1.
Solution structure determination of the two DNA-binding domains in the Schizosaccharomyces pombe Abp1 protein by a combination of dipolar coupling and diffusion anisotropy restraints.,Kikuchi J, Iwahara J, Kigawa T, Murakami Y, Okazaki T, Yokoyama S J Biomol NMR. 2002 Apr;22(4):333-47. PMID:12018481[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Kikuchi J, Iwahara J, Kigawa T, Murakami Y, Okazaki T, Yokoyama S. Solution structure determination of the two DNA-binding domains in the Schizosaccharomyces pombe Abp1 protein by a combination of dipolar coupling and diffusion anisotropy restraints. J Biomol NMR. 2002 Apr;22(4):333-47. PMID:12018481
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